Phage List
Detailed Phage Information
Access detailed information about all phages, or about a particular phage (given its name).
GET /api/phages/?format=api&page=3
{ "count": 29700, "next": "https://phagesdb.org/api/phages/?format=api&page=4", "previous": "https://phagesdb.org/api/phages/?format=api&page=2", "results": [ { "phage_name": "Antsirabe", "old_names": "", "program": { "short_name": "PHIRE", "program_name": "Phage Hunters Integrating Research and Education", "program_blurb": "", "program_URL": "" }, "naming_notes": "Named for the town of where it was found.", "finder_name": "Stephanie and Deborah Jacobs-Sera", "found_city": "Antisrabe", "found_state": "", "found_country": "Madagascar", "found_GPS_lat": "19.863613 S", "found_GPS_long": "47.034241 E", "found_year": 2018, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": true, "discovery_notes": "Enriched and isolated at room temperature. will also grow at 37C.", "isolation_temperature": 22, "growth_notes": "", "pcluster": { "cluster": "G", "temperate": true }, "psubcluster": { "subcluster": "G5" }, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "Does not form mesas.", "seq_finished": true, "date_finished": "2018-07-20", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 1417, "finishing_reactions": 0, "genome_length": 44739, "gcpercent": "69.0", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "CCCGTGGCAT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 66, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Antsirabe_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2019-07-24T15:50:35-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Antsirabe.gbf", "qced_genbank_file_date": "2019-07-24T15:50:35-04:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MN234183", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Antsirabe_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Antsirabe_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Antsirabe.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Antsirabe_Plaque_Thumb_FZy3ilf.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Antsirabe__EMPic_Thumb.jpg", "dnam_file": "https://phagesdb.org/media/dnam/Antsirabe.dnam5", "date_added": "2018-08-28T11:30:22-04:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "AntsNPlants", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "We came up with the name \"AntsNPlants\" because while we were digging for our soil sample, we had to avoid the roots of plants and ants that were crawling around it.", "finder_name": "Hannah Moore & Connor Patch", "found_city": "Longview", "found_state": "TX", "found_country": "USA", "found_GPS_lat": "57.2148 N", "found_GPS_long": "35.2524 W", "found_year": 2018, "p_institution": { "institution_code": "LETO", "institution_name": "LeTourneau University", "institution_logo": "https://phagesdb.org/media/institutions/LeTourneau.png", "institution_url": "http://www.letu.edu/", "institution_city": "Longview", "institution_state": "TX", "institution_country": "United States", "institution_latitude": "32.466083", "institution_longitude": "-94.72640" }, "enriched_sample": true, "discovery_notes": "We found our soil outside of our university's chapel (Belcher). We dug 3 inches under mulch in a garden area to get our sample.", "isolation_temperature": 21, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AntsNPlants_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/AntsNPlants_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/AntsNPlants_EM_Thumb.jpg", "dnam_file": null, "date_added": "2018-11-04T12:05:28-05:00", "date_modified": "2020-09-17T14:10:14-04:00" }, { "phage_name": "Antumbra", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Jalen Tacsiat, Josh Go", "found_city": "Spokane", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2019, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "Found near lake Arthur at Gonzaga University", "isolation_temperature": 2, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Plaques for Penumbra range from 0.2 centimeters to around 1.2 cm", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Antumbra_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Antumbra_EMPic.png", "digest_file": "https://phagesdb.org/media/digestPics/Antumbra_Digest.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Antumbra_Plaque_Thumb_ySwutx4.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Antumbra_EMPic_Thumb.png", "dnam_file": null, "date_added": "2019-05-01T21:37:36-04:00", "date_modified": "2020-09-17T14:11:48-04:00" }, { "phage_name": "Antuna", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I named the phage after my family's last name and the location of my phage collection was by my family's lime tree.", "finder_name": "Kenya Antuna", "found_city": "Pharr", "found_state": "TX", "found_country": "USA", "found_GPS_lat": "26.2037 N", "found_GPS_long": "98.17339 W", "found_year": 2021, "p_institution": { "institution_code": "STXC", "institution_name": "South Texas College", "institution_logo": "https://phagesdb.org/media/institutions/south_texas.jpg", "institution_url": "", "institution_city": "McAllen", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "GA", "temperate": null }, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2022-01-20", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 2327, "finishing_reactions": 0, "genome_length": 38948, "gcpercent": "68.1", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 67, "num_tRNAs": 1, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Antuna_CompleteNotes.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Antuna_Minimal_Final_Ue1YKUr.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Antuna_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Antuna_CoverSheet.docx", "submitted_annotation_date": "2022-04-14T11:11:36-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Antuna.gbf", "qced_genbank_file_date": "2022-04-14T11:11:36-04:00", "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "ON260825", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Antuna.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-11-19T12:25:33-05:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Anubis", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Kyle Jackson", "found_city": "Provo", "found_state": "UT", "found_country": "USA", "found_GPS_lat": "40.252144 N", "found_GPS_long": "111.668972 W", "found_year": 2010, "p_institution": { "institution_code": "BRYO", "institution_name": "Brigham Young University", "institution_logo": "https://phagesdb.org/media/institutions/BYU_seal_copy.gif", "institution_url": "http://home.byu.edu/home/", "institution_city": "Provo", "institution_state": "UT", "institution_country": "USA", "institution_latitude": "40.252020", "institution_longitude": "-111.6492" }, "enriched_sample": true, "discovery_notes": "Riverbank next to Provo River, 2-3 inches in soil,semi-moist", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "A", "temperate": true }, "psubcluster": { "subcluster": "A3" }, "morphotype": "SIPHO", "plaque_notes": "Small,4-5 mm in diameter, somewhat turbid, diameter gets smaller as number pfu's increase", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2014-07-30", "seq_facility": { "short_name": "BYU", "facility_name": "BYU DNA Sequencing Center", "contact_person": "", "shipping_address": "", "facility_website": "" }, "seq_method": { "short_name": "454", "method_name": "454" }, "coverage": 133, "finishing_reactions": null, "genome_length": 50854, "gcpercent": "64.0", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "CGGGTGGTAA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 93, "num_tRNAs": 3, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Anubis_Final_YLVDM9Y.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Anubis_Minimal_Final.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Anubis_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Anubis_CoverSheet.docx", "submitted_annotation_date": "2018-02-13T11:14:51-05:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Anubis_flat_new.txt", "qced_genbank_file_date": "2018-02-13T11:14:51-05:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "KF279418", "refseq_accession": "NC_029018", "plaque_file": "https://phagesdb.org/media/plaquePics/Anubis_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Anubis_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Anubis.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Anubis_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Anubis_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2010-12-07T06:14:40-05:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "AnulusNox", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Latin.\r\nAnulus, meaning \"ring\" and Nox, meaning \"night/dark\". So a rough translation would be dark ring. It's a very literal description of the plaque morphology that piqued my interest in the phage at the very beginning. ", "finder_name": "Justin Collins", "found_city": "Holland", "found_state": "MI", "found_country": "USA", "found_GPS_lat": "42.73077 N", "found_GPS_long": "86.103923 W", "found_year": 2013, "p_institution": { "institution_code": "HOPE", "institution_name": "Hope College", "institution_logo": "https://phagesdb.org/media/institutions/Hope.jpg", "institution_url": "http://www.hope.edu/", "institution_city": "Holland", "institution_state": "MI", "institution_country": "USA", "institution_latitude": "42.788980", "institution_longitude": "-86.10404" }, "enriched_sample": null, "discovery_notes": "Date/Time: 9/1/2013 14:35\r\nAir temp/Humidity: 26.67°C 71%\r\nDepth: Surface - 6.3 cm (gradient) \r\n\r\nSample was taken from a swampy, wetland area. It was dug from the mud a few meters away from the waters edge, however even at that distance the soil was saturated with water. The hole was filling up with water as I was digging. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2013-10-18T11:04:42-04:00", "date_modified": "2020-09-17T14:05:29-04:00" }, { "phage_name": "Anum", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I named my phage anum because i did not have any other names at the top of ny head and i wanted the phage to be named after me because i thought it would be cool to tell people oh look i have a phage named after me.", "finder_name": "Anum mahdi", "found_city": "West Chicago", "found_state": "IL", "found_country": "United States", "found_GPS_lat": "41.666948 N", "found_GPS_long": "88.231414 W", "found_year": 2023, "p_institution": { "institution_code": "BENU", "institution_name": "Benedictine University", "institution_logo": "https://phagesdb.org/media/institutions/PrimaryPNG-red-bl.png", "institution_url": "http://www.ben.edu/", "institution_city": "Lisle", "institution_state": "IL", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "My phage was around 0.001 centimeters and my phage is lysogenic which means it was blurry, and big it was seperated from all the other phages.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Anum_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Anum_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2023-11-28T15:36:17-05:00", "date_modified": "2025-09-23T10:12:22-04:00" }, { "phage_name": "Anyambirtok", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name is two Hungarian words Anyam meaning mother and birtok meaning estate. As it comes from my mothers home. ", "finder_name": "Rebekah Jaquay ", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.337105 N", "found_GPS_long": "80.081183 W", "found_year": 2015, "p_institution": { "institution_code": "STHL", "institution_name": "Seton Hill University", "institution_logo": "https://phagesdb.org/media/institutions/setonhill.jpg", "institution_url": "http://www.setonhill.edu/", "institution_city": "Greensburg", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.310649", "institution_longitude": "-79.55630" }, "enriched_sample": false, "discovery_notes": "Taken from a fire pit at a depth of 0.5 inch into the earth. The sample was a mixture of soil and ash. The soil was a dark brown, and moist, the ash was a slight grey. The fire pit showed recent signs of a fire, with a slight smell of waste. As there where signs of a living organisms. \r\nThe fire pit had sticks, grass, and non organic matter on top of the soil. ", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Turbid plaque that it typically around 4 mm in diameter. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Anyambirtok_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2015-10-13T17:03:19-04:00", "date_modified": "2020-09-17T14:06:27-04:00" }, { "phage_name": "Anyanwu", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I named the phage after me so i just gave it my last name", "finder_name": "Michelle Adanna Anyanwu", "found_city": "Washington", "found_state": "DC", "found_country": "United States of America", "found_GPS_lat": "38.0 N", "found_GPS_long": "77.0 W", "found_year": 2019, "p_institution": { "institution_code": "HWRD", "institution_name": "Howard University", "institution_logo": "https://phagesdb.org/media/institutions/howard_university_logo2.jpg", "institution_url": "http://www.howard.edu/", "institution_city": "Washington", "institution_state": "DC", "institution_country": "USA", "institution_latitude": "38.922905", "institution_longitude": "-77.01943" }, "enriched_sample": true, "discovery_notes": "The sample was collected in the yard of Howard University. It was collected 20 ft south of the Fred. Douglas memorial building aprrox 25 feet from the flag pole.", "isolation_temperature": 76, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2019-09-18T11:03:31-04:00", "date_modified": "2020-09-17T14:11:02-04:00" }, { "phage_name": "Anything7", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Kye Viall", "found_city": "Amherst", "found_state": "MA", "found_country": "United States", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2023, "p_institution": { "institution_code": "UMAS", "institution_name": "University of Massachusetts Amherst", "institution_logo": "https://phagesdb.org/media/institutions/UMassAmherst.png", "institution_url": "", "institution_city": "Amherst", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/anything7_plaque_thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/anything7_empic_thumb.png", "dnam_file": null, "date_added": "2023-04-25T08:01:43-04:00", "date_modified": "2024-02-25T15:28:26-05:00" }, { "phage_name": "Anzano", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I chose the name of this phage because of a small village in Italy where my family is from. ", "finder_name": "Allyson Giso ", "found_city": "Providence", "found_state": "RI", "found_country": "USA", "found_GPS_lat": "41.843333 N", "found_GPS_long": "71.438889 W", "found_year": 2018, "p_institution": { "institution_code": "PROV", "institution_name": "Providence College", "institution_logo": "https://phagesdb.org/media/institutions/providence-college-1-logo-primary.jpg", "institution_url": "http://www.providence.edu/", "institution_city": "Providence", "institution_state": "RI", "institution_country": "USA", "institution_latitude": "41.844145", "institution_longitude": "-71.43463" }, "enriched_sample": true, "discovery_notes": "The enrichment sample was collected from soil on Providence College campus on September 5, 2018. The weather was 83°F and partly cloudy. The enrichment sample was found in brown, sludge-like soil. ", "isolation_temperature": 37, "growth_notes": "", "pcluster": { "cluster": "B", "temperate": false }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Anzano_Plaque.pdf", "em_file": "https://phagesdb.org/media/emPics/Anzano_EMPic.pdf", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Anzano_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2018-12-03T20:48:23-05:00", "date_modified": "2020-09-17T14:10:29-04:00" }, { "phage_name": "Anzhelals", "old_names": "", "program": { "short_name": "MT_BRIC", "program_name": "Montana Tech Bringing Research Into the Classroom ", "program_blurb": "", "program_URL": "" }, "naming_notes": "", "finder_name": "Anzhela Hobereht ", "found_city": "", "found_state": "MT", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": null, "p_institution": { "institution_code": "MTEC", "institution_name": "Montana Technological University", "institution_logo": "https://phagesdb.org/media/institutions/mtechlogo.png", "institution_url": "http://www.mtech.edu/", "institution_city": "Butte", "institution_state": "MT", "institution_country": "USA", "institution_latitude": "46.012558", "institution_longitude": "-112.5576" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2016-12-06T19:06:57-05:00", "date_modified": "2020-09-17T14:07:32-04:00" }, { "phage_name": "AoifeLeo", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Hayla Johnson", "found_city": "Holland", "found_state": "MI", "found_country": "United States", "found_GPS_lat": "42.7697 N", "found_GPS_long": "86.1669 W", "found_year": 2019, "p_institution": { "institution_code": "HOPE", "institution_name": "Hope College", "institution_logo": "https://phagesdb.org/media/institutions/Hope.jpg", "institution_url": "http://www.hope.edu/", "institution_city": "Holland", "institution_state": "MI", "institution_country": "USA", "institution_latitude": "42.788980", "institution_longitude": "-86.10404" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AoifeLeo_Plaque.jpeg", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/AoifeLeo_Digest.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/AoifeLeo_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2019-10-25T01:55:37-04:00", "date_modified": "2022-10-21T07:30:42-04:00" }, { "phage_name": "Aoka", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I named it Aoka because it is the first letter of my first name and last 3 letters of my last name", "finder_name": "Aidan Sasaoka", "found_city": "Pueblo", "found_state": "CO", "found_country": "Pueblo", "found_GPS_lat": "30.346111 N", "found_GPS_long": "104.704722 W", "found_year": 2021, "p_institution": { "institution_code": "CSUP", "institution_name": "Colorado State University-Pueblo", "institution_logo": "https://phagesdb.org/media/institutions/ColorStaPueblo.jpg", "institution_url": "", "institution_city": "Pueblo", "institution_state": "CO", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "I found the phage under an old tree stump. The stump was located in the middle of a grass field", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "FO", "temperate": null }, "psubcluster": null, "morphotype": "", "plaque_notes": "Clear plaques", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2022-01-24", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 1673, "finishing_reactions": 0, "genome_length": 36744, "gcpercent": "68.6", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 11, "overhang_sequence": "TTCGCCCGTTA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 54, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Aoka_CompleteNotes_fr4nRIA.xlsx", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Aoka_Minimal_Final_YIEi14H.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Aoka_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Aoka_CoverSheet_RlRl2yr.docx", "submitted_annotation_date": "2022-06-06T12:57:30-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Aoka_flat.txt", "qced_genbank_file_date": "2022-06-06T12:57:30-04:00", "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "ON755180", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Aoka.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-12-09T10:01:30-05:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "AOKpond", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "It was named after location, Albin O Kuhn Library Pond.", "finder_name": "Charlene Pfinayi & Brandon Asiedu", "found_city": "Catonsville", "found_state": "MD", "found_country": "United States", "found_GPS_lat": "39.255274 N", "found_GPS_long": "76.712488 W", "found_year": 2021, "p_institution": { "institution_code": "UMBC", "institution_name": "University of Maryland, Baltimore County", "institution_logo": "https://phagesdb.org/media/institutions/UMBC_Logo.png", "institution_url": "http://www.umbc.edu/", "institution_city": "Baltimore", "institution_state": "MD", "institution_country": "USA", "institution_latitude": "39.256328", "institution_longitude": "-76.71072" }, "enriched_sample": false, "discovery_notes": "The phage came from moist and dark brown soil collected from the Library pond's soil on 9/14.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "a pale yellow turbid appearance with a circular form and flat elevation. The diameter measured 0.2-.0.4 cm.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Streptomyces", "species": "mirabilis", "strain_name": "NRRL B-2400", "strain_species": { "id": 71, "genus": "Streptomyces", "species_name": "mirabilis", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 71, "genus": "Streptomyces", "species_name": "mirabilis", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AOKpond_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Plaquepicresized.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/G2_S3_AOKpond_Thumb.png", "dnam_file": null, "date_added": "2021-10-11T11:22:36-04:00", "date_modified": "2022-03-16T11:01:37-04:00" }, { "phage_name": "Aonishiki", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named after one of the best rikishi to grace the earth", "finder_name": "Kenton Theobald, William Stoner, Kaiden Plourde", "found_city": "Orono", "found_state": "ME", "found_country": "United States", "found_GPS_lat": "44.89696 N", "found_GPS_long": "68.66852 W", "found_year": 2025, "p_institution": { "institution_code": "UMHC", "institution_name": "University of Maine, Honors College", "institution_logo": "https://phagesdb.org/media/institutions/crest-umaine-honors.jpg", "institution_url": "http://www.honors.umaine.edu/", "institution_city": "Orono", "institution_state": "ME", "institution_country": "USA", "institution_latitude": "44.897979", "institution_longitude": "-68.66874" }, "enriched_sample": true, "discovery_notes": "Found in moist garden soil", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2025-10-24T13:10:34-04:00", "date_modified": "2025-10-24T13:10:34-04:00" }, { "phage_name": "Aotearoa", "old_names": "PlainJane", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I would like the new name of my phage to be \"Aotearoa\", its not an English word though- it means \"New Zealand\" in Maori.\r\n\r\nPreviously, I chose the name PlainJane based on the fact that my phage followed all of the possible 'trends'. For example, it was found as a result of enriching the soil sample, the plaques were nothing too spectacular- small and clear-and the EM revealed it to be of the Siphoviridae morphotype, which is expected of M. smeg- infecting phage. ", "finder_name": "Catherine Meyer ", "found_city": "Auckland ", "found_state": "", "found_country": "New Zealand", "found_GPS_lat": "36.696 S", "found_GPS_long": "174.751556 E", "found_year": 2015, "p_institution": { "institution_code": "MASY", "institution_name": "Massey University", "institution_logo": "https://phagesdb.org/media/institutions/masseyUniversityLogo.png", "institution_url": "http://www.massey.ac.nz/", "institution_city": "Auckland Campus", "institution_state": "", "institution_country": "New Zealand", "institution_latitude": "-40.387504", "institution_longitude": "175.6165" }, "enriched_sample": true, "discovery_notes": "Soil sample was taken from my Grandma's vegetable garden on the 22nd July 2015. The soil was damp as it had rained overnight. There was compost mixed in with the soil. The sample was taken from just below the top-most layer of soil. ", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Clear plaques, 2-5mm after 48hours. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/PlainJane_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/PlainJane_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/PlainJane_Digest.tif", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aotearoa_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Aotearoa_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2015-10-02T12:15:32-04:00", "date_modified": "2020-09-17T14:06:18-04:00" }, { "phage_name": "Ap0103", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Anthony Hoang Pham", "found_city": "Gretna", "found_state": "LA", "found_country": "USA", "found_GPS_lat": "29.901233 N", "found_GPS_long": "90.013783 W", "found_year": 2011, "p_institution": { "institution_code": "XAVU", "institution_name": "Xavier University of Louisiana", "institution_logo": "https://phagesdb.org/media/institutions/Xavier-University-of-Louisiana.jpg", "institution_url": "http://www.xula.edu/", "institution_city": "New Orleans", "institution_state": "LA", "institution_country": "USA", "institution_latitude": "29.964843", "institution_longitude": "-90.10674" }, "enriched_sample": true, "discovery_notes": "Garden soil; some dead plant matter; 1 inch deep into the soil; 85°F (29.4°C); humid air.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "round, approx 0.3cm diameter, mostly clear - some have a turbid halo (assumed a trait of the phage due to streak of halo plaque resulted in clear plaques with some halo and streak of clear plaque also resulted in some plaques with halo)", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Ap0103_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Ap0103_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2011-12-04T07:41:32-05:00", "date_modified": "2017-09-20T13:27:39-04:00" }, { "phage_name": "AP5Beta", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Alex Phillips", "found_city": "Santa Cruz", "found_state": "CA", "found_country": "USA", "found_GPS_lat": "36.99659 N", "found_GPS_long": "122.066852 W", "found_year": 2013, "p_institution": { "institution_code": "UCSC", "institution_name": "University of California, Santa Cruz", "institution_logo": "https://phagesdb.org/media/institutions/UCSC.jpg", "institution_url": "http://www.ucsc.edu/", "institution_city": "Santa Cruz", "institution_state": "CA", "institution_country": "USA", "institution_latitude": "36.991665", "institution_longitude": "-122.0608" }, "enriched_sample": true, "discovery_notes": "UCSC Kresge Garden. Sample was taken from a raised bed used to grow garlic and other perennial plants. I was informed that the soil in that bed had not been tampered with or added to for a long time. PCR analysis suggests this may be a B phage.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/AP5Beta_EMPic.png", "digest_file": "https://phagesdb.org/media/digestPics/AP5Beta_Digest.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/AP5Beta_EMPic_1.png", "dnam_file": null, "date_added": "2013-04-04T13:16:40-04:00", "date_modified": "2017-09-12T10:27:31-04:00" }, { "phage_name": "Apache", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Found near an Army base so it was named after a helicopter.", "finder_name": "Jacob Buchholz", "found_city": "Blue Ridge", "found_state": "GA", "found_country": "USA", "found_GPS_lat": "34.62864 N", "found_GPS_long": "84.09858 W", "found_year": 2021, "p_institution": { "institution_code": "UNGA", "institution_name": "University of North Georgia", "institution_logo": "https://phagesdb.org/media/institutions/UniversityOfNorthGeorgia.jpg", "institution_url": "http://www.ung.edu/", "institution_city": "Dahlonega", "institution_state": "GA", "institution_country": "USA", "institution_latitude": "34.527800", "institution_longitude": "-83.98442" }, "enriched_sample": true, "discovery_notes": "Isolated from light brown dirt that looked like very loose grains.", "isolation_temperature": 34, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "4.7625mm & 1.5875mm, the plaques on this plate differed in size from\r\n4.8mm to 1.6mm and smaller. Some of the plaques had very small\r\nbullseyes unable to be seen by picture, however they all consisted of a\r\ndense ring-like halo that surrounded the whole plaque. The plaques did\r\nnot have defined margins and had a jagged rougher like borders all the\r\nway around the plaque", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Apache_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-12-16T12:36:16-05:00", "date_modified": "2024-02-25T15:28:12-05:00" }, { "phage_name": "Apartment5", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Andrea Pegg", "found_city": "West Lafayette", "found_state": "IN", "found_country": "United States", "found_GPS_lat": "40.425278 N", "found_GPS_long": "40.425278 W", "found_year": 2019, "p_institution": { "institution_code": "PURD", "institution_name": "Purdue University", "institution_logo": "https://phagesdb.org/media/institutions/PURDUE__.jpg", "institution_url": "http://www.purdue.edu/", "institution_city": "West Lafayette", "institution_state": "IN", "institution_country": "USA", "institution_latitude": "40.423954", "institution_longitude": "-86.92116" }, "enriched_sample": false, "discovery_notes": "Taken from dirt around the base of the tree located outside of an apartment complex.", "isolation_temperature": 23, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Medium-Small plaques with distinct edge. Morphology changes with concentration.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2019-10-16T13:16:06-04:00", "date_modified": "2020-09-17T14:11:36-04:00" }, { "phage_name": "Apartmentous", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "It was found by an apartment", "finder_name": "Aaron Williams", "found_city": "Lincoln", "found_state": "NE", "found_country": "United States", "found_GPS_lat": "40.78091 N", "found_GPS_long": "96.62203 W", "found_year": 2022, "p_institution": { "institution_code": "NEBW", "institution_name": "Nebraska Wesleyan University", "institution_logo": "https://phagesdb.org/media/institutions/nwu_logo2.jpg", "institution_url": "http://www.nebrwesleyan.edu/", "institution_city": "Lincoln", "institution_state": "NE", "institution_country": "USA", "institution_latitude": "40.839041", "institution_longitude": "-96.64760" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "paraoxydans", "strain_name": "NWU1", "strain_species": { "id": 45, "genus": "Microbacterium", "species_name": "paraoxydans", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "Isolated by Nebraska Wesleyan University" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 45, "genus": "Microbacterium", "species_name": "paraoxydans", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-11-11T08:58:38-05:00", "date_modified": "2025-07-11T12:34:11-04:00" }, { "phage_name": "Apathy", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named Apathy because phages have no emotions. ", "finder_name": "Daniel Petito, Chiara Dart", "found_city": "Boulder", "found_state": "CO", "found_country": "USA", "found_GPS_lat": "40.002566 N", "found_GPS_long": "105.26125 W", "found_year": 2018, "p_institution": { "institution_code": "UCBO", "institution_name": "University of Colorado Boulder", "institution_logo": "https://phagesdb.org/media/institutions/Colorado.jpg", "institution_url": "http://www.colorado.edu/", "institution_city": "Boulder", "institution_state": "CO", "institution_country": "USA", "institution_latitude": "40.007799", "institution_longitude": "-105.2659" }, "enriched_sample": true, "discovery_notes": "Discovered on CU Campus next to a broken sprinkler head.", "isolation_temperature": 25, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Plaques are about .2 -2 mm, and cloudy indicating a temperate phage. Plaques exhibit a unique comet shaped morphology.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Apathy_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Apathy_EMPic.TIF", "digest_file": "https://phagesdb.org/media/digestPics/Apathy_Digest.jpeg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Apathy_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2018-12-07T21:06:17-05:00", "date_modified": "2020-09-17T14:10:39-04:00" }, { "phage_name": "APE308", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Enyinna Nwachuku", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.444295 N", "found_GPS_long": "79.953204 W", "found_year": 2008, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2010-04-30T20:00:00-04:00", "date_modified": "2018-02-26T16:35:55-05:00" }, { "phage_name": "Apease", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Abe Pease", "found_city": "Lincoln", "found_state": "NE", "found_country": "United States", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2024, "p_institution": { "institution_code": "NEBW", "institution_name": "Nebraska Wesleyan University", "institution_logo": "https://phagesdb.org/media/institutions/nwu_logo2.jpg", "institution_url": "http://www.nebrwesleyan.edu/", "institution_city": "Lincoln", "institution_state": "NE", "institution_country": "USA", "institution_latitude": "40.839041", "institution_longitude": "-96.64760" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Apease_EMPic.png", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-04-10T10:20:05-04:00", "date_modified": "2024-04-12T06:58:43-04:00" }, { "phage_name": "APengTing", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named for its beauty.", "finder_name": "Jon Kim", "found_city": "Providence", "found_state": "RI", "found_country": "USA", "found_GPS_lat": "41.824186 N", "found_GPS_long": "71.403183 W", "found_year": 2018, "p_institution": { "institution_code": "BRWN", "institution_name": "Brown University", "institution_logo": "https://phagesdb.org/media/institutions/brown_logo2.jpg", "institution_url": "http://www.brown.edu/", "institution_city": "Providence", "institution_state": "RI", "institution_country": "USA", "institution_latitude": "41.827013", "institution_longitude": "-71.40255" }, "enriched_sample": true, "discovery_notes": "Found by the bush on next to the stairs leading out from Everett into the Everett-Jameson quad. On the other side of the path from my window.", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/APengTing_EMPic.TIF", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/APengTing_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2018-11-17T14:51:28-05:00", "date_modified": "2020-08-27T15:52:23-04:00" }, { "phage_name": "Apep", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named after the Egyptian snake diety Apep, whose goal was to swallow Ra, the Sun. The name seemed fitting in the somewhat snake-like morphology that phages often have, as well as their goal of overencompassing the bacteria that they feed off of in one way or another.", "finder_name": "Morgan Sprowl", "found_city": "St Louis", "found_state": "MO", "found_country": "United States of America", "found_GPS_lat": "38.552225 N", "found_GPS_long": "90.305156 W", "found_year": 2024, "p_institution": { "institution_code": "STLC", "institution_name": "St. Louis Community College", "institution_logo": "https://phagesdb.org/media/institutions/StLouisCommunityCollege.png", "institution_url": "https://www.stlcc.edu/", "institution_city": "St. Louis", "institution_state": "MO", "institution_country": "USA", "institution_latitude": "38.629046", "institution_longitude": "-90.27866" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 25, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-03-27T10:36:11-04:00", "date_modified": "2025-04-04T11:37:30-04:00" }, { "phage_name": "Apeppi", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I wanted a name with a meaning that would fit what a phage is (bacteria killer/destroyer), sounds easy, and is appealing. I found Apep, which is the name of an Egyptian demon of chaos, but I didn't really want to name my phage that since the Egyptian God represents evil, whereas I believe the phage does good in medical terms. Thus, Apeppi was formed. My father and grandma found it adorable and easy for the phage. I agree that it sounds lovely, cute, and is like a catchy nickname.", "finder_name": "Ruby Caliman", "found_city": "St. Louis", "found_state": "MO", "found_country": "U.S.A.", "found_GPS_lat": "38.57002 N", "found_GPS_long": "90.42222 W", "found_year": 2022, "p_institution": { "institution_code": "STLC", "institution_name": "St. Louis Community College", "institution_logo": "https://phagesdb.org/media/institutions/StLouisCommunityCollege.png", "institution_url": "https://www.stlcc.edu/", "institution_city": "St. Louis", "institution_state": "MO", "institution_country": "USA", "institution_latitude": "38.629046", "institution_longitude": "-90.27866" }, "enriched_sample": true, "discovery_notes": "Unknown.", "isolation_temperature": 25, "growth_notes": "", "pcluster": { "cluster": "DV", "temperate": null }, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2023-02-20", "seq_facility": { "short_name": "NCSTATE", "facility_name": "NC State Genomic Sciences Laboratory", "contact_person": "Jenn Schaff", "shipping_address": "", "facility_website": "http://research.ncsu.edu/gsl/" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 4703, "finishing_reactions": 0, "genome_length": 67237, "gcpercent": "58.8", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 94, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Apeppi_CompleteNotes.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Apeppi_Minimal_Final_DmRgXOr.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Apeppi_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Apeppi_CoverSheet.pdf", "submitted_annotation_date": "2024-08-26T20:21:26-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Apeppi_flat_XN4Zipz.txt", "qced_genbank_file_date": "2024-08-26T20:21:26-04:00", "isolation_host": { "genus": "Gordonia", "species": "rubripertincta", "strain_name": "NRRL B-16540", "strain_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "PQ362684", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Apeppi_Plaque_HCvKbS6.png", "em_file": "https://phagesdb.org/media/emPics/Apeppi_EMPic_Ap0Vhvt.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Apeppi.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Apeppi_Plaque_Thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/Apeppi_EMPic_Thumb.png", "dnam_file": null, "date_added": "2022-11-21T09:39:35-05:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Apetito", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Erin Hegarty", "found_city": "Waco", "found_state": "TX", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2011, "p_institution": { "institution_code": "BAYU", "institution_name": "Baylor University", "institution_logo": "https://phagesdb.org/media/institutions/baylor.jpg", "institution_url": "http://www.baylor.edu/", "institution_city": "Waco", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "31.548499", "institution_longitude": "-97.11843" }, "enriched_sample": null, "discovery_notes": "Soil Sample:\r\ndry\r\nmedium brown\r\nresidential area\r\ntaken from the surface\r\nsurrounded by small plants", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Small, slightly turbid, consistently round with small halos", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Apetito_EMPic.tiff", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Apetito_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2011-11-22T05:05:03-05:00", "date_modified": "2017-09-12T10:21:46-04:00" }, { "phage_name": "Apex", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Sarah Taborda", "found_city": "Suffern", "found_state": "NY", "found_country": "USA", "found_GPS_lat": "41.106944 N", "found_GPS_long": "74.140833 W", "found_year": 2018, "p_institution": { "institution_code": "DCBL", "institution_name": "Dominican University New York", "institution_logo": "https://phagesdb.org/media/institutions/CV_DU_stacked_2022.png", "institution_url": "https://www.duny.edu/", "institution_city": "Orangeburg", "institution_state": "NY", "institution_country": "USA", "institution_latitude": "41.039643", "institution_longitude": "-73.94976" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "B", "temperate": false }, "psubcluster": { "subcluster": "B4" }, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2018-11-26", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 3561, "finishing_reactions": 0, "genome_length": 71244, "gcpercent": "68.9", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 98, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Apex_CompleteNotes.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Apex_Minimal_Final_fC9izxG.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Apex_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Apex_CoverSheet.pdf", "submitted_annotation_date": "2019-08-31T11:12:26-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Apex_flat.txt", "qced_genbank_file_date": "2019-08-31T11:12:26-04:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MN428050", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Apex_Plaque_r963MpL.jpeg", "em_file": "https://phagesdb.org/media/emPics/Apex_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Apex.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Apex_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Apex_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2018-09-23T20:11:41-04:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Apfelsauce", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "German name for apple", "finder_name": "Priyasha Itani", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "United States", "found_GPS_lat": "40.4403 N", "found_GPS_long": "79.96555 W", "found_year": 2025, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "Jessie Jin, Kira Vilus, Priyasha Itani, Angad Rataul\r\n\r\nThis was collected on 8/25/25 on the front yard of a church. The previous days had no rain and had been sunny. The soil was collected in grass near a flower bed so the soil was more moist but not wet (could be pressed together).\r\n\r\nFall 2025\r\nDr. Kevin McDade", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Apfelsauce_Plaque.HEIC", "em_file": "https://phagesdb.org/media/emPics/Apfelsauce_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2025-09-16T08:41:04-04:00", "date_modified": "2025-10-16T15:02:40-04:00" }, { "phage_name": "Aphelion", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Yessica Bonilla", "found_city": "Williamsburg", "found_state": "VA", "found_country": "USA", "found_GPS_lat": "37.270645 N", "found_GPS_long": "76.713451 W", "found_year": 2016, "p_institution": { "institution_code": "CWAM", "institution_name": "College of William & Mary", "institution_logo": "https://phagesdb.org/media/institutions/william_and_mary-01.jpg", "institution_url": "http://www.wm.edu/", "institution_city": "Williamsburg", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "37.272588", "institution_longitude": "-76.71691" }, "enriched_sample": true, "discovery_notes": "Found on October 3rd, 2016, 2:50 pm, 73°F (22.2°C). Crim Dell Creek, depth of 2 inches. ", "isolation_temperature": 37, "growth_notes": "", "pcluster": { "cluster": "CQ", "temperate": true }, "psubcluster": { "subcluster": "CQ1" }, "morphotype": "SIPHO", "plaque_notes": "numerous turbid plaques of small diameter distributed across the plate", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2017-01-09", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 137, "finishing_reactions": 0, "genome_length": 93276, "gcpercent": "61.9", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 19, "overhang_sequence": "CGCGACGCTC", "sequencing_notes": "Mixed population, approximately 15% of reads blast to Cluster CT", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 176, "num_tRNAs": 7, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Aphelion_CompleteNotes.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Aphelion_Minimal_Final_bEP3OjS.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Aphelion_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Aphelion_CoverSheet.pdf", "submitted_annotation_date": "2019-01-04T14:45:18-05:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Aphelion_final_flat2.txt", "qced_genbank_file_date": "2019-01-04T14:45:18-05:00", "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MK376959", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aphelion_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/Aphelion_EMPic.png", "digest_file": "https://phagesdb.org/media/digestPics/Aphelion_Digest.png", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Aphelion.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aphelion_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Aphelion_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2016-12-07T15:36:40-05:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Aphogato17", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Italian for \"drowned\", in reference to the coffee drink due to the similarity in adding a solution to an already wet solid. Likewise, enrichment fluid was added to the already wet soil.", "finder_name": "Brian Nguyen", "found_city": "Fairfax", "found_state": "VA", "found_country": "USA", "found_GPS_lat": "38.833056 N", "found_GPS_long": "77.386667 W", "found_year": 2017, "p_institution": { "institution_code": "GEMA", "institution_name": "George Mason University", "institution_logo": "https://phagesdb.org/media/institutions/GeorgeMason_YjNctcY.jpg", "institution_url": "https://www.gmu.edu/", "institution_city": "Fairfax", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "Wet marshy soil on a particularly dry day (31°C). No noticeable flora or fauna within soil sample. Typical compost soil. ", "isolation_temperature": 31, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Typical lytic plaque clearings. No turbid plaques observed.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aphogato17_Plaque.tif", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/Aphogato17_Digest.tif", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aphogato17_Plaque_Thumb.png", "em_thumb_file": null, "dnam_file": null, "date_added": "2017-07-19T08:35:42-04:00", "date_modified": "2020-09-17T14:07:58-04:00" }, { "phage_name": "Aphrodite", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Juliana Vandenborn", "found_city": "Lawrence", "found_state": "KS", "found_country": "USA", "found_GPS_lat": "38.957222 N", "found_GPS_long": "95.247222 W", "found_year": 2016, "p_institution": { "institution_code": "UKAN", "institution_name": "University of Kansas", "institution_logo": "https://phagesdb.org/media/institutions/KUsigvert2C.png", "institution_url": "http://www.kansas.edu/", "institution_city": "Lawrence", "institution_state": "KS", "institution_country": "USA", "institution_latitude": "38.954649", "institution_longitude": "-95.25581" }, "enriched_sample": false, "discovery_notes": "Dirty puddle water", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "4mm diameter cloudy plaques", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2016-12-20T14:30:01-05:00", "date_modified": "2020-09-17T14:07:41-04:00" }, { "phage_name": "Apiary", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "An apiary is a collection of beehives, beehives have honeycombs, and honeycombs are made up of hexagonal shapes. The name Apiary came about because phage capsids are hexagonal in shape also.", "finder_name": "Sierra Swieringa", "found_city": "Grand Rapids", "found_state": "MI", "found_country": "United States", "found_GPS_lat": "42.933934 N", "found_GPS_long": "85.591096 W", "found_year": 2022, "p_institution": { "institution_code": "CALV", "institution_name": "Calvin University", "institution_logo": "https://phagesdb.org/media/institutions/CalvinLogo.png", "institution_url": "http://www.calvin.edu/", "institution_city": "Grand Rapids", "institution_state": "MI", "institution_country": "USA", "institution_latitude": "42.930074", "institution_longitude": "-85.58763" }, "enriched_sample": true, "discovery_notes": "The soil sample was collected in the Calvin Campus Vegetable Garden by a squash plant and from deep, dark, rich soil.", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "CR", "temperate": false }, "psubcluster": { "subcluster": "CR6" }, "morphotype": "SIPHO", "plaque_notes": "Small pen point size, very clear, fairly round with slight variations in size, the average plaque size was 1mm, edges were mostly smooth with a few ridges on certain plaques", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2023-03-08", "seq_facility": { "short_name": "NCSTATE", "facility_name": "NC State Genomic Sciences Laboratory", "contact_person": "Jenn Schaff", "shipping_address": "", "facility_website": "http://research.ncsu.edu/gsl/" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 4019, "finishing_reactions": 0, "genome_length": 67424, "gcpercent": "67.4", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "AGCCGCGTAC", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 95, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Apiary_CompleteNotes.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Apiary_Minimal_Final_Slk80t8.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Apiary_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Apiary_CoverSheet.docx", "submitted_annotation_date": "2023-07-24T22:16:30-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Apiary.gbf", "qced_genbank_file_date": "2023-07-24T22:16:30-04:00", "isolation_host": { "genus": "Rhodococcus", "species": "equi", "strain_name": "NRRL B-16538", "strain_species": { "id": 31, "genus": "Rhodococcus", "species_name": "equi", "species_genus": { "id": 2, "genus_domain": "Bacteria", "genus_name": "Rhodococcus", "genus_wikipedia": "http://en.wikipedia.org/wiki/Rhodococcus", "is_actinomycetales": true }, "species_wikipedia": "http://en.wikipedia.org/wiki/Rhodococcus_equi" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 31, "genus": "Rhodococcus", "species_name": "equi", "species_genus": { "id": 2, "genus_domain": "Bacteria", "genus_name": "Rhodococcus", "genus_wikipedia": "http://en.wikipedia.org/wiki/Rhodococcus", "is_actinomycetales": true }, "species_wikipedia": "http://en.wikipedia.org/wiki/Rhodococcus_equi" }, "host_genus": { "id": 2, "genus_domain": "Bacteria", "genus_name": "Rhodococcus", "genus_wikipedia": "http://en.wikipedia.org/wiki/Rhodococcus", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "OR434026", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Apiary.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-11-28T09:01:37-05:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Apin77", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Antonia Oduguwa", "found_city": "Washington", "found_state": "DC", "found_country": "", "found_GPS_lat": "38.921944 N", "found_GPS_long": "77.018056 W", "found_year": 2018, "p_institution": { "institution_code": "HWRD", "institution_name": "Howard University", "institution_logo": "https://phagesdb.org/media/institutions/howard_university_logo2.jpg", "institution_url": "http://www.howard.edu/", "institution_city": "Washington", "institution_state": "DC", "institution_country": "USA", "institution_latitude": "38.922905", "institution_longitude": "-77.01943" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2018-10-09T11:39:34-04:00", "date_modified": "2020-09-17T14:10:04-04:00" }, { "phage_name": "Apizium", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Juan Apiz", "found_city": "Caguas", "found_state": "PR", "found_country": "USA", "found_GPS_lat": "18.268889 N", "found_GPS_long": "66.041944 W", "found_year": 2012, "p_institution": { "institution_code": "UPRC", "institution_name": "University of Puerto Rico at Cayey", "institution_logo": "https://phagesdb.org/media/institutions/PuertoRicoCayey.gif", "institution_url": "http://www.cayey.upr.edu/", "institution_city": "Cayey", "institution_state": "PR", "institution_country": "USA", "institution_latitude": "18.117905", "institution_longitude": "-66.16160" }, "enriched_sample": true, "discovery_notes": "7/28/2012\r\nIsolated From 2 - 3 inches deep", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "B", "temperate": false }, "psubcluster": { "subcluster": "B1" }, "morphotype": "SIPHO", "plaque_notes": "1 mm in size", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2013-12-19", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 3838, "finishing_reactions": 0, "genome_length": 68227, "gcpercent": "66.4", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": true, "is_phamerated": true, "num_ORFs": 100, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Apizium_Final.dnam5", "submitted_minimal_dnam_file": null, "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Apizium_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Apizium_CoverSheet.docx", "submitted_annotation_date": "2014-05-14T23:57:00-04:00", "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": true, "paper_published_in": { "title": "Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity", "abstract": "The bacteriophage population is large, dynamic, ancient, and genetically diverse. Limited genomic information shows that phage genomes are mosaic, and the genetic architecture of phage populations remains ill-defined. To understand the population structure of phages infecting a single host strain, we isolated, sequenced, and compared 627 phages of Mycobacterium smegmatis. Their genetic diversity is considerable, and there are 28 distinct genomic types (clusters) with related nucleotide sequences. However, amino acid sequence comparisons show pervasive genomic mosaicism, and quantification of inter-cluster and intra-cluster relatedness reveals a continuum of genetic diversity, albeit with uneven representation of different phages. Furthermore, rarefaction analysis shows that the mycobacteriophage population is not closed, and there is a constant influx of genes from other sources. Phage isolation and analysis was performed by a large consortium of academic institutions, illustrating the substantial benefits of a disseminated, structured program involving large numbers of freshman undergraduates in scientific discovery. ", "full_author_list": "Pope WH, Bowman CA, Russell DA, Jacobs-Sera D, Asai DJ, Cresawn SG, Jacobs WR, Hendrix RW, Lawrence JG, Hatfull GF; Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science; Phage Hunters Integrating Research and Education; Mycobacterial Genetics Course", "short_author_list": "Pope, Bowman, Russell, et al", "article_url": "http://elifesciences.org/content/4/e06416", "journal": "eLIFE", "journal_volume": "4", "journal_issue": "", "journal_pages": "", "pub_year": "2015", "pubmed_id": "25919952" }, "in_genbank": true, "genbank_accession": "KR781349", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Apizium.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": "https://phagesdb.org/media/dnam/Apizium.dnam5", "date_added": "2013-07-09T09:57:32-04:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Aplaquealypse", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Kiah Drongesen and Erika Moreno", "found_city": "Spokane", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "47.778 N", "found_GPS_long": "177.6398 W", "found_year": 2014, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "Found outside of Hughes Hall at Gonzaga University form enriched soil", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Clear and ranges in size. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Aplaquealypse_EMPic.tiff", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Aplaquealypse_EMPic_Thumb.png", "dnam_file": null, "date_added": "2014-03-19T13:17:19-04:00", "date_modified": "2020-09-17T14:06:07-04:00" }, { "phage_name": "Apoc20", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "We named our phage \"Apoc20\" after the character Apoc from the matrix. The \"20\" comes from the year the phage was isolated.", "finder_name": "Alexander Peralta, Sam Matke", "found_city": "River Falls", "found_state": "WI", "found_country": "United States", "found_GPS_lat": "44.852 N", "found_GPS_long": "92.6144 W", "found_year": 2020, "p_institution": { "institution_code": "UWRF", "institution_name": "University of Wisconsin-River Falls", "institution_logo": "https://phagesdb.org/media/institutions/university_of_wisconsin_river_falls.png", "institution_url": "http://www.uwrf.edu/", "institution_city": "River Falls", "institution_state": "WI", "institution_country": "USA", "institution_latitude": "44.853133", "institution_longitude": "-92.62258" }, "enriched_sample": false, "discovery_notes": "Sample was taken 20 feet from a building, beneath a large deciduous tree. Low and flat ground.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques were uniform, very small, and turbid. No halo's were observed.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2020-10-08T16:11:44-04:00", "date_modified": "2021-01-28T11:04:39-05:00" }, { "phage_name": "Apocalypse", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Stephen Taylor", "found_city": "Springville", "found_state": "UT", "found_country": "USA", "found_GPS_lat": "40.169457 N", "found_GPS_long": "111.497400 W", "found_year": 2011, "p_institution": { "institution_code": "BRYO", "institution_name": "Brigham Young University", "institution_logo": "https://phagesdb.org/media/institutions/BYU_seal_copy.gif", "institution_url": "http://home.byu.edu/home/", "institution_city": "Provo", "institution_state": "UT", "institution_country": "USA", "institution_latitude": "40.252020", "institution_longitude": "-111.6492" }, "enriched_sample": true, "discovery_notes": "Soil Sample\r\nDamp\r\nSurface Depth\r\n30°C\r\nFound along Hobble Creek on the left fork of Hobble Creek Canyon. Soil came from underneath a stream-side tree.\r\nCollected on August 30th, 2011", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "K", "temperate": true }, "psubcluster": { "subcluster": "K1" }, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2014-07-30", "seq_facility": { "short_name": "BYU", "facility_name": "BYU DNA Sequencing Center", "contact_person": "", "shipping_address": "", "facility_website": "" }, "seq_method": { "short_name": "454", "method_name": "454" }, "coverage": 102, "finishing_reactions": 0, "genome_length": 59947, "gcpercent": "66.4", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 11, "overhang_sequence": "CTCGTAGGCAT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 98, "num_tRNAs": 1, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Apocalypse_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2017-07-20T12:35:06-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Apocalypse_Flat.txt", "qced_genbank_file_date": "2017-07-20T12:35:06-04:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MF668267", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Apocalypse.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2011-12-04T08:09:23-05:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Apoia", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name came from the initials and additional data from the ID when spoken aloud", "finder_name": "Austin Paine", "found_city": "Amherst", "found_state": "MA", "found_country": "United States", "found_GPS_lat": "42.390657 N", "found_GPS_long": "72.526144 W", "found_year": 2022, "p_institution": { "institution_code": "UMAS", "institution_name": "University of Massachusetts Amherst", "institution_logo": "https://phagesdb.org/media/institutions/UMassAmherst.png", "institution_url": "", "institution_city": "Amherst", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "On the west side of the campus pond", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Average size 1-2mm\r\npinprick center\r\ncloudy halo", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Apoia_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/apoia_plaque_thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/apoia_EMpic_thumb.jpg", "dnam_file": null, "date_added": "2022-03-09T14:09:41-05:00", "date_modified": "2024-09-16T14:22:25-04:00" }, { "phage_name": "Apokalupsis", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "It came from the Greek root word for apocalypse.", "finder_name": "Akinola Oladimeji", "found_city": "Atlanta", "found_state": "GA", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2014, "p_institution": { "institution_code": "MORE", "institution_name": "Morehouse College", "institution_logo": "https://phagesdb.org/media/institutions/Morehouse_Logo.jpg", "institution_url": "http://www.morehouse.edu/", "institution_city": "Atlanta", "institution_state": "GA", "institution_country": "USA", "institution_latitude": "33.746175", "institution_longitude": "-84.41438" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "E", "temperate": true }, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Apokalupsis_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2014-11-24T16:25:04-05:00", "date_modified": "2020-09-17T14:05:50-04:00" }, { "phage_name": "ApoKipo", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The naming for this virus comes from the greek terminology \"from garden\" because that is what it had originated from. Sort of an acknowledgement to the place it was found.", "finder_name": "McKinzie Novak", "found_city": "Tickfaw", "found_state": "LA", "found_country": "United States", "found_GPS_lat": "30.538618 N", "found_GPS_long": "90.57431 W", "found_year": 2024, "p_institution": { "institution_code": "SELA", "institution_name": "Southeastern Louisiana University", "institution_logo": "https://phagesdb.org/media/institutions/southeastern.png", "institution_url": "https://www.southeastern.edu/", "institution_city": "Hammond", "institution_state": "LA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "Discovered in a garden with very dry soil that had been untouched and undisturbed for a long period of time.", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "AL", "temperate": false }, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques are extremely tiny and do not grow much but still maintain a circular shape with very clear distinct edges.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2025-01-27", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 1435, "finishing_reactions": 0, "genome_length": 60990, "gcpercent": "67.4", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 102, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/ApoKipo_CompleteNotes.xlsx", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/ApoKipo_Minimal_Final_oeuF6z8.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/ApoKipo_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/ApoKipo_CoverSheet.docx", "submitted_annotation_date": "2025-08-20T13:19:22-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Apokipo_flat.txt", "qced_genbank_file_date": "2025-08-20T13:19:22-04:00", "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "PX234437", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/ApoKipo.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-10-29T11:52:09-04:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Apollathena", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "This phage was named after the Greek god Apollo and the Greek goddess Athena.", "finder_name": "Regan McKinney", "found_city": "Cullowhee", "found_state": "NC", "found_country": "United States", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2019, "p_institution": { "institution_code": "WCAR", "institution_name": "Western Carolina University", "institution_logo": "https://phagesdb.org/media/institutions/westerncarolina.jpg", "institution_url": "http://www.wcu.edu/", "institution_city": "Cullowhee", "institution_state": "NC", "institution_country": "United States", "institution_latitude": "35.308879", "institution_longitude": "-83.18506" }, "enriched_sample": true, "discovery_notes": "Found in soil in which a phlox plant grew.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "This phage forms clear plaques.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Apollathena_Plaque.tif", "em_file": "https://phagesdb.org/media/emPics/Apollathena_EMPic.TIF", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Apollathena_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Apollathena_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2019-11-11T18:14:44-05:00", "date_modified": "2020-09-17T14:11:26-04:00" }, { "phage_name": "Apollo", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Lauren Hurst", "found_city": "Harrisonburg", "found_state": "VA", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2011, "p_institution": { "institution_code": "JAMU", "institution_name": "James Madison University", "institution_logo": "https://phagesdb.org/media/institutions/james_madisonp.png", "institution_url": "http://www.jmu.edu/", "institution_city": "Harrisonburg", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "38.435340", "institution_longitude": "-78.86975" }, "enriched_sample": true, "discovery_notes": "Edith J. Carrier Arboretum, forest path soil, moist soil, just below the surface. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2011-08-17T07:16:51-04:00", "date_modified": "2015-04-29T14:31:54-04:00" }, { "phage_name": "Apollo13", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Albert Clinton", "found_city": "Atlanta ", "found_state": "GA", "found_country": "", "found_GPS_lat": "33.74959 N", "found_GPS_long": "84.412897 W", "found_year": 2016, "p_institution": { "institution_code": "MORE", "institution_name": "Morehouse College", "institution_logo": "https://phagesdb.org/media/institutions/Morehouse_Logo.jpg", "institution_url": "http://www.morehouse.edu/", "institution_city": "Atlanta", "institution_state": "GA", "institution_country": "USA", "institution_latitude": "33.746175", "institution_longitude": "-84.41438" }, "enriched_sample": true, "discovery_notes": "Cluster specific PCR primer analysis indicated that this is a Cluster L2 phage.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Apollo13_Plaque.JPG", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Apollo13_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2016-11-30T15:14:50-05:00", "date_modified": "2020-09-17T14:07:34-04:00" }, { "phage_name": "Apollo19", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "My dog's name is apollo and this phage was discovered in 2019.", "finder_name": "Katherine Cleary", "found_city": "Providence", "found_state": "RI", "found_country": "USA", "found_GPS_lat": "41.8437 N", "found_GPS_long": "71.4381 W", "found_year": 2019, "p_institution": { "institution_code": "PROV", "institution_name": "Providence College", "institution_logo": "https://phagesdb.org/media/institutions/providence-college-1-logo-primary.jpg", "institution_url": "http://www.providence.edu/", "institution_city": "Providence", "institution_state": "RI", "institution_country": "USA", "institution_latitude": "41.844145", "institution_longitude": "-71.43463" }, "enriched_sample": true, "discovery_notes": "The soil was very moist, kind of like clay with a few blades of grass, some pebbles and some moist leaves. I took the soil from the top and didn't dig down much. The spot that I took the soil from was right next to a bush and the sidewalk. The weather was 71° F and partly sunny and the UV index was 6. It rained the right before the sample was taken but not for very long.", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "The plaques were generally mostly small with a few big plaques and they were not turbid so it is likely that this is a lytic phage. The plaques were clear.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Apollo19_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Apollo19_EMPic.tiff", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Apollo19_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2019-11-16T18:50:00-05:00", "date_modified": "2020-09-17T14:11:28-04:00" }, { "phage_name": "Apollo22", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I named my phage Apollo22 because of the God Apollo and my lucky number is 22.", "finder_name": "Corielle Jennings", "found_city": "Cullowhee", "found_state": "NC", "found_country": "United States", "found_GPS_lat": "35.311997 N", "found_GPS_long": "83.182569 W", "found_year": 2021, "p_institution": { "institution_code": "WCAR", "institution_name": "Western Carolina University", "institution_logo": "https://phagesdb.org/media/institutions/westerncarolina.jpg", "institution_url": "http://www.wcu.edu/", "institution_city": "Cullowhee", "institution_state": "NC", "institution_country": "United States", "institution_latitude": "35.308879", "institution_longitude": "-83.18506" }, "enriched_sample": true, "discovery_notes": "I found this phage in red dirt with a little bit of clay in it. It was by the bookstore behind one of the flower beds.", "isolation_temperature": 16, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Small plaques, that change from clear to turbid", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "rubripertincta", "strain_name": "NRRL B-16540", "strain_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Apollo22_Plaque.tif", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/Apollo22_Digest.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Apollo22_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2021-12-01T13:32:54-05:00", "date_modified": "2025-08-28T09:46:09-04:00" }, { "phage_name": "Apollonia6", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Apple tree. Only thing we could think of. I think we are showing our age.", "finder_name": "LINDA Christine DEVEAUX", "found_city": "Socorro", "found_state": "NM", "found_country": "United States", "found_GPS_lat": "34.049361 N", "found_GPS_long": "106.925167 W", "found_year": 2021, "p_institution": { "institution_code": "NMIT", "institution_name": "New Mexico Institute of Mining and Technology", "institution_logo": "https://phagesdb.org/media/institutions/nmt_color.png", "institution_url": "https://www.nmt.edu/", "institution_city": "Socorro", "institution_state": "NM", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "Soil taken from around a watered apple tree in a home orchard.", "isolation_temperature": 25, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Clear plaques", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "rubripertincta", "strain_name": "NRRL B-16540", "strain_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Apollonia6_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Apollonia6_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Apollonia6_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-10-08T13:59:15-04:00", "date_modified": "2022-03-16T11:02:00-04:00" }, { "phage_name": "Apollumi", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Apollumi is Greek for destroy.", "finder_name": "Felicia K Phares", "found_city": "Lincoln", "found_state": "NE", "found_country": "USA", "found_GPS_lat": "40.839097 N", "found_GPS_long": "96.653111 W", "found_year": 2015, "p_institution": { "institution_code": "NEBW", "institution_name": "Nebraska Wesleyan University", "institution_logo": "https://phagesdb.org/media/institutions/nwu_logo2.jpg", "institution_url": "http://www.nebrwesleyan.edu/", "institution_city": "Lincoln", "institution_state": "NE", "institution_country": "USA", "institution_latitude": "40.839041", "institution_longitude": "-96.64760" }, "enriched_sample": true, "discovery_notes": "Used soil from potted petunias ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2015-11-23T17:19:27-05:00", "date_modified": "2020-09-17T14:06:47-04:00" }, { "phage_name": "Apolonia", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I named it Apolonia because my identity is very important to me. There are many who try to call me nicknames because my name is too long or difficult, so I want this Phage to be named after me and always be addressed as Apolonia as well. It’s also my first Phage so I feel like it’s become a part of me.", "finder_name": "Apolonia Wright", "found_city": "Burleson", "found_state": "TX", "found_country": "United States", "found_GPS_lat": "32.541428 N", "found_GPS_long": "97.285973 W", "found_year": 2021, "p_institution": { "institution_code": "UNTD", "institution_name": "University of North Texas", "institution_logo": "https://phagesdb.org/media/institutions/UNT-01.jpg", "institution_url": "http://www.unt.edu/", "institution_city": "Denton", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "33.207825", "institution_longitude": "-97.15253" }, "enriched_sample": true, "discovery_notes": "I collected my soil sample at 11:09 am 08/21/21 at the coordinates 32.541428 (latitude), -97.285973 (longitude). Due to the recent rain and sprinkler system a meter away, the soil is quite moist, dark, and porous. The location is shaded under an old elm tree and the temperature is ~90 degrees, humidity at 55%, and 5mph winds. With a pre-packaged plastic fork, I dug about 2 cm under the soil near a protruding root and collected a 1/4 sandwich bag of soil.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques are consistently 1 mm in diameter with a circular shape. The majority of the plaques produced are cloudy and signal the lysogenic stage of life. In the center of each cloudy plaque, there is a very small clear spot.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": { "short_name": "UNT", "facility_name": "University of North Texas", "contact_person": "Richard Hale/Lee Hughes", "shipping_address": "", "facility_website": "" }, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Streptomyces", "species": "griseus", "strain_name": "ATCC 10137", "strain_species": { "id": 4, "genus": "Streptomyces", "species_name": "griseus", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "10137", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 4, "genus": "Streptomyces", "species_name": "griseus", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Apolonia_Plaque.jpg", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/Apolonia_Digest_eeNlLdA.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Apolonia_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2021-10-15T11:16:41-04:00", "date_modified": "2025-09-02T16:45:43-04:00" }, { "phage_name": "Aporia", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Aporia, or \"ἀπορία\": meaning difficulty or perplexity in Ancient Greek; humorously indicating difficulty of research. Phi or Φ, first letter of phage.", "finder_name": "John Lin", "found_city": "Atlanta", "found_state": "GA", "found_country": "United States of America", "found_GPS_lat": "33.796 N", "found_GPS_long": "84.32118 E", "found_year": 2024, "p_institution": { "institution_code": "EMRY", "institution_name": "Emory University", "institution_logo": "https://phagesdb.org/media/institutions/EMRY.jpg", "institution_url": "https://www.emory.edu/", "institution_city": "Atlanta", "institution_state": "GA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "Lullwater Park. Semi-shady soil in mossy area with few trees. Sandy dry soil.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Slightly turbid, medium-size (2.09 ± 0.38 mm diameter), circular plaques with hazy borders when plated on isolation host A. globiformis B-2979 (25 µL of stock B-2979) using 0.2% PYCa top agar.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AporiaPhi_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/AporiaPhi_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/AporiaPhi_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aporia_Plaque.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Aporia_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2024-12-03T13:32:59-05:00", "date_modified": "2025-09-26T12:40:36-04:00" }, { "phage_name": "Appa", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Aleem Mohamed", "found_city": "Baltimore", "found_state": "MD", "found_country": "USA", "found_GPS_lat": "39.326889 N", "found_GPS_long": "76.627556 W", "found_year": 2016, "p_institution": { "institution_code": "HHMI", "institution_name": "Howard Hughes Medical Institute", "institution_logo": "https://phagesdb.org/media/institutions/hhmi.jpg", "institution_url": "http://www.hhmi.org/", "institution_city": "Chevy Chase", "institution_state": "MD", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "GA", "temperate": null }, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2017-02-09", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 2557, "finishing_reactions": 0, "genome_length": 38684, "gcpercent": "68.0", "end_type": "CIRC", "repeat_length": null, "end_notes": "No read start buildups were found with PAUSE, and the coverage was fairly consistent throughout.", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 65, "num_tRNAs": 1, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Appa_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2018-03-25T21:48:59-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Appa.gbf", "qced_genbank_file_date": "2018-03-25T21:48:59-04:00", "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MH153799", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Appa_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/Appa_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Appa_Digest.png", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Appa.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Appa_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Appa.jpg", "dnam_file": "https://phagesdb.org/media/dnam/Appa.dnam5", "date_added": "2017-02-03T14:39:56-05:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Apparition", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Rachel Hammond", "found_city": "Topeka", "found_state": "KS", "found_country": "USA", "found_GPS_lat": "39.103 N", "found_GPS_long": "95.683 W", "found_year": 2015, "p_institution": { "institution_code": "UKAN", "institution_name": "University of Kansas", "institution_logo": "https://phagesdb.org/media/institutions/KUsigvert2C.png", "institution_url": "http://www.kansas.edu/", "institution_city": "Lawrence", "institution_state": "KS", "institution_country": "USA", "institution_latitude": "38.954649", "institution_longitude": "-95.25581" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2015-12-09T15:28:20-05:00", "date_modified": "2020-09-17T14:06:16-04:00" }, { "phage_name": "AppaYipYip", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name comes from the Avatar: The Last Airbender when Aang and his friends tell Appa \"yip yip\" in order to get Appa to take off into the air", "finder_name": "Dr. Diaz-Martinez", "found_city": "Spokane", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "47.732009 N", "found_GPS_long": "117.425369 W", "found_year": 2020, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": null, "discovery_notes": "The sample was taken in a median next to a patch of grass. Water was added to keep the soil moist.", "isolation_temperature": 23, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "This plaque is characterized by clear zones that measure to be around 2-6 mm", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AppaYipYip_Plaque.jpg", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/AppaYipYip_Digest.tif", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/AppaYipYip_Plaque_iyLz66b.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2020-11-19T09:41:20-05:00", "date_modified": "2021-01-28T11:04:19-05:00" }, { "phage_name": "Appbott", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Marjorie Rodriguez, Eduarda Bernado, Sofia Augeri", "found_city": "North Andover", "found_state": "MA", "found_country": "", "found_GPS_lat": "42.6686 N", "found_GPS_long": "71.1216 W", "found_year": 2021, "p_institution": { "institution_code": "MERI", "institution_name": "Merrimack College", "institution_logo": "https://phagesdb.org/media/institutions/14169_mc_centered_rgb.png", "institution_url": "http://www.merrimack.edu/", "institution_city": "North Andover", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "42.667953", "institution_longitude": "-71.12257" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-12-01T13:03:01-05:00", "date_modified": "2022-03-16T11:02:02-04:00" }, { "phage_name": "Appelsauce", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "My last name is Appel and throughout grade school I would choose appelsauce as my kahoot name.", "finder_name": "Olivia Appel", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "United States", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2022, "p_institution": { "institution_code": "CHAT", "institution_name": "Chatham University", "institution_logo": "https://phagesdb.org/media/institutions/chatham_logo_NB0QvGQ.png", "institution_url": "https://www.chatham.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.449259", "institution_longitude": "-79.925094" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Appelsauce_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Appelsauce_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2022-10-07T10:01:08-04:00", "date_modified": "2025-09-24T09:24:04-04:00" }, { "phage_name": "Appelton", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Bridgets last name is Appel and Olivia had a funny dream about “Appelton”. They found their phage the next day.", "finder_name": "Olivia Sewall and Bridget Appel", "found_city": "Moorhead", "found_state": "MN", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2019, "p_institution": { "institution_code": "MSUM", "institution_name": "Minnesota State University Moorhead", "institution_logo": "https://phagesdb.org/media/institutions/MSUM.png", "institution_url": "https://www.mnstate.edu/", "institution_city": "Moorhead", "institution_state": "MN", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "Under a tree. Was later in the evening, humid and about 85 degrees Fahrenheit.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Large plagues", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2019-10-02T13:02:40-04:00", "date_modified": "2019-10-02T13:02:40-04:00" }, { "phage_name": "Appl", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "combination of founders initials", "finder_name": "Anna Pitts ", "found_city": "Kenosha", "found_state": "WI", "found_country": "USA", "found_GPS_lat": "42.642181 N", "found_GPS_long": "87.894101 W", "found_year": 2016, "p_institution": { "institution_code": "CRTH", "institution_name": "Carthage College", "institution_logo": "https://phagesdb.org/media/institutions/Carthage-vert-2c.png", "institution_url": "http://www.carthage.edu/", "institution_city": "Kenosha", "institution_state": "WI", "institution_country": "USA", "institution_latitude": "42.624596", "institution_longitude": "-87.81996" }, "enriched_sample": true, "discovery_notes": "Found in field of Jerry Smith Pumpkin farm in Kenosha, WI. Exactly 6 inches deep in soil. Area of field where dill was previously grown.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaques were round and clear ranging from 0.5 to 1.0mm. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": { "short_name": "UPitt GPCL", "facility_name": "University of Pittsburgh Genomics and Proteomics Core Laboratories", "contact_person": "", "shipping_address": "", "facility_website": "http://www.genetics.pitt.edu/" }, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/APPL_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/APPL_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/APPL_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2016-11-14T21:51:02-05:00", "date_modified": "2020-09-17T14:07:08-04:00" }, { "phage_name": "Apple", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "the name combines some of the initials from me and my partner's names. ", "finder_name": "Andrew Liveoak and Cade Pritchett", "found_city": "Emelle", "found_state": "AL", "found_country": "USA", "found_GPS_lat": "32.697042 N", "found_GPS_long": "88.267782 E", "found_year": 2017, "p_institution": { "institution_code": "UWAL", "institution_name": "University of West Alabama", "institution_logo": "https://phagesdb.org/media/institutions/university_of_west_alabama.png", "institution_url": "http://www.uwa.edu/", "institution_city": "Livingston", "institution_state": "AL", "institution_country": "USA", "institution_latitude": "32.597210", "institution_longitude": "-88.18702" }, "enriched_sample": true, "discovery_notes": "found in the soil where there was once a feeding area for cattle. 1 inch deep in 70 degree Fahrenheit soil. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2017-10-10T11:52:31-04:00", "date_modified": "2020-09-17T14:08:12-04:00" }, { "phage_name": "AppleBottom", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "inspiration from T-Pain", "finder_name": "McKayla Porter", "found_city": "Lincoln", "found_state": "NE", "found_country": "united states", "found_GPS_lat": "40.84 N", "found_GPS_long": "96.65 W", "found_year": 2022, "p_institution": { "institution_code": "NEBW", "institution_name": "Nebraska Wesleyan University", "institution_logo": "https://phagesdb.org/media/institutions/nwu_logo2.jpg", "institution_url": "http://www.nebrwesleyan.edu/", "institution_city": "Lincoln", "institution_state": "NE", "institution_country": "USA", "institution_latitude": "40.839041", "institution_longitude": "-96.64760" }, "enriched_sample": true, "discovery_notes": "Dug from dirt from a tree in front of Pioneer Hall", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "paraoxydans", "strain_name": "NWU1", "strain_species": { "id": 45, "genus": "Microbacterium", "species_name": "paraoxydans", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "Isolated by Nebraska Wesleyan University" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 45, "genus": "Microbacterium", "species_name": "paraoxydans", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, 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"coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-02-02T07:42:09-05:00", "date_modified": "2024-05-02T07:51:53-04:00" }, { "phage_name": "AppleCloud", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary 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"morphotype": "SIPHO", "plaque_notes": "large, clear plaques, no halo, 2 mm diameter, appearing after 24 hr culture at 30oC", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2015-01-07", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 488, "finishing_reactions": 0, "genome_length": 46389, "gcpercent": "58.7", "end_type": "3PRI", "repeat_length": null, "end_notes": "Buildup of reads in Illumina sequencing data.", "overhang_length": 11, "overhang_sequence": "CGGCCGTGAT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 64, "num_tRNAs": 2, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/AppleCloud_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2017-05-26T00:47:55-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/AppleCloud_flat.txt", "qced_genbank_file_date": "2017-05-26T00:47:55-04:00", "isolation_host": { "genus": "Rhodococcus", "species": "erythropolis", "strain_name": "RIA 643", "strain_species": { "id": 9, "genus": "Rhodococcus", "species_name": "erythropolis", "species_genus": { "id": 2, "genus_domain": "Bacteria", "genus_name": "Rhodococcus", "genus_wikipedia": "http://en.wikipedia.org/wiki/Rhodococcus", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "15903", "genbank_accession": "", "strain_information": "Originally listed on ATCC as Rhodococcus globerulus." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 9, "genus": "Rhodococcus", "species_name": "erythropolis", "species_genus": { "id": 2, "genus_domain": "Bacteria", "genus_name": "Rhodococcus", "genus_wikipedia": "http://en.wikipedia.org/wiki/Rhodococcus", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 2, "genus_domain": "Bacteria", "genus_name": "Rhodococcus", "genus_wikipedia": "http://en.wikipedia.org/wiki/Rhodococcus", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MF324903", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/AppleCloud.fasta", "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/AppleCloud_TEMthumb.png", "dnam_file": null, "date_added": "2015-05-18T12:58:00-04:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Applecrisp", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Nala Begin and Jacob Mora", "found_city": "Orono", "found_state": "ME", "found_country": "United States", "found_GPS_lat": "44.897485 N", "found_GPS_long": "68.667409 W", "found_year": 2024, "p_institution": { "institution_code": "UMHC", "institution_name": "University of Maine, Honors College", "institution_logo": "https://phagesdb.org/media/institutions/crest-umaine-honors.jpg", "institution_url": "http://www.honors.umaine.edu/", "institution_city": "Orono", "institution_state": "ME", "institution_country": "USA", "institution_latitude": "44.897979", "institution_longitude": "-68.66874" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "K", "temperate": true }, "psubcluster": { "subcluster": "K6" }, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2025-01-24", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 949, "finishing_reactions": 0, "genome_length": 61954, "gcpercent": "67.1", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 11, "overhang_sequence": "CTCGTAGGCAT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 95, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Applecrisp_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2025-05-20T19:22:02-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Applecrisp_gzN2fDZ.flat", "qced_genbank_file_date": "2025-05-20T19:22:02-04:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "PV915851", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Applecrisp_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/Applecrisp_EMPic.png", "digest_file": "https://phagesdb.org/media/digestPics/Applecrisp_Digest.png", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Applecrisp.fasta", "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Applecrisp_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2024-10-28T15:12:41-04:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Appledog", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Fun name that fit the criteria for naming a phage", "finder_name": "Scott Thorley,Prom Deevilaiphan,RyanKim,AanyaPatel", "found_city": "Amherst", "found_state": "MA", "found_country": "United States", "found_GPS_lat": "42.39142 N", "found_GPS_long": "72.52669 W", "found_year": 2023, "p_institution": { "institution_code": "UMAS", "institution_name": "University of Massachusetts Amherst", "institution_logo": "https://phagesdb.org/media/institutions/UMassAmherst.png", "institution_url": "", "institution_city": "Amherst", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "This Phage was Discovered on a wet, Grassy Hill just due south of the UMass Amherst Campus Center.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaque used came from a serial dilution and amplification of our phage. The diultion used was 10^-4", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/appledog_plaque_thumb.png", "em_thumb_file": null, "dnam_file": null, "date_added": "2023-03-27T08:29:31-04:00", "date_modified": "2024-02-25T15:28:26-05:00" }, { "phage_name": "Applejack", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named lovingly after my little pony, Applejack.", "finder_name": "Autumn Perley and Grace Paiement", "found_city": "Orono", "found_state": "ME", "found_country": "United States", "found_GPS_lat": "44.898789 N", "found_GPS_long": "68.666355 W", "found_year": 2023, "p_institution": { "institution_code": "UMHC", "institution_name": "University of Maine, Honors College", "institution_logo": "https://phagesdb.org/media/institutions/crest-umaine-honors.jpg", "institution_url": "http://www.honors.umaine.edu/", "institution_city": "Orono", "institution_state": "ME", "institution_country": "USA", "institution_latitude": "44.897979", "institution_longitude": "-68.66874" }, "enriched_sample": true, "discovery_notes": "The topsoil was taken from under an apple tree. It was moist because it had rained the day prior.", "isolation_temperature": 14, "growth_notes": "", "pcluster": { "cluster": "A", "temperate": true }, "psubcluster": { "subcluster": "A1" }, "morphotype": "SIPHO", "plaque_notes": "Began with turbid plaques with turbid outer \"halos,\" but gradually transformed over purification rounds to developing only clear plaques with slightly turbid outer rings 1.5 - 7.0 mm in diameter.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2024-01-31", "seq_facility": null, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 708, "finishing_reactions": 0, "genome_length": 49791, "gcpercent": "63.5", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "CGGATGGTAA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 91, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Applejack_Minimal_Final_3v7927V.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2024-05-30T10:53:39-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Applejack_Flat_Gvdpg6A.txt", "qced_genbank_file_date": "2024-05-30T10:53:39-04:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "PP978873", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Applejack_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Applejack_Digest.png", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Applejack.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-09-29T10:11:11-04:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "AppleJuice", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Kayla May Chongco & Isabelle Howard", "found_city": "Spokane", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "47.667515 N", "found_GPS_long": "117.40435 W", "found_year": 2022, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "The sample was collected from a shaded area beneath a tree across the pathway from Gonzaga University's College Hall (exact location: 47.6675153, -117.4043578). The soil was collected from almost surface level (approx. 1 cm deep). The collected soil felt very gritty and dry.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AppleJuice_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/AppleJuice_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/AppleJuice_Thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/AppleJuice_TEM_Thumb.png", "dnam_file": null, "date_added": "2022-12-02T08:54:12-05:00", "date_modified": "2024-02-25T15:28:08-05:00" }, { "phage_name": "Applejuice21", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "We came up with the name from an inside joke about saying that top agar reminds us of apple juice.", "finder_name": "Campas J. , Corvera S. , Lopez N. , Johnson J.,", "found_city": "Wingate", "found_state": "NC", "found_country": "United States", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2025, "p_institution": { "institution_code": "WGTU", "institution_name": "Wingate University", "institution_logo": "https://phagesdb.org/media/institutions/wingate.png", "institution_url": "https://www.wingate.edu/", "institution_city": "Wingate", "institution_state": "NC", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "The soil was wet from the rain, there was a dead animal close to where we picked. It was near a pond. The soil was covered by pine needles.", "isolation_temperature": 9, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Plagues- cloudy. Edges and sides were clear. Size was small.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2025-05-01T12:52:37-04:00", "date_modified": "2025-05-01T12:52:37-04:00" }, { "phage_name": "Applelady", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name is from a corny joke that my family has told since I was a child.", "finder_name": "Abigail Boyd", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.436575 N", "found_GPS_long": "79.956122 W", "found_year": 2017, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "The phage was found in a soil sample taken from my backyard.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Applelady has both small and large plaque morphologies. The plaques are clear and circular. ", "lysogeny_notes": "Based solely on the plaque morphology results, because of the clear plaques, Applelady is lytic.", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Applelady_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/Applelady_EMPic.png", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Applelady_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Applelady_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2017-09-19T11:55:54-04:00", "date_modified": "2020-09-17T14:08:34-04:00" }, { "phage_name": "ApplePie", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Connor Wilcox", "found_city": "Lincoln", "found_state": "NE", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2019, "p_institution": { "institution_code": "NEBW", "institution_name": "Nebraska Wesleyan University", "institution_logo": "https://phagesdb.org/media/institutions/nwu_logo2.jpg", "institution_url": "http://www.nebrwesleyan.edu/", "institution_city": "Lincoln", "institution_state": "NE", "institution_country": "USA", "institution_latitude": "40.839041", "institution_longitude": "-96.64760" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "MYO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "paraoxydans", "strain_name": "NWU1", "strain_species": { "id": 45, "genus": "Microbacterium", "species_name": "paraoxydans", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "Isolated by Nebraska Wesleyan University" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 45, "genus": "Microbacterium", "species_name": "paraoxydans", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ApplePie_Plaque.jpeg", "em_file": "https://phagesdb.org/media/emPics/ApplePie_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/ApplePie_Plaque.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/ApplePie_EMPic_p0CBcBv.jpg", "dnam_file": null, "date_added": "2019-11-21T13:17:06-05:00", "date_modified": "2020-09-17T14:11:42-04:00" }, { "phage_name": "Apples", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "We named our phage Apples because we all agree that we liked Apples. They're a good food.", "finder_name": "Elise C, Maryam A, Abdullah A, Giovanni M", "found_city": "Amherst", "found_state": "MA", "found_country": "United States", "found_GPS_lat": "42.38357 N", "found_GPS_long": "72.52874 W", "found_year": 2024, "p_institution": { "institution_code": "UMAS", "institution_name": "University of Massachusetts Amherst", "institution_logo": "https://phagesdb.org/media/institutions/UMassAmherst.png", "institution_url": "", "institution_city": "Amherst", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "We found our phage by a curb in moist soil", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Clear, regular edges, 2-3mm, sometimes halo", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-10-22T09:40:13-04:00", "date_modified": "2025-04-04T11:37:36-04:00" }, { "phage_name": "Applesauce", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "-Favorite food\r\n-Approved by T/A", "finder_name": "Maddie Click and Julia Born", "found_city": "Pullman", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "46.7346 N", "found_GPS_long": "117.1628 W", "found_year": 2020, "p_institution": { "institution_code": "WSHS", "institution_name": "Washington State University", "institution_logo": "https://phagesdb.org/media/institutions/logo-washington-state.jpg", "institution_url": "http://www.wsu.edu/", "institution_city": "Pullman", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "46.732132", "institution_longitude": "-117.1544" }, "enriched_sample": true, "discovery_notes": "-Outside a dorm hall\r\n-Many people walk over this soil every day", "isolation_temperature": 34, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "N/A", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2020-03-25T22:54:47-04:00", "date_modified": "2020-03-26T10:31:02-04:00" }, { "phage_name": "Appleseed", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I named my phage Appleseed because I found an interesting fact that apple seeds contain trace amounts of cyanide.", "finder_name": "Autumn Webster", "found_city": "Denton", "found_state": "TX", "found_country": "United States", "found_GPS_lat": "33.207 N", "found_GPS_long": "97.152 W", "found_year": 2021, "p_institution": { "institution_code": "UNTD", "institution_name": "University of North Texas", "institution_logo": "https://phagesdb.org/media/institutions/UNT-01.jpg", "institution_url": "http://www.unt.edu/", "institution_city": "Denton", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "33.207825", "institution_longitude": "-97.15253" }, "enriched_sample": true, "discovery_notes": "This soil was discovered on Monday, August 30th, 2021 at 12:58 pm. The temperature was 90 degrees Fahrenheit.I named this soil Laundromat because it was collected down the street from a laundromat service.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Streptomyces", "species": "griseus", "strain_name": "ATCC 10137", "strain_species": { "id": 4, "genus": "Streptomyces", "species_name": "griseus", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "10137", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 4, "genus": "Streptomyces", "species_name": "griseus", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-11-03T08:52:58-04:00", "date_modified": "2022-03-16T11:02:33-04:00" }, { "phage_name": "AppleStrudel", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Haley and Josie", "found_city": "Crete", "found_state": "NE", "found_country": "USA", "found_GPS_lat": "40.622 N", "found_GPS_long": "96.948 W", "found_year": 2017, "p_institution": { "institution_code": "DOAN", "institution_name": "Doane University", "institution_logo": "https://phagesdb.org/media/institutions/DoaneMod.png", "institution_url": "http://www.doane.edu/", "institution_city": "Crete", "institution_state": "NE", "institution_country": "USA", "institution_latitude": "40.623191", "institution_longitude": "-96.95035" }, "enriched_sample": false, "discovery_notes": "Found near a tree on Doane University campus", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Myoviridae\r\nHead width- 104 nm\r\nTail length-80 nm", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AppleStrudel_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/AppleStrudel_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/AppleStrudel_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/AppleStrudel_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2017-12-13T08:28:04-05:00", "date_modified": "2020-09-17T14:09:07-04:00" }, { "phage_name": "AppleTac", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Athan Attia", "found_city": "Atlanta", "found_state": "GA", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2013, "p_institution": { "institution_code": "MORE", "institution_name": "Morehouse College", "institution_logo": "https://phagesdb.org/media/institutions/Morehouse_Logo.jpg", "institution_url": "http://www.morehouse.edu/", "institution_city": "Atlanta", "institution_state": "GA", "institution_country": "USA", "institution_latitude": "33.746175", "institution_longitude": "-84.41438" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2015-04-01T15:58:38-04:00", "date_modified": "2020-09-17T14:05:49-04:00" }, { "phage_name": "Appletree2", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Tina Slowan-Pomeroy", "found_city": "Reno", "found_state": "NV", "found_country": "USA", "found_GPS_lat": "39.3825 N", "found_GPS_long": "119.7416 W", "found_year": 2014, "p_institution": { "institution_code": "TMCC", "institution_name": "Truckee Meadows Community College", "institution_logo": "https://phagesdb.org/media/institutions/tmcc-logos-green.jpg", "institution_url": "http://www.tmcc.edu/", "institution_city": "Reno", "institution_state": "NV", "institution_country": "USA", "institution_latitude": "39.572241", "institution_longitude": "-119.7969" }, "enriched_sample": true, "discovery_notes": "From soil underneath an apple tree in a residential neighborhood.", "isolation_temperature": 37, "growth_notes": "", "pcluster": { "cluster": "L", "temperate": true }, "psubcluster": { "subcluster": "L1" }, "morphotype": "SIPHO", "plaque_notes": "Diameter of plaques: 0.85mm", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2014-12-18", "seq_facility": { "short_name": "NCSTATE", "facility_name": "NC State Genomic Sciences Laboratory", "contact_person": "Jenn Schaff", "shipping_address": "", "facility_website": "http://research.ncsu.edu/gsl/" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 1006, "finishing_reactions": 0, "genome_length": 73808, "gcpercent": "58.9", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "TCGAACGGCC", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": true, "is_phamerated": true, "num_ORFs": 125, "num_tRNAs": 8, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Appletree2_CompleteNotes.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Appletree2_Minimal_Final_OCBG7ay.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Appletree2_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Appletree2_CoverSheet.pdf", "submitted_annotation_date": "2017-06-02T10:12:55-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Appletree2.gbf", "qced_genbank_file_date": "2017-06-02T10:12:55-04:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MF185726", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Appletree2_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Appletree2_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Appletree2.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Appletree2_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Appletree2_EMPic_Thumb.jpg", "dnam_file": "https://phagesdb.org/media/dnam/Appletree2.dnam5", "date_added": "2014-12-19T21:14:57-05:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Applin", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Hira Khan, Anna Kim", "found_city": "Catonsville", "found_state": "MD", "found_country": "United States", "found_GPS_lat": "39.255487 N", "found_GPS_long": "76.712434 W", "found_year": 2025, "p_institution": { "institution_code": "UMBC", "institution_name": "University of Maryland, Baltimore County", "institution_logo": "https://phagesdb.org/media/institutions/UMBC_Logo.png", "institution_url": "http://www.umbc.edu/", "institution_city": "Baltimore", "institution_state": "MD", "institution_country": "USA", "institution_latitude": "39.256328", "institution_longitude": "-76.71072" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Streptomyces", "species": "mirabilis", "strain_name": "NRRL B-2400", "strain_species": { "id": 71, "genus": "Streptomyces", "species_name": "mirabilis", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 71, "genus": "Streptomyces", "species_name": "mirabilis", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Applin_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2025-09-22T08:59:14-04:00", "date_modified": "2025-10-28T15:44:17-04:00" }, { "phage_name": "Appo", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Our phage Appo was named after a clone trooper who served in the 501st Legion during Clone Wars in Star Wars.", "finder_name": "Estefan Flores, Mateo Gonzales", "found_city": "Spokane", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "47.666646 N", "found_GPS_long": "117.405173 W", "found_year": 2022, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "The sample was collected at the base of a tree next to Lake Arthur at Gonzaga University.\r\nThe soil was compact, the weather was overcast and cold, and it was found on January 19th, 2022.", "isolation_temperature": 22, "growth_notes": "", "pcluster": { "cluster": "EE", "temperate": false }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Our plaques are all uniformly circular ranging in size from 0.10 cm to 0.45 cm.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Appo_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/Appo_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-04-21T12:52:51-04:00", "date_modified": "2024-02-25T15:28:08-05:00" }, { "phage_name": "Approved", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "This phage was isolated in an area where dog excrement was buried repeatedly. The dog this came from was a family pet that sadly passed away a few years prior. They were always seeking attention and approval. This phage seemed to be the last attempt at gaining attention and approval. As such, that has become its name.", "finder_name": "Isabelle Eskanos", "found_city": "Palm harbor", "found_state": "FL", "found_country": "United States", "found_GPS_lat": "28.056944 N", "found_GPS_long": "82.741111 W", "found_year": 2021, "p_institution": { "institution_code": "USFL", "institution_name": "University of South Florida", "institution_logo": "https://phagesdb.org/media/institutions/UniversityofSouthFlorida.jpg", "institution_url": "http://www.usf.edu/", "institution_city": "Tampa", "institution_state": "FL", "institution_country": "USA", "institution_latitude": "28.058438", "institution_longitude": "-82.41395" }, "enriched_sample": true, "discovery_notes": "Discovery Conditions: Dry weather, secluded area, lower plant growth\r\nLocation: rural backyard to pet owners\r\nNotes: Large amounts of buried dog excrement in the immediate area", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Small, temperate plaques", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-10-11T11:43:32-04:00", "date_modified": "2022-03-16T11:01:40-04:00" }, { "phage_name": "Apricity", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Abby Petursson, Kestle Koeninger", "found_city": "Boulder", "found_state": "CO", "found_country": "United States", "found_GPS_lat": "39.997612 N", "found_GPS_long": "105.251025 W", "found_year": 2022, "p_institution": { "institution_code": "UCBO", "institution_name": "University of Colorado Boulder", "institution_logo": "https://phagesdb.org/media/institutions/Colorado.jpg", "institution_url": "http://www.colorado.edu/", "institution_city": "Boulder", "institution_state": "CO", "institution_country": "USA", "institution_latitude": "40.007799", "institution_longitude": "-105.2659" }, "enriched_sample": true, "discovery_notes": "The sample was collected out of a gravel bed. It was moist and the soil clumped together. Temperature ~10 degrees Celsius.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "cloudy plaques possibly indicating a temperate phage, ~5mm", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Apricity_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Apricity_EMPic.TIF", "digest_file": "https://phagesdb.org/media/digestPics/Apricity_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Apricity_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2022-11-29T14:55:23-05:00", "date_modified": "2025-09-22T10:07:26-04:00" }, { "phage_name": "Apricot", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The phage reminded us of an apricot.", "finder_name": "Brittany Niemann and Raven Poirier", "found_city": "Kenosha", "found_state": "WI", "found_country": "USA", "found_GPS_lat": "42.619701 N", "found_GPS_long": "87.821162 W", "found_year": 2016, "p_institution": { "institution_code": "CRTH", "institution_name": "Carthage College", "institution_logo": "https://phagesdb.org/media/institutions/Carthage-vert-2c.png", "institution_url": "http://www.carthage.edu/", "institution_city": "Kenosha", "institution_state": "WI", "institution_country": "USA", "institution_latitude": "42.624596", "institution_longitude": "-87.81996" }, "enriched_sample": true, "discovery_notes": "The soil taken from a garden bed and damp from the rain that had taken place the night before.", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "DN", "temperate": true }, "psubcluster": { "subcluster": "DN3" }, "morphotype": "SIPHO", "plaque_notes": "The head is curricular and the tail is long. The tail has some striations.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2017-01-24", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 1631, "finishing_reactions": 0, "genome_length": 52195, "gcpercent": "63.1", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "CGTTAGGCAT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 101, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Apricot_CompleteNotes_QYNJHuU.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Apricot_Minimal_Final_OVXiegz.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Apricot_Authors_G281x1r.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Apricot_CoverSheet_dSZoCY7.pdf", "submitted_annotation_date": "2018-06-19T16:41:23-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Apricot_flat.txt", "qced_genbank_file_date": "2018-06-19T16:41:23-04:00", "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MH536812", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Apricot.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2016-11-13T19:21:14-05:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "APridell2021", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I am proud of my research in the SEA PHAGES course which is why I chose my name as the name for my phage. I had to repeat steps in purifying my phage and spent a large amount of time into researching my phage. I am proud to have isolated and purified a siphovirdae phage.", "finder_name": "Anna Pridell", "found_city": "Albany", "found_state": "NY", "found_country": "United States", "found_GPS_lat": "42.649923 N", "found_GPS_long": "73.779145 E", "found_year": 2021, "p_institution": { "institution_code": "ACPS", "institution_name": "Albany College of Pharmacy and Health Sciences", "institution_logo": "https://phagesdb.org/media/institutions/apchsnav_logo.png", "institution_url": "https://www.acphs.edu/", "institution_city": "Albany", "institution_state": "NY", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "The soil sample was collected near a residential area of Albany College of Pharmacy & Health Sciences. The soil was more dry than wet, but maintained a little moisture. There were few rocks and the soil was at a temperature between warm and hot.", "isolation_temperature": 79, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "All plaques had the same morphology after purifying the sample twice. The plaques were small and around one millimeter in size. The plaques were formed closely together.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "rubripertincta", "strain_name": "NRRL B-16540", "strain_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-11-17T10:33:32-05:00", "date_modified": "2022-03-16T11:01:59-04:00" }, { "phage_name": "April", "old_names": "Bokhee", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name of the phage came from a character in the show Greys Anatomy.", "finder_name": "Carlie Haskell and Alex Wiegman", "found_city": "Boulder", "found_state": "CO", "found_country": "United States", "found_GPS_lat": "40.007508 N", "found_GPS_long": "105.271335 W", "found_year": 2023, "p_institution": { "institution_code": "UCBO", "institution_name": "University of Colorado Boulder", "institution_logo": "https://phagesdb.org/media/institutions/Colorado.jpg", "institution_url": "http://www.colorado.edu/", "institution_city": "Boulder", "institution_state": "CO", "institution_country": "USA", "institution_latitude": "40.007799", "institution_longitude": "-105.2659" }, "enriched_sample": true, "discovery_notes": "The sample was collected at 33 °F at 11:30 am on January 24th 2023. The sample was moist from being under snow and had a clay life texture. It directly out front of the Cristol Chemistry Building at the University of Colorado, Boulder.", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "The plaques are around 1mm in diameter with clear defined edges indicating lytic phage.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-04-26T13:47:58-04:00", "date_modified": "2024-02-25T15:28:24-05:00" }, { "phage_name": "APunk", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "This phage is named after a song called \"A-Punk\" by Vampire Weekend. The song is a bop, and my phage is an adorable little bacteria defeating \"punk\".", "finder_name": "Sophia Bieri", "found_city": "Grand Rapids", "found_state": "MI", "found_country": "United States", "found_GPS_lat": "42.915811 N", "found_GPS_long": "85.644374 W", "found_year": 2020, "p_institution": { "institution_code": "CALV", "institution_name": "Calvin University", "institution_logo": "https://phagesdb.org/media/institutions/CalvinLogo.png", "institution_url": "http://www.calvin.edu/", "institution_city": "Grand Rapids", "institution_state": "MI", "institution_country": "USA", "institution_latitude": "42.930074", "institution_longitude": "-85.58763" }, "enriched_sample": null, "discovery_notes": "Collected from the edge of Zuidema Soccer Field, behind the vR wing and parking lot 8. The soil was moist and clumpy.", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "DE", "temperate": false }, "psubcluster": { "subcluster": "DE4" }, "morphotype": "SIPHO", "plaque_notes": "Plaques were clear and circular, with diameters ranging from 1-2mm across. The edges were clear and defined. When plaques overlapped, the morphology became more difficult to ascertain.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2021-01-26", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 1256, "finishing_reactions": 0, "genome_length": 59154, "gcpercent": "67.7", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 88, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/APunk_CompleteNotes.txt", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/APunk_Minimal_Final_T2a1dot.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/APunk_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/APunk_CoverSheet.docx", "submitted_annotation_date": "2022-06-06T12:58:09-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/APunk_flat.txt", "qced_genbank_file_date": "2022-06-06T12:58:09-04:00", "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "ON755186", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/APunk_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/APunk_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/APunk.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2020-11-20T10:51:17-05:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Apuro", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name of my phage will be \"Apuro\" which means hurry or despair in Portuguese. I chose this name because, through the process of purification, I had a lot of ordeals. It seemed that everything would go wrong and that I wouldn't be able to proceed to the next step. I had a tough time and sometimes wanted to give up. I was hopeless, but somehow, I was able to do the purification and proceed to the next step. The name \"Apuro\" has a lot of meaning to me since I had many ordeals throughout my process. It will remind me of the challenging moments, and because of those hard times, I could get to the end and name my phage with the experience I obtained through this lab.", "finder_name": "Camila Santos Cunha", "found_city": "Quincy", "found_state": "MA", "found_country": "United States", "found_GPS_lat": "42.27102 N", "found_GPS_long": "71.01119 W", "found_year": 2022, "p_institution": { "institution_code": "ENZC", "institution_name": "Eastern Nazarene College", "institution_logo": "https://phagesdb.org/media/institutions/eastern_nazarene.png", "institution_url": "https://enc.edu/", "institution_city": "Quincy", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "I found the phage next to the Mann student center building. It was my second try of direct isolation. So, I picked the surface of the grass and placed it in a ziplock bag and proceeded with the protocols.", "isolation_temperature": 23, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The phage morphology is small and clear.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Apuro_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Apuro_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-11-07T08:15:02-05:00", "date_modified": "2024-02-25T15:27:53-05:00" }, { "phage_name": "Aqua", "old_names": "", "program": { "short_name": "MCG_Durban", "program_name": "Mycobacterial Genetics Course, Durban, South Africa", "program_blurb": "", "program_URL": "" }, "naming_notes": "it was named as such because found near water source.", "finder_name": "Nerolen Soobryan", "found_city": "Durban", "found_state": "", "found_country": "South Africa", "found_GPS_lat": "29.822523 N", "found_GPS_long": "30.951901 W", "found_year": 2013, "p_institution": { "institution_code": "KRIT", "institution_name": "University of Kwazulu-Natal", "institution_logo": "https://phagesdb.org/media/institutions/KwazNat-01.jpg", "institution_url": "http://www.ukzn.ac.za/Homepage.aspx", "institution_city": "", "institution_state": "", "institution_country": "", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "was found near a river outside the campus in sandy soil.\r\n\r\nit was subjected to one round of purification. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "it had small, clear plaques. they were round in shape and rough edges. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2013-07-11T11:08:18-04:00", "date_modified": "2017-09-24T10:16:29-04:00" }, { "phage_name": "AquaBloom", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "AquaBloom is named after an outfit\r\nfor my favorite character in a mobile\r\nrpg gacha game, Aqua Bloom Olivine.", "finder_name": "Akilah Stewart", "found_city": "Amherst", "found_state": "MA", "found_country": "United States of America", "found_GPS_lat": "42.393658 N", "found_GPS_long": "72.525773 W", "found_year": 2025, "p_institution": { "institution_code": "UMAS", "institution_name": "University of Massachusetts Amherst", "institution_logo": "https://phagesdb.org/media/institutions/UMassAmherst.png", "institution_url": "", "institution_city": "Amherst", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "The soil sample was collecting outside one of the campus dining halls near a bus stop. The patch of dirt was flat and devoid of most vegetation. Not a lot of rocks either.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques have a clear center and well defined edges that aren't fuzzy. Not very big, on average 1.5mm in diameter.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2025-10-21T10:13:01-04:00", "date_modified": "2025-10-21T10:13:01-04:00" }, { "phage_name": "Aquage", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "When naming my phage, I didnt get too creative, i just used the first half of my last name \"Aqua\" from aquino and combined it with age to be \"Aquage\"", "finder_name": "Michael Aquino", "found_city": "Charlton", "found_state": "MA", "found_country": "USA", "found_GPS_lat": "42.119994 N", "found_GPS_long": "42.119994 W", "found_year": 2016, "p_institution": { "institution_code": "WOPI", "institution_name": "Worcester Polytechnic Institute", "institution_logo": "https://phagesdb.org/media/institutions/WPI.png", "institution_url": "http://www.wpi.edu/", "institution_city": "Worcester", "institution_state": "MA", "institution_country": "United States", "institution_latitude": "42.274947", "institution_longitude": "-71.80640" }, "enriched_sample": true, "discovery_notes": "I discovered what i could within the 7 week period. Even though i did not get to fully complete each area of research, I still was able to obtain a phage and lysate from the collected sample. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Not Determined ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2016-12-15T16:31:02-05:00", "date_modified": "2020-09-17T14:07:46-04:00" }, { "phage_name": "Aquaman", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Inspired by DC comics.", "finder_name": "Katrina Deckinger and Orlando Lucabech", "found_city": "Greenville", "found_state": "PA", "found_country": "United States", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2020, "p_institution": { "institution_code": "THIE", "institution_name": "Thiel College", "institution_logo": "https://phagesdb.org/media/institutions/thiel.png", "institution_url": "https://www.thiel.edu/", "institution_city": "Greenville", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "The phage was found in a soil sample for a urban area a few feet away from a driveway and a few feet away from a house. Soil was moist and sample was collected on 8/18/20.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2020-09-04T08:13:31-04:00", "date_modified": "2021-01-28T11:04:01-05:00" }, { "phage_name": "Aquamarine", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "We chose this specific name for our phage because of where it was originally found. The sample was collected from near a lake so we wanted a name that had the word \"aqua\" in it to represent the water. Thus, we chose the name Aquamarine.", "finder_name": "Firdaus M, Anika N, Ryan E, Wuyan X", "found_city": "Amherst", "found_state": "MA", "found_country": "USA", "found_GPS_lat": "42.40763 N", "found_GPS_long": "72.53387 W", "found_year": 2023, "p_institution": { "institution_code": "UMAS", "institution_name": "University of Massachusetts Amherst", "institution_logo": "https://phagesdb.org/media/institutions/UMassAmherst.png", "institution_url": "", "institution_city": "Amherst", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "The sample was collected from some soil that was near a tiny lake. There was grass growing on the soil as well.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The size of the plaques were between 10 and 12 mm and they were clear. The plaques were all bullseye as well.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/aquamarine_plaque_thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/aquamarine_empic_thumb.jpg", "dnam_file": null, "date_added": "2023-10-24T15:09:47-04:00", "date_modified": "2024-08-05T15:23:00-04:00" }, { "phage_name": "Aquanaut", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Peyton Thompson", "found_city": "Harrisonburg", "found_state": "VA", "found_country": "USA", "found_GPS_lat": "38.43379 N", "found_GPS_long": "78.860286 W", "found_year": 2015, "p_institution": { "institution_code": "JAMU", "institution_name": "James Madison University", "institution_logo": "https://phagesdb.org/media/institutions/james_madisonp.png", "institution_url": "http://www.jmu.edu/", "institution_city": "Harrisonburg", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "38.435340", "institution_longitude": "-78.86975" }, "enriched_sample": null, "discovery_notes": "Found in wet soil near a water drain\r\nfound 9/23/15", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2015-10-30T12:46:25-04:00", "date_modified": "2020-09-17T14:06:48-04:00" }, { "phage_name": "Aquap1", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The soil was taken from standstill water. ", "finder_name": "Trisha S., Namra M., Juhi L. ", "found_city": "Plano", "found_state": "TX", "found_country": "USA", "found_GPS_lat": "33.050688 N", "found_GPS_long": "96.677027 W", "found_year": 2018, "p_institution": { "institution_code": "CLNC", "institution_name": "Collin College", "institution_logo": "https://phagesdb.org/media/institutions/CollinCollege_QGpldZv.jpg", "institution_url": "http://www.collin.edu/", "institution_city": "Plano", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "33.218037", "institution_longitude": "-96.64176" }, "enriched_sample": false, "discovery_notes": "Collected on 02/06/2018 at 8:40 am. Temp was 39*F", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "MYO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aquap1_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Aquap1_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Aquap1_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aquap1_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Aquap1_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2018-04-10T12:24:06-04:00", "date_modified": "2020-09-17T14:10:16-04:00" }, { "phage_name": "Aquaphant", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "the name comes from the fact that I the Elephant is my favorite animal that's where the \"Phant\" comes from, and the \"Aqua\" is because I like to read and believe in the Zodic and since my Zodiac sign is Aquarius i choose it to be part of my phage name", "finder_name": "Mailey Casimir", "found_city": "New York", "found_state": "NY", "found_country": "Nanuet", "found_GPS_lat": "41.0905 N", "found_GPS_long": "74.009333 W", "found_year": 2019, "p_institution": { "institution_code": "DCBL", "institution_name": "Dominican University New York", "institution_logo": "https://phagesdb.org/media/institutions/CV_DU_stacked_2022.png", "institution_url": "https://www.duny.edu/", "institution_city": "Orangeburg", "institution_state": "NY", "institution_country": "USA", "institution_latitude": "41.039643", "institution_longitude": "-73.94976" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": 21, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2019-11-08T18:46:05-05:00", "date_modified": "2021-01-28T11:04:02-05:00" }, { "phage_name": "Aquaphresh", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Elizabeth McCluskey", "found_city": "Philadelphia", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "39.957813 N", "found_GPS_long": "75.19066 W", "found_year": 2015, "p_institution": { "institution_code": "DRXL", "institution_name": "Drexel University", "institution_logo": "https://phagesdb.org/media/institutions/logo-drexel.jpg", "institution_url": "http://drexel.edu/", "institution_city": "Philadelphia", "institution_state": "PA", "institution_country": "United States", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "about 4mm, round, slightly turbid, hazy edges", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2016-01-05T10:41:21-05:00", "date_modified": "2020-09-17T14:06:42-04:00" }, { "phage_name": "Aquarian", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I named my phage Aquarian because my star sign is Aquarius.", "finder_name": "Ivana Ogunbor", "found_city": "Denton", "found_state": "TX", "found_country": "United States", "found_GPS_lat": "33.2075 N", "found_GPS_long": "97.1526 W", "found_year": 2020, "p_institution": { "institution_code": "UNTD", "institution_name": "University of North Texas", "institution_logo": "https://phagesdb.org/media/institutions/UNT-01.jpg", "institution_url": "http://www.unt.edu/", "institution_city": "Denton", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "33.207825", "institution_longitude": "-97.15253" }, "enriched_sample": true, "discovery_notes": "Collected soil from South West Denton at the coordinates 33.2075° N, 97.1526° W. The temperature was 90°F and the soil was moist. I used a plastic spoon to dig into the ground and collect the soil. I then put it into a plastic ziplock bag and named the sample \"soil\".", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "My plaques are small with distinct borders. The plaques are circular and have an average width of 2 mm.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Streptomyces", "species": "griseus", "strain_name": "ATCC 10137", "strain_species": { "id": 4, "genus": "Streptomyces", "species_name": "griseus", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "10137", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 4, "genus": "Streptomyces", "species_name": "griseus", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aquarian_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aquarian_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2020-10-06T14:28:06-04:00", "date_modified": "2021-01-28T11:04:06-05:00" }, { "phage_name": "Aquarius", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Stacee's astrological sign is Aquarius. The phage is named after her.", "finder_name": "Team We Phaged Up", "found_city": "Los Angeles", "found_state": "CA", "found_country": "USA", "found_GPS_lat": "34.0689 N", "found_GPS_long": "118.4452 W", "found_year": 2016, "p_institution": { "institution_code": "UCLA", "institution_name": "University of California, Los Angeles", "institution_logo": "https://phagesdb.org/media/institutions/UCLA.jpg", "institution_url": "http://www.ucla.edu/", "institution_city": "Los Angeles", "institution_state": "CA", "institution_country": "United States", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "Phage isolation, characterization, and annotation were performed by Team We Phaged Up: Stacee Mendonca, Christine Nguyen, Cameron Safarpour, and Stephanie Wottrich. \r\n\r\nThe phage was isolated by direct plating of nasal microcomedones obtained by a Biore pore strip. \r\n\r\nTAs: Rocky Ng and Andrew Lund; UA: Lariska Theron\r\nInstructors: Dr. Frances Mercer, Dr. Krisanavane Reddi, and Dr. Jordan Moberg Parker.", "isolation_temperature": 37, "growth_notes": "", "pcluster": { "cluster": "BU", "temperate": false }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Clear 3.5 mm plaques", "lysogeny_notes": "The phage appears lytic at first glance due to almost exclusively producing completely clear plaques on the bacterial law. However, bacterial growth was found to be present in the centers of plaques for certain clinical isolates of P. acnes analyzed from the results of the host range assay and select plates of MINI and MIDI phage lysates. This bacteria was isolated and tested for lysogenic character. Patch testing suggested the phage was indeed lysogenic, and spot testing suggested that the phage was also immune to superinfection in certain clinical isolates upon reinfection with the same phage (Aquarius). PCR was conducted using specific primers which correspond to genomic ends that are likely capable of circularization, which yielded a characteristic ~0.75 kb (~735 bp) band on the gel, suggesting the capacity of Aquarius for undergoing a pseudolysogenic life cycle.", "seq_finished": true, "date_finished": "2016-08-26", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 2841, "finishing_reactions": 0, "genome_length": 30112, "gcpercent": "54.5", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 11, "overhang_sequence": "TCGTACGGCTT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 48, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Aquarius_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2017-08-28T18:35:41-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Aquarius_flat.txt", "qced_genbank_file_date": "2017-08-28T18:35:41-04:00", "isolation_host": { "genus": "Propionibacterium", "species": "acnes", "strain_name": "ATCC 6919", "strain_species": { "id": 18, "genus": "Propionibacterium", "species_name": "acnes", "species_genus": { "id": 8, "genus_domain": "Bacteria", "genus_name": "Propionibacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "6919", "genbank_accession": "NZ_CP044255.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 18, "genus": "Propionibacterium", "species_name": "acnes", "species_genus": { "id": 8, "genus_domain": "Bacteria", "genus_name": "Propionibacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 8, "genus_domain": "Bacteria", "genus_name": "Propionibacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MF919491", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aquarius_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Aquarius_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Aquarius_Digest.tif", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Aquarius.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aquarius_Plaques_Thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/Aquarius_EMPic_thumb.png", "dnam_file": null, "date_added": "2016-05-16T08:21:51-04:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Aquarose", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I once made agarose with water and used it, so I received the nickname \"Aquarose\".", "finder_name": "Seth Schneider", "found_city": "Pullman", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "46.728269 N", "found_GPS_long": "117.165081 W", "found_year": 2013, "p_institution": { "institution_code": "WSHS", "institution_name": "Washington State University", "institution_logo": "https://phagesdb.org/media/institutions/logo-washington-state.jpg", "institution_url": "http://www.wsu.edu/", "institution_city": "Pullman", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "46.732132", "institution_longitude": "-117.1544" }, "enriched_sample": null, "discovery_notes": "This phage was discovered in a sample of fluffy, moist topsoil.", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "A", "temperate": true }, "psubcluster": { "subcluster": "A2" }, "morphotype": "SIPHO", "plaque_notes": "The plaques are about 4 millimeters in diameter, circular in shape, very turbid and contain a bull's eye in the center.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aquarose_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/Aquarose_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aquarose_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Aquarose_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2013-12-03T09:33:50-05:00", "date_modified": "2020-09-17T14:05:26-04:00" }, { "phage_name": "Aquasqueege", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name Aquasqueege comes from the location of where the phage sample was collected from. \"Aqua\" is a prefix that signifies water.", "finder_name": "Luna Duque, Patricia Rodriguez", "found_city": "Boca Raton", "found_state": "FL", "found_country": "United States", "found_GPS_lat": "26.33455 N", "found_GPS_long": "80.07266 W", "found_year": 2024, "p_institution": { "institution_code": "FLIU", "institution_name": "Florida International University", "institution_logo": "https://phagesdb.org/media/institutions/FIULogo.png", "institution_url": "http://www.fiu.edu/", "institution_city": "Miami", "institution_state": "FL", "institution_country": "USA", "institution_latitude": "25.758444", "institution_longitude": "-80.37617" }, "enriched_sample": true, "discovery_notes": "The sample was collected from moist and humid soil located near a beach", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "clear", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-11-05T11:26:49-05:00", "date_modified": "2025-07-11T12:34:17-04:00" }, { "phage_name": "Aquata", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name Aquata originates from a labeling mistake during one of our labs. Instead of the correct sample ID, AQUTA, one series of agar plates was labeled AQUATA. We liked the sound and history of this name, so we decided to make it the permanent name for this phage.", "finder_name": "L. Caramello, I. Selvitelli, M. Dhrubo, A. Killian", "found_city": "Amherst", "found_state": "MA", "found_country": "United States", "found_GPS_lat": "42.38939 N", "found_GPS_long": "72.52101 W", "found_year": 2023, "p_institution": { "institution_code": "UMAS", "institution_name": "University of Massachusetts Amherst", "institution_logo": "https://phagesdb.org/media/institutions/UMassAmherst.png", "institution_url": "", "institution_city": "Amherst", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "Collected from soil found under a tree in Central Residential Area at the University of Massachusetts in Amherst.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Aquata forms plaques which are roughly 1-2mm in diameter. The plaques are circular, with a clearly defined edge and clear center. As plaques grow larger than 1mm a bullseye morphology becomes clear to see, though it can be seen starting to appear in slightly smaller plaques as well.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/aquata_plaque_thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/aquata_empic_thumb.jpg", "dnam_file": null, "date_added": "2023-11-06T08:40:58-05:00", "date_modified": "2024-08-05T11:14:42-04:00" }, { "phage_name": "AquaticRice", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Tara and Philly", "found_city": "Corpus Christi", "found_state": "TX", "found_country": "USA", "found_GPS_lat": "27.7637 N", "found_GPS_long": "97.4083 E", "found_year": 2016, "p_institution": { "institution_code": "DLMR", "institution_name": "Del Mar College", "institution_logo": "https://phagesdb.org/media/institutions/DelMarLogo_.jpg", "institution_url": "http://www.delmar.edu/", "institution_city": "Corpus Christi", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "27.764369", "institution_longitude": "-97.40711" }, "enriched_sample": true, "discovery_notes": "Found in a flower bed on the corner of Edwards and Naples St. Soil was based within mulch and was slightly moist. ", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/AquaticRice_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/AquaticRice_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2016-09-29T18:21:38-04:00", "date_modified": "2020-09-17T14:07:15-04:00" }, { "phage_name": "AquaTrio", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Most of the plagues that were isolated were 0.3cm in diameter, which originated the Trio part of the name, and the soil where the plague lived in was moist, thus creating the hydro part of the name.", "finder_name": "Estephani Murillo", "found_city": "Denton", "found_state": "TX", "found_country": "Denton", "found_GPS_lat": "33.2416 N", "found_GPS_long": "97.1514 W", "found_year": 2020, "p_institution": { "institution_code": "UNTD", "institution_name": "University of North Texas", "institution_logo": "https://phagesdb.org/media/institutions/UNT-01.jpg", "institution_url": "http://www.unt.edu/", "institution_city": "Denton", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "33.207825", "institution_longitude": "-97.15253" }, "enriched_sample": null, "discovery_notes": "AquaTrio was located in a moist area near several lotus flowers.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "AquaTrio has a common structure of a clear circle with a diameter of 0.3cm.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": { "short_name": "UNT", "facility_name": "University of North Texas", "contact_person": "Richard Hale/Lee Hughes", "shipping_address": "", "facility_website": "" }, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Streptomyces", "species": "griseus", "strain_name": "ATCC 10137", "strain_species": { "id": 4, "genus": "Streptomyces", "species_name": "griseus", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "10137", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 4, "genus": "Streptomyces", "species_name": "griseus", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AquaTrio_Plaque_lWa4u84", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/AquaTrio_Digest_eXV0jvH.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2020-11-02T12:40:11-05:00", "date_modified": "2021-01-28T11:04:06-05:00" }, { "phage_name": "AquaVermis", "old_names": "Hydrolida", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Because we dug deep compared to our other samples, we compared our bacteriophage to a worm. The scientific name of the worm is “Annelida”. Additionally, we found this bacteriophage near the water, so we thought of “Hydro-“. As a result, we named it “Hydrolida” using both parts.", "finder_name": "David Nguyen, Mason Curtis, JR Caceres", "found_city": "Spokane", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "47.665149 N", "found_GPS_long": "117.404204 W", "found_year": 2023, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "The sample was collected from a mossy rocky dirt patch on the shore of Lake Arthur of Gonzaga University. Compared to our other samples we collected, this one we dug about 5-6 inches into the ground to collect. At this depth, the soil collected was pretty moist.", "isolation_temperature": 22, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "At higher concentrations, the plaques are pretty tiny and round. It has a defined border but a cloudy clearing. However, at lower concentrations, the plaques change in their morphology. The plaques appear larger, have undefined borders, and even more cloudy clearing.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Hydrolida_Plaque.jpeg", "em_file": "https://phagesdb.org/media/emPics/Hydrolida_EMPic.tiff", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/AquaVermis_Plaque_thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/AquaVermis_EMPic_thumb.jpg", "dnam_file": null, "date_added": "2023-12-05T12:19:12-05:00", "date_modified": "2024-10-08T10:20:05-04:00" }, { "phage_name": "Aquawharf", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The phage was found at the aquarium wharf located in downtown Charleston. ", "finder_name": "Sara Buschak", "found_city": "Charleston", "found_state": "SC", "found_country": "USA", "found_GPS_lat": "32.791148 N", "found_GPS_long": "79.926286 E", "found_year": 2017, "p_institution": { "institution_code": "CCHA", "institution_name": "College of Charleston", "institution_logo": "https://phagesdb.org/media/institutions/cofc_logo_red.jpg", "institution_url": "http://www.cofc.edu/", "institution_city": "Charleston", "institution_state": "SC", "institution_country": "USA", "institution_latitude": "32.783974", "institution_longitude": "-79.93820" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2017-04-05T23:01:33-04:00", "date_modified": "2017-04-24T13:10:28-04:00" }, { "phage_name": "Aquila", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name for this phage comes from the constellation Aquila, or the eagle. ", "finder_name": "Sabrina Conte", "found_city": "Baltimore", "found_state": "MD", "found_country": "USA", "found_GPS_lat": "39.2872 N", "found_GPS_long": "76.6128 W", "found_year": 2016, "p_institution": { "institution_code": "JHOU", "institution_name": "Johns Hopkins University", "institution_logo": "https://phagesdb.org/media/institutions/johns_hopkins_university.png", "institution_url": "http://www.jhu.edu/", "institution_city": "Baltimore", "institution_state": "MD", "institution_country": "USA", "institution_latitude": "39.330171", "institution_longitude": "-76.62047" }, "enriched_sample": null, "discovery_notes": "This phage was discovered in a bioretention zone in Baltimore's Inner Harbor neighborhood. It was found in slightly damp soil at an approximate temperature of 77 degrees Fahrenheit. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "This phage forms plaques that are 3-5 mm in diameter and cloudy (turbid) at the edges, most likely indicating a temperate phage. Because of its large size, it clears plates very easily. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": { "short_name": "UPitt GPCL", "facility_name": "University of Pittsburgh Genomics and Proteomics Core Laboratories", "contact_person": "", "shipping_address": "", "facility_website": "http://www.genetics.pitt.edu/" }, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aquila_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/Aquila_EMPic.png", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aquila_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Aquila_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2016-12-05T22:29:46-05:00", "date_modified": "2020-09-17T14:09:24-04:00" }, { "phage_name": "AquilaMYB", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Divya Sai Naidugari", "found_city": "Bowling Green", "found_state": "KY", "found_country": "United States", "found_GPS_lat": "36.984784 N", "found_GPS_long": "86.456437 W", "found_year": 2021, "p_institution": { "institution_code": "WEKU", "institution_name": "Western Kentucky University", "institution_logo": "https://phagesdb.org/media/institutions/wkucuptallrb.jpg", "institution_url": "http://www.wku.edu/", "institution_city": "Bowling Green", "institution_state": "KY", "institution_country": "USA", "institution_latitude": "36.985737", "institution_longitude": "-86.45552" }, "enriched_sample": true, "discovery_notes": "DNA Isolation was performed followed by DNA purification. Brian was here\r\n\r\nDuring this process, filtration and centrifugation was used to separate components in my supernatant.\r\n\r\nUsing a series of spin columns and barrels and nuclease treated phage lysate, I pushed all of the contents into a microcentrifuge tube.\r\n\r\nDNA purification was achieved by a series of serial dilutions.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Extremely turbid plaques\r\n1.5 - 2 millimeters \r\ndispersed along petri plate\r\ntwo or more plaque capsids together\r\na few plaques completely isolated", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": true, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AquilaMYB_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/AquilaMYB_EMPic.TIF", "digest_file": "https://phagesdb.org/media/digestPics/AquilaMYB_Digest.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/AquilaMYB_Plaque_Picture_200pixel_jpg.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Divya_Naidugari_002_200pixel_JPG.jpg", "dnam_file": null, "date_added": "2021-10-07T15:10:41-04:00", "date_modified": "2022-03-16T11:02:04-04:00" }, { "phage_name": "Araba", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name Araba came from a character in the novel \"So I'm a Spider, So What?\". Araba is a dragon in the story.", "finder_name": "Marcus Royster", "found_city": "Williamsburg", "found_state": "VA", "found_country": "United States of America", "found_GPS_lat": "37.27146 N", "found_GPS_long": "76.71656 W", "found_year": 2021, "p_institution": { "institution_code": "CWAM", "institution_name": "College of William & Mary", "institution_logo": "https://phagesdb.org/media/institutions/william_and_mary-01.jpg", "institution_url": "http://www.wm.edu/", "institution_city": "Williamsburg", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "37.272588", "institution_longitude": "-76.71691" }, "enriched_sample": true, "discovery_notes": "I got my sample from the mud at the edge of a pond.", "isolation_temperature": 32, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-12-08T11:26:39-05:00", "date_modified": "2024-02-25T15:28:04-05:00" }, { "phage_name": "Arabella", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named after an Arctic Monkeys song.", "finder_name": "Avery Banavage", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.441491 N", "found_GPS_long": "79.957521 W", "found_year": 2016, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "Phage Arabella was discovered on September 19, 2016 at approximately 8:00 am. Upon soil collection, the soil was damp and the temperate was 18.89 degrees Celsius. The weather was overcast as it had rained the previous night. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Phage Arabella produces slightly ovular clear plaques with a length of approximately 1.5mm.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arabella_Plaque.JPG", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arabella_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2016-10-12T09:02:41-04:00", "date_modified": "2020-09-17T14:07:42-04:00" }, { "phage_name": "Arabia", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "It is named after the Arabian Peninsula", "finder_name": "Farah Mirza", "found_city": "Denton", "found_state": "TX", "found_country": "United States", "found_GPS_lat": "33.212535 N", "found_GPS_long": "97.14888 W", "found_year": 2020, "p_institution": { "institution_code": "UNTD", "institution_name": "University of North Texas", "institution_logo": "https://phagesdb.org/media/institutions/UNT-01.jpg", "institution_url": "http://www.unt.edu/", "institution_city": "Denton", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "33.207825", "institution_longitude": "-97.15253" }, "enriched_sample": true, "discovery_notes": "This sample was collected from the soil outside of the Life Sciences building at the University of North Texas. The soil was a dark brown color. The temperature outside was 45°F and it was raining.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques were round and clear, they were different in sizes, but the average measurement is 0.5 mm.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Streptomyces", "species": "sanglieri", "strain_name": "UNT16F27A", "strain_species": { "id": 73, "genus": "Streptomyces", "species_name": "sanglieri", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 73, "genus": "Streptomyces", "species_name": "sanglieri", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arabia_Plaque_8iMgqZ8.png", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arabia_Plaque_Thumb_0mnAxsy.png", "em_thumb_file": null, "dnam_file": null, "date_added": "2020-04-20T08:52:27-04:00", "date_modified": "2021-01-28T11:04:06-05:00" }, { "phage_name": "Arabica", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "This phage is named after one of the two dominant species of coffee. Its species is the most cultivated. ", "finder_name": "Jonathan Vera", "found_city": "Corpus Christi", "found_state": "TX", "found_country": "USA", "found_GPS_lat": "27.68425 N", "found_GPS_long": "97.354766 W", "found_year": 2018, "p_institution": { "institution_code": "DLMR", "institution_name": "Del Mar College", "institution_logo": "https://phagesdb.org/media/institutions/DelMarLogo_.jpg", "institution_url": "http://www.delmar.edu/", "institution_city": "Corpus Christi", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "27.764369", "institution_longitude": "-97.40711" }, "enriched_sample": null, "discovery_notes": "The site is a park popular for walking dogs. ", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arabica_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Arabica_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arabica_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Arabica_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2018-11-28T19:03:43-05:00", "date_modified": "2020-09-17T14:09:54-04:00" }, { "phage_name": "Araceli", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "This phage was named after my grandmother, Lola Cely.", "finder_name": "Rebecca Aseo", "found_city": "Denton", "found_state": "TX", "found_country": "USA", "found_GPS_lat": "33.2077 N", "found_GPS_long": "97.1524 W", "found_year": 2018, "p_institution": { "institution_code": "UNTD", "institution_name": "University of North Texas", "institution_logo": "https://phagesdb.org/media/institutions/UNT-01.jpg", "institution_url": "http://www.unt.edu/", "institution_city": "Denton", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "33.207825", "institution_longitude": "-97.15253" }, "enriched_sample": false, "discovery_notes": "Soil sample was collected on 1/23/18 at 3:18 PM, at 60 degrees Fahrenheit. Soil quality was moist and loose.", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "BH", "temperate": false }, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaques are clear and round, with 1 mm diameter.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2019-01-15", "seq_facility": { "short_name": "UNTHEALTH", "facility_name": "University of North Texas Health Science Center", "contact_person": "", "shipping_address": "", "facility_website": "https://www.unthsc.edu/" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 195, "finishing_reactions": 0, "genome_length": 55045, "gcpercent": "68.2", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 81, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Araceli_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2019-07-19T16:11:38-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Araceli_flat.txt", "qced_genbank_file_date": "2019-07-19T16:11:38-04:00", "isolation_host": { "genus": "Streptomyces", "species": "griseus", "strain_name": "ATCC 10137", "strain_species": { "id": 4, "genus": "Streptomyces", "species_name": "griseus", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "10137", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 4, "genus": "Streptomyces", "species_name": "griseus", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MN224564", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Araceli_Plaque_dACS711.jpeg", "em_file": "https://phagesdb.org/media/emPics/Araceli_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Araceli_Digest_mAC0enW.jpeg", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Araceli.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Araceli_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2018-03-14T08:40:31-04:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Arachne", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Phages kind of remind me of spiders. In Greek mythology, Arachne was a woman transformed into a spider by Athena.", "finder_name": "Lee Kendall", "found_city": "Danville", "found_state": "KY", "found_country": "USA", "found_GPS_lat": "37.647283 N", "found_GPS_long": "84.778778 W", "found_year": 2017, "p_institution": { "institution_code": "CNTR", "institution_name": "Centre College", "institution_logo": "https://phagesdb.org/media/institutions/CentreCollege-300x225.jpg", "institution_url": "https://www.centre.edu/", "institution_city": "Danville", "institution_state": "KY", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "The soil sample was collected on March 5, 2017 at 1:28 PM. It was 61 degrees Fahrenheit/ 16 degrees Celsius. The sample was collected from right under a tree, about a couple feet from the trunk. The soil was dry, and I only dug down about 2 cm to collect this sample. The site of soil collection was close to a parking lot and a soccer field.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques are relatively small and seem to exhibit some size variance. The sizes can range from about 0.4 - 1.2 mm in diameter. The plaques are all clear with defined borders.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arachne_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arachne_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2017-05-01T07:21:44-04:00", "date_modified": "2020-09-17T14:08:18-04:00" }, { "phage_name": "Arachnid", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "We chose this name because the original plate that we got the phage from was a webbed plate", "finder_name": "Brooke Hutchison", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "United Stated", "found_GPS_lat": "40.444002 N", "found_GPS_long": "79.953594 W", "found_year": 2025, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "Brooke Hutchison\r\nDahlia Francis\r\nJamiera Jones\r\nOluseyi Oduntan\r\nIt was collected under a tree in the city of Pittsburgh near the Cathedral of Learning. There was both green space and pavement near the tree. The soil was black, soft, and loose, with some roots in it.\r\nThe sample was collected during the Fall semester of 2025 on August 24, 2025.\r\nThe instructor's name is Dr. Christina Grogan", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arachnid_Plaque.jpeg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2025-09-17T09:13:48-04:00", "date_modified": "2025-10-20T12:29:28-04:00" }, { "phage_name": "Aragog", "old_names": "", "program": null, "naming_notes": "Aragog the Acromantula may be dead but Aragog the Phage will live forever. ", "finder_name": "Team Gangrene Style", "found_city": "Los Angeles", "found_state": "CA", "found_country": "USA", "found_GPS_lat": "34.068321 N", "found_GPS_long": "118.449322 W", "found_year": 2012, "p_institution": { "institution_code": "UCLA", "institution_name": "University of California, Los Angeles", "institution_logo": "https://phagesdb.org/media/institutions/UCLA.jpg", "institution_url": "http://www.ucla.edu/", "institution_city": "Los Angeles", "institution_state": "CA", "institution_country": "United States", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "Phage Aragog was isolated from a sample collected by Moses Zhang on October 4th, 2012, taken at a depth of 6 cm underneath a peach tree in front of University Lutheran Chapel, Los Angeles, CA. Isolation and morphological characterization of Phage Aragog was done by Team Gangrene Style (Emma Goodwin, Mohammad Hamad, Eden Maloney, Viviana Quintana). TA: Jovo Vijanderan. Instructor: Payam Benyamini. Laboratory Support: Krisanavane Reddi. Annotation was done by Team Plaque to the Future (Joshua Imperial, Thomas Kwak, Jackson Steinberg, Julie Yu), and Eric Zhou. Instructor: Jordan Moberg Parker.", "isolation_temperature": 35, "growth_notes": "", "pcluster": { "cluster": "A", "temperate": true }, "psubcluster": { "subcluster": "A5" }, "morphotype": "SIPHO", "plaque_notes": "Clear plaques", "lysogeny_notes": "Plaques are clear, genome contains an integrase.", "seq_finished": true, "date_finished": "2013-09-18", "seq_facility": { "short_name": "UCLA", "facility_name": "The UCLA Genotyping and Sequencing Core", "contact_person": "", "shipping_address": "", "facility_website": "http://www.genoseq.ucla.edu/" }, "seq_method": { "short_name": "454", "method_name": "454" }, "coverage": 76, "finishing_reactions": 0, "genome_length": 50812, "gcpercent": "60.8", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "CGGGAGGTAA", "sequencing_notes": "This phage had a sequencing issue sometimes seen in Cluster A or Cluster F mycobacteriophages. It seems that some of the phages in the population from which DNA was extracted had a region of their genome deleted. This region is from 45807 to 48860, inclusive, making it 3054 bp long. The final fasta file includes the deleted region since we like to report the full sequence, even though this area had only about half the coverage of the genome as a whole.", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 86, "num_tRNAs": 1, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Aragog_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2017-09-18T17:27:19-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Aragog_flat.txt", "qced_genbank_file_date": "2017-09-18T17:27:19-04:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": true, "paper_published_in": { "title": "Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity", "abstract": "The bacteriophage population is large, dynamic, ancient, and genetically diverse. Limited genomic information shows that phage genomes are mosaic, and the genetic architecture of phage populations remains ill-defined. To understand the population structure of phages infecting a single host strain, we isolated, sequenced, and compared 627 phages of Mycobacterium smegmatis. Their genetic diversity is considerable, and there are 28 distinct genomic types (clusters) with related nucleotide sequences. However, amino acid sequence comparisons show pervasive genomic mosaicism, and quantification of inter-cluster and intra-cluster relatedness reveals a continuum of genetic diversity, albeit with uneven representation of different phages. Furthermore, rarefaction analysis shows that the mycobacteriophage population is not closed, and there is a constant influx of genes from other sources. Phage isolation and analysis was performed by a large consortium of academic institutions, illustrating the substantial benefits of a disseminated, structured program involving large numbers of freshman undergraduates in scientific discovery. ", "full_author_list": "Pope WH, Bowman CA, Russell DA, Jacobs-Sera D, Asai DJ, Cresawn SG, Jacobs WR, Hendrix RW, Lawrence JG, Hatfull GF; Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science; Phage Hunters Integrating Research and Education; Mycobacterial Genetics Course", "short_author_list": "Pope, Bowman, Russell, et al", "article_url": "http://elifesciences.org/content/4/e06416", "journal": "eLIFE", "journal_volume": "4", "journal_issue": "", "journal_pages": "", "pub_year": "2015", "pubmed_id": "25919952" }, "in_genbank": true, "genbank_accession": "MG099937", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aragog_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Aragog_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Aragog.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aragog_plaque_thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/Aragog_EMPic_thumb.png", "dnam_file": null, "date_added": "2013-09-18T11:28:50-04:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Aragon", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name for this phage came from Lord of the Rings by J. R. R. Tolkien. It's named after Aragorn,who's one of the main characters in this series.", "finder_name": "Becky Baldwin and Eliot Edelen O'Brien", "found_city": "Spokane", "found_state": "WA", "found_country": "US", "found_GPS_lat": "47.668391 N", "found_GPS_long": "117.400884 W", "found_year": 2020, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "This phage was discovered in the soil under the lawn outside the DeSmet dorm at Gonzaga University in Spokane, WA.", "isolation_temperature": 23, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "We focused on the third plaque plate in our picture from Feb 13, with the heart-shaped plaque. Here, the plaques were more isolated. This is the result of a pure phage population, and the average plaque size is 10 mm. Most of our plaques were round and circular.\r\n\r\n(note: unfortunately we don't have a TEM image because our last lab didn't go as planned before quarantine.)", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aragon_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aragorn_Plaque_Thumb.png", "em_thumb_file": null, "dnam_file": null, "date_added": "2020-05-02T19:04:18-04:00", "date_modified": "2021-01-28T11:04:19-05:00" }, { "phage_name": "Araign", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "This name is derived from the French word for \"spider,\" since that is what phages first reminded me of upon first viewing. ", "finder_name": "Pamela Lisowski", "found_city": "Elk Mound", "found_state": "WI", "found_country": "USA", "found_GPS_lat": "44.917585 N", "found_GPS_long": "91.743202 E", "found_year": 2017, "p_institution": { "institution_code": "UWRF", "institution_name": "University of Wisconsin-River Falls", "institution_logo": "https://phagesdb.org/media/institutions/university_of_wisconsin_river_falls.png", "institution_url": "http://www.uwrf.edu/", "institution_city": "River Falls", "institution_state": "WI", "institution_country": "USA", "institution_latitude": "44.853133", "institution_longitude": "-92.62258" }, "enriched_sample": true, "discovery_notes": "The soil was taken from a moist and humid environment. The temperature was 63 degrees Fahrenheit when it was taken. The location of the soil extraction was underneath a lean-to that was connected to a barn. The sample was taken from the area between the barn wall and the second support floor beam. The soil sample was taken 15 mm deep in the ground. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "The agar plates of this phage produced small, clear, circular plaques. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "sp. ", "strain_name": "ATCC 21022", "strain_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "21022", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Araign_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Araign_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Araign_Digest.tif", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Araign_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Araign_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2017-11-09T07:38:42-05:00", "date_modified": "2020-09-17T14:09:19-04:00" }, { "phage_name": "Araneam", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I named it Aráneam, which is the Latin word for spider. I named it this because the phage demonstrated a remarkable ability to make web plates.", "finder_name": "Scott Buchanan", "found_city": "Hartford", "found_state": "CT", "found_country": "USA", "found_GPS_lat": "41.746601 N", "found_GPS_long": "72.691341 W", "found_year": 2013, "p_institution": { "institution_code": "TRIN", "institution_name": "Trinity College", "institution_logo": "https://phagesdb.org/media/institutions/TrinityLogo_Htfrd_seal2colr.jpg", "institution_url": "http://www.trincoll.edu/", "institution_city": "Hartford", "institution_state": "CT", "institution_country": "USA", "institution_latitude": "41.747306", "institution_longitude": "-72.69037" }, "enriched_sample": true, "discovery_notes": "The soil sample was collected from the base of a tree in front of the art building. There is a lot of traffic through that area. I dug down three centimeters into the dark and moist soil to harvest the sample. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques created by Aráneam are all cleared plaques. There are no bulls-eyes or halos. The plaques after 24 hours were 1.5 mm on average and after 48 hours, they were 2.5 mm on average.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2013-11-19T16:36:56-05:00", "date_modified": "2020-09-17T14:05:21-04:00" }, { "phage_name": "AranulaLuti", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "From Latin \"Aranea\" (Spider) feminine diminutive form. and \"Lutum\" (Soil, Mud) genitive form", "finder_name": "Joseph Staples, Natalie Schneider", "found_city": "saint louis", "found_state": "MO", "found_country": "United States", "found_GPS_lat": "38.567684 N", "found_GPS_long": "90.421637 W", "found_year": 2021, "p_institution": { "institution_code": "STLC", "institution_name": "St. Louis Community College", "institution_logo": "https://phagesdb.org/media/institutions/StLouisCommunityCollege.png", "institution_url": "https://www.stlcc.edu/", "institution_city": "St. Louis", "institution_state": "MO", "institution_country": "USA", "institution_latitude": "38.629046", "institution_longitude": "-90.27866" }, "enriched_sample": true, "discovery_notes": "Sample was from a St. Louis Community College flower bed, dry, crumbly, collected from about 3 inches of depth.", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "EA", "temperate": false }, "psubcluster": { "subcluster": "EA1" }, "morphotype": "", "plaque_notes": "once purified, plaques became clear, transparent, and roughly 1/2\" in diameter.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2021-08-23", "seq_facility": { "short_name": "NCSTATE", "facility_name": "NC State Genomic Sciences Laboratory", "contact_person": "Jenn Schaff", "shipping_address": "", "facility_website": "http://research.ncsu.edu/gsl/" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 4446, "finishing_reactions": 0, "genome_length": 41550, "gcpercent": "63.4", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 62, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/AranulaLuti_CompleteNotes.xlsx", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/AranulaLuti_Minimal_Final_mcgcUOW.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/AranulaLuti_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/AranulaLuti_CoverSheet.docx", "submitted_annotation_date": "2023-04-25T14:05:41-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/AranulaLuti.gbf", "qced_genbank_file_date": "2023-04-25T14:05:41-04:00", "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "OQ938577", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/AranulaLuti.fasta", "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Aranulum_EMPic_Thumb.png", "dnam_file": null, "date_added": "2021-03-29T12:01:58-04:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Arataki", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named after Arataki Itto, a video game character.", "finder_name": "Jae Kim", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "United States of America", "found_GPS_lat": "40.446795 N", "found_GPS_long": "79.964165 W", "found_year": 2023, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "DJ", "temperate": false }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Clear", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2024-07-01", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 15696, "finishing_reactions": 0, "genome_length": 60488, "gcpercent": "51.6", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 9, "overhang_sequence": "CGCCGCTCT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 91, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Arataki_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2025-06-30T10:36:45-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Arataki_flat.txt", "qced_genbank_file_date": "2025-06-30T10:36:45-04:00", "isolation_host": { "genus": "Gordonia", "species": "rubripertincta", "strain_name": "NRRL B-16540", "strain_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", 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"2018-12-07T21:09:29-05:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Arayna", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named after me", "finder_name": "Arayna Hardcastle", "found_city": "Butte", "found_state": "MT", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2014, "p_institution": { "institution_code": "MTEC", "institution_name": "Montana Technological University", "institution_logo": "https://phagesdb.org/media/institutions/mtechlogo.png", "institution_url": "http://www.mtech.edu/", "institution_city": "Butte", "institution_state": "MT", "institution_country": "USA", "institution_latitude": "46.012558", "institution_longitude": "-112.5576" }, "enriched_sample": null, "discovery_notes": "Was found in a flower garden ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": 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null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arayna_Plaque_Thumb_vI1V7tb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Arayna_EMPic_Thumb_iuKEIDi.jpg", "dnam_file": null, "date_added": "2014-10-23T12:40:11-04:00", "date_modified": "2020-09-17T14:05:38-04:00" }, { "phage_name": "Arbab21YSO", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I used my last name, the year it was found and YSO initial which is very dear to me.", "finder_name": "Omi Arbabzada", "found_city": "Fairfax", "found_state": "VA", "found_country": "United States", "found_GPS_lat": "38.828329 N", "found_GPS_long": "77.307115 W", "found_year": 2021, "p_institution": { "institution_code": "GEMA", "institution_name": "George Mason University", "institution_logo": "https://phagesdb.org/media/institutions/GeorgeMason_YjNctcY.jpg", "institution_url": "https://www.gmu.edu/", "institution_city": "Fairfax", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "Lytic Bacteriophage found at Innovation Garden, George Mason University", "isolation_temperature": 2, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "rubripertincta", "strain_name": "NRRL B-16540", "strain_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-05-04T11:14:41-04:00", "date_modified": "2021-10-15T14:03:20-04:00" }, { "phage_name": "Arbiter", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "John Cadena", "found_city": "Fredericksburg", "found_state": "VA", "found_country": "USA", "found_GPS_lat": "38.303522 N", "found_GPS_long": "77.476142 W", "found_year": 2010, "p_institution": { "institution_code": "UMAW", "institution_name": "University of Mary Washington", "institution_logo": "https://phagesdb.org/media/institutions/MaryWashington.png", "institution_url": "http://www.umw.edu/", "institution_city": "Fredericksburg", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "38.301709", "institution_longitude": "-77.47360" }, "enriched_sample": true, "discovery_notes": "The soil sample was taken from the bank of a small stream on August 30, 2010 on a sunny 82°F day. The area was a moist environment composed of much vegetation. The type of soil acquired was light brown silt two feet from the stream and an inch down form the surface.", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "B", "temperate": false }, "psubcluster": { "subcluster": "B2" }, "morphotype": "SIPHO", "plaque_notes": "large quantity of one and a half millimeter, clear, lytic plaques", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2011-01-13", "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": 67169, "gcpercent": "68.9", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": true, "is_phamerated": true, "num_ORFs": 88, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": true, "paper_published_in": { "title": "Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity", "abstract": "The bacteriophage population is large, dynamic, ancient, and genetically diverse. Limited genomic information shows that phage genomes are mosaic, and the genetic architecture of phage populations remains ill-defined. To understand the population structure of phages infecting a single host strain, we isolated, sequenced, and compared 627 phages of Mycobacterium smegmatis. Their genetic diversity is considerable, and there are 28 distinct genomic types (clusters) with related nucleotide sequences. However, amino acid sequence comparisons show pervasive genomic mosaicism, and quantification of inter-cluster and intra-cluster relatedness reveals a continuum of genetic diversity, albeit with uneven representation of different phages. Furthermore, rarefaction analysis shows that the mycobacteriophage population is not closed, and there is a constant influx of genes from other sources. Phage isolation and analysis was performed by a large consortium of academic institutions, illustrating the substantial benefits of a disseminated, structured program involving large numbers of freshman undergraduates in scientific discovery. ", "full_author_list": "Pope WH, Bowman CA, Russell DA, Jacobs-Sera D, Asai DJ, Cresawn SG, Jacobs WR, Hendrix RW, Lawrence JG, Hatfull GF; Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science; Phage Hunters Integrating Research and Education; Mycobacterial Genetics Course", "short_author_list": "Pope, Bowman, Russell, et al", "article_url": "http://elifesciences.org/content/4/e06416", "journal": "eLIFE", "journal_volume": "4", "journal_issue": "", "journal_pages": "", "pub_year": "2015", "pubmed_id": "25919952" }, "in_genbank": true, "genbank_accession": "JN618996", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arbiter_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Arbiter_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Arbiter.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arbiter_Plaque_Thumb_iLYogQQ.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Arbiter_EMPic_Thumb_QWXaWDV.jpg", "dnam_file": null, "date_added": "2011-01-12T08:44:08-05:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Arbol", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Ashley Boone", "found_city": "Gettysburg ", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "39.835647 N", "found_GPS_long": "77.235566 W", "found_year": 2012, "p_institution": { "institution_code": "GTTY", "institution_name": "Gettysburg College", "institution_logo": "https://phagesdb.org/media/institutions/Gettysburg_College.png", "institution_url": "http://www.gettysburg.edu/", "institution_city": "Gettysburg", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "39.836144", "institution_longitude": "-77.23780" }, "enriched_sample": null, "discovery_notes": "Weather- warm and cloudy\r\nSoil Conditions- moist\r\nTime and Date- 3:00 pm 8/27/2012", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arbol_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/Arbol_EMPic.JPG", "digest_file": "https://phagesdb.org/media/digestPics/Arbol_Digest.JPG", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arbol_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Arbol_EMPic_Thumb.png", "dnam_file": null, "date_added": "2012-10-15T04:23:49-04:00", "date_modified": "2020-08-03T09:04:10-04:00" }, { "phage_name": "Arbor", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "This Phage was found at the base of a tree.So we named the phage after \"tree\" in Latin \"Arbor\".", "finder_name": "Ellie Crocker and Bailey White", "found_city": "Spokane", "found_state": "WA", "found_country": "U.S", "found_GPS_lat": "47.66623 N", "found_GPS_long": "117.40451 W", "found_year": 2022, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "Discovered at the base of a tree near a small lake. The soil was moist and dark.", "isolation_temperature": 21, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arbor_Plaque.jpeg", "em_file": "https://phagesdb.org/media/emPics/Arbor_EMPic.tiff", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-12-02T08:54:36-05:00", "date_modified": "2024-02-25T15:28:08-05:00" }, { "phage_name": "Arbutus", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Erin Burnley", "found_city": "Ottawa", "found_state": "", "found_country": "Canada", "found_GPS_lat": "45.411667 N", "found_GPS_long": "75.701389 W", "found_year": 2021, "p_institution": { "institution_code": "UOTT", "institution_name": "University of Ottawa", "institution_logo": "https://phagesdb.org/media/institutions/uottawa.png", "institution_url": "", "institution_city": "Ottawa", "institution_state": "", "institution_country": "Canada", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": 19, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "small, round plaques", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "NRRL B-2880", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arbutus_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Arbutus_EMPic.png", "digest_file": "https://phagesdb.org/media/digestPics/Arbutus_Digest_xTyN6kK.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Screen_Shot_2021-11-04_at_1.53.14_PM.png", "em_thumb_file": "https://phagesdb.org/media/emPics/Screen_Shot_2021-11-04_at_1.52.24_PM.png", "dnam_file": null, "date_added": "2021-10-15T11:27:25-04:00", "date_modified": "2022-03-16T11:01:42-04:00" }, { "phage_name": "Arby", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Arby is short for Arboretum, the birthplace of the virus.", "finder_name": "Isabella Romani", "found_city": "Chestnut Hill", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.0909 N", "found_GPS_long": "75.2242 W", "found_year": 2017, "p_institution": { "institution_code": "CABR", "institution_name": "Cabrini University", "institution_logo": "https://phagesdb.org/media/institutions/Cabrini-01.jpg", "institution_url": "http://www.cabrini.edu/", "institution_city": "Radnor", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.055648", "institution_longitude": "-75.37448" }, "enriched_sample": null, "discovery_notes": "- Found at the Morris Arboretum of the University of Pennsylvania, home to a variety of plant life", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "AN", "temperate": false }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2018-10-08", "seq_facility": { "short_name": "NCSTATE", "facility_name": "NC State Genomic Sciences Laboratory", "contact_person": "Jenn Schaff", "shipping_address": "", "facility_website": "http://research.ncsu.edu/gsl/" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 8310, "finishing_reactions": 0, "genome_length": 15556, "gcpercent": "60.1", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 11, "overhang_sequence": "CCCGCGCCACC", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 26, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Arby_CompleteNotes.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Arby_Minimal_Final_N3h2NfD.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Arby_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Arby_CoverSheet.pdf", "submitted_annotation_date": "2019-03-28T13:16:28-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Arby_final_flat.txt", "qced_genbank_file_date": "2019-03-28T13:16:28-04:00", "isolation_host": { "genus": "Arthrobacter", "species": "sp. ", "strain_name": "ATCC 21022", "strain_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "21022", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MK737943", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Arby_EMPic_0Kd4OZT.tif", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Arby.fasta", "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Arby_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2018-08-30T11:02:20-04:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Arbys", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "its completely inedible", "finder_name": "owen Corcoran", "found_city": "Harrisonburg", "found_state": "VA", "found_country": "United States", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2023, "p_institution": { "institution_code": "JAMU", "institution_name": "James Madison University", "institution_logo": "https://phagesdb.org/media/institutions/james_madisonp.png", "institution_url": "http://www.jmu.edu/", "institution_city": "Harrisonburg", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "38.435340", "institution_longitude": "-78.86975" }, "enriched_sample": null, "discovery_notes": "found under decomposing leaves", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "MYO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-12-07T11:05:05-05:00", "date_modified": "2023-12-07T11:05:05-05:00" }, { "phage_name": "Arcadia", "old_names": "CESA", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named after my home institution.\r\n\r\nPlease note that phage lysate was made with glycerol for archiving purposes.", "finder_name": "Courtney Schoff", "found_city": "Radnor", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.051219 N", "found_GPS_long": "75.377229 W", "found_year": 2014, "p_institution": { "institution_code": "CABR", "institution_name": "Cabrini University", "institution_logo": "https://phagesdb.org/media/institutions/Cabrini-01.jpg", "institution_url": "http://www.cabrini.edu/", "institution_city": "Radnor", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.055648", "institution_longitude": "-75.37448" }, "enriched_sample": true, "discovery_notes": "Discovered in near a pond home to many geese and ducks.", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "AM", "temperate": false }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Prolate Head Phage with a medium length Tail", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2014-11-03", "seq_facility": { "short_name": "NCSTATE", "facility_name": "NC State Genomic Sciences Laboratory", "contact_person": "Jenn Schaff", "shipping_address": "", "facility_website": "http://research.ncsu.edu/gsl/" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 637, "finishing_reactions": 0, "genome_length": 58059, "gcpercent": "45.2", "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": 9, "overhang_sequence": "CGCCGGCCT", "sequencing_notes": "There were two similar phages found in this sample, CESB and CESS. Each differed by 2 nucleotides from Arcadia and were thus considered mutants.\r\n\r\nCESB has the following two differences 37056 (G to A) and 43358 (C to A)\r\nCESS has the following two differences 43271 (A to G) and 43358 (C to A)", "duplicate_notes": "", "is_annotated": true, "is_phamerated": true, "num_ORFs": 97, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Arcadia_CompleteNotes_2E7EZ5o.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Arcadia_Minimal_Final_yG6DxQ1.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Arcadia_Authors_o60ZTK0.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Arcadia_CoverSheet_iSjyz16.docx", "submitted_annotation_date": "2015-11-19T22:57:49-05:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Arcadia_flat_hoq0c74.txt", "qced_genbank_file_date": "2017-05-20T14:58:10-04:00", "isolation_host": { "genus": "Arthrobacter", "species": "sp. ", "strain_name": "ATCC 21022", "strain_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "21022", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MF189170", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Arcadia_EMPic.tiff", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Arcadia.fasta", "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Arcadia_EMPic_Thumb.png", "dnam_file": "https://phagesdb.org/media/dnam/Arcadia.dnam5", "date_added": "2014-11-04T09:56:08-05:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Arcadia1", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I named the phage according to the location. I collected a soil sample from lake Arcadia near the city of Edmond, Oklahoma.", "finder_name": "Peace Chinedu and Hari Kotturi", "found_city": "Edmond", "found_state": "OK", "found_country": "USA", "found_GPS_lat": "35.637778 N", "found_GPS_long": "97.3825 W", "found_year": 2018, "p_institution": { "institution_code": "UCOK", "institution_name": "University of Central Oklahoma", "institution_logo": "https://phagesdb.org/media/institutions/UniversityofCentralOklahoma.JPG", "institution_url": "https://www.uco.edu/", "institution_city": "Edmond", "institution_state": "OK", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 28, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The phage forms clear plaques with a diameter of~ 5mm. High-titer lysate has 3.94 x10^10 pfu/ml.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "sp. ", "strain_name": "ATCC 21022", "strain_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "21022", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arcadia1_Plaque.jpg", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/Arcadia1_Digest.pdf", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arcadia1_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2019-03-28T13:27:10-04:00", "date_modified": "2024-02-25T15:28:11-05:00" }, { "phage_name": "Arcadian", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "From a book I read once", "finder_name": "Brandon Chang", "found_city": "Bloomington", "found_state": "IL", "found_country": "USA", "found_GPS_lat": "40.490833 N", "found_GPS_long": "88.991667 W", "found_year": 2015, "p_institution": { "institution_code": "ILWU", "institution_name": "Illinois Wesleyan University", "institution_logo": "https://phagesdb.org/media/institutions/logo-iwu_.jpg", "institution_url": "http://www.iwu.edu/", "institution_city": "Bloomington", "institution_state": "IL", "institution_country": "USA", "institution_latitude": "40.491190", "institution_longitude": "-88.99027" }, "enriched_sample": true, "discovery_notes": "Found in wet soil underneath a pine tree. \r\n", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Small, clear plaques", "lysogeny_notes": "Clear", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2015-10-23T12:55:07-04:00", "date_modified": "2020-09-17T14:06:39-04:00" }, { "phage_name": "Arcana", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Chris Chong", "found_city": "Pullman", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "46.729986 N", "found_GPS_long": "117.16536 W", "found_year": 2017, "p_institution": { "institution_code": "WSHS", "institution_name": "Washington State University", "institution_logo": "https://phagesdb.org/media/institutions/logo-washington-state.jpg", "institution_url": "http://www.wsu.edu/", "institution_city": "Pullman", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "46.732132", "institution_longitude": "-117.1544" }, "enriched_sample": false, "discovery_notes": "On lawn outside of Abelson Hall North, around 1 cm deep, soil was moist, and temperature was 55° F.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Around 2 mm in size, Lytic Stage", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arcana_Plaque.jpg", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/Arcana_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arcana_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2017-06-30T19:35:38-04:00", "date_modified": "2020-09-17T14:08:53-04:00" }, { "phage_name": "Arcane", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Darlene liz, Jay Patel", "found_city": "paterson", "found_state": "NJ", "found_country": "United States", "found_GPS_lat": "40.91683 N", "found_GPS_long": "74.19635 W", "found_year": 2024, "p_institution": { "institution_code": "MCSU", "institution_name": "Montclair State University", "institution_logo": "https://phagesdb.org/media/institutions/msu_.jpg", "institution_url": "http://www.montclair.edu/", "institution_city": "Montclair", "institution_state": "NJ", "institution_country": "USA", "institution_latitude": "40.861767", "institution_longitude": "-74.19856" }, "enriched_sample": true, "discovery_notes": "Our soil was taken from the backyard from a garden. with dead plants. It was rainy and the soil was moist and wet.", "isolation_temperature": 26, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "sp. ", "strain_name": "ATCC 21022", "strain_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "21022", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-04-22T10:33:12-04:00", "date_modified": "2024-04-22T11:29:13-04:00" }, { "phage_name": "Arcanine", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Jeff Bonin", "found_city": "Saint Louis", "found_state": "MO", "found_country": "USA", "found_GPS_lat": "38.645264 N", "found_GPS_long": "90.313271 W", "found_year": 2012, "p_institution": { "institution_code": "WUSL", "institution_name": "Washington University in St. Louis", "institution_logo": "https://phagesdb.org/media/institutions/WashU2_.jpg", "institution_url": "http://www.wustl.edu/", "institution_city": "St. Louis", "institution_state": "MO", "institution_country": "USA", "institution_latitude": "38.649087", "institution_longitude": "-90.31083" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "A", "temperate": true }, "psubcluster": { "subcluster": "A1" }, "morphotype": "SIPHO", "plaque_notes": "Two types: a smaller, cloudy type and a larger, clearer type", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2013-06-09", "seq_facility": { "short_name": "WASHU", "facility_name": "The McDonnell Genome Institute at Washington University", "contact_person": "", "shipping_address": "", "facility_website": "http://genome.wustl.edu/" }, "seq_method": { "short_name": "454", "method_name": "454" }, "coverage": 130, "finishing_reactions": 3, "genome_length": 52273, "gcpercent": "63.7", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "CGGATGGTAA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 94, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Arcanine_CompleteNotes_0CZjNkU.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Arcanine_Minimal_Final_upbarPF.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Arcanine_Authors_qlWj29K.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Arcanine_CoverSheet_G5Cg1kU.pdf", "submitted_annotation_date": "2018-08-08T14:29:18-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Arcanine_flat_corrected.txt", "qced_genbank_file_date": "2018-08-08T14:29:18-04:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": true, "paper_published_in": { "title": "Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity", "abstract": "The bacteriophage population is large, dynamic, ancient, and genetically diverse. Limited genomic information shows that phage genomes are mosaic, and the genetic architecture of phage populations remains ill-defined. To understand the population structure of phages infecting a single host strain, we isolated, sequenced, and compared 627 phages of Mycobacterium smegmatis. Their genetic diversity is considerable, and there are 28 distinct genomic types (clusters) with related nucleotide sequences. However, amino acid sequence comparisons show pervasive genomic mosaicism, and quantification of inter-cluster and intra-cluster relatedness reveals a continuum of genetic diversity, albeit with uneven representation of different phages. Furthermore, rarefaction analysis shows that the mycobacteriophage population is not closed, and there is a constant influx of genes from other sources. Phage isolation and analysis was performed by a large consortium of academic institutions, illustrating the substantial benefits of a disseminated, structured program involving large numbers of freshman undergraduates in scientific discovery. ", "full_author_list": "Pope WH, Bowman CA, Russell DA, Jacobs-Sera D, Asai DJ, Cresawn SG, Jacobs WR, Hendrix RW, Lawrence JG, Hatfull GF; Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science; Phage Hunters Integrating Research and Education; Mycobacterial Genetics Course", "short_author_list": "Pope, Bowman, Russell, et al", "article_url": "http://elifesciences.org/content/4/e06416", "journal": "eLIFE", "journal_volume": "4", "journal_issue": "", "journal_pages": "", "pub_year": "2015", "pubmed_id": "25919952" }, "in_genbank": true, "genbank_accession": "MH744414", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arcanine_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Arcanine_EMPic.tiff", "digest_file": "https://phagesdb.org/media/digestPics/Arcanine_Digest.jpg", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Arcanine.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arcanine_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Arcanine_EMPic_Thumbs.jpg", "dnam_file": null, "date_added": "2012-10-25T13:25:00-04:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Arcanum", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The Latin word for mysterious and this whole experience and lab was full of mystery", "finder_name": "Janae Cruz", "found_city": "Quincy", "found_state": "MA", "found_country": "United States", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2022, "p_institution": { "institution_code": "ENZC", "institution_name": "Eastern Nazarene College", "institution_logo": "https://phagesdb.org/media/institutions/eastern_nazarene.png", "institution_url": "https://enc.edu/", "institution_city": "Quincy", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "The sample was taken from a freshly mown sample of grass (2-4 inches down)The grass sample, enriched isolation was used to create the phage sample.", "isolation_temperature": 32, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaque was quite large and was clear", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-11-14T09:00:17-05:00", "date_modified": "2024-02-25T15:27:53-05:00" }, { "phage_name": "Arcelia", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Hannia Hernandez's mom's middle name.", "finder_name": "Hannia Hernandez-Mendoza, Emma Rose", "found_city": "Pullman", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "46.73244 N", "found_GPS_long": "117.1679 W", "found_year": 2024, "p_institution": { "institution_code": "WSHS", "institution_name": "Washington State University", "institution_logo": "https://phagesdb.org/media/institutions/logo-washington-state.jpg", "institution_url": "http://www.wsu.edu/", "institution_city": "Pullman", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "46.732132", "institution_longitude": "-117.1544" }, "enriched_sample": false, "discovery_notes": "Collected near a large bush in very moist soil. Near Duncan Dunn Dorm.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-04-26T08:59:05-04:00", "date_modified": "2024-04-26T08:59:05-04:00" }, { "phage_name": "ArcFiver", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Fiver has two namesakes. \r\n\r\nThe First: Fiver, the main character in Adams' Watership Down, in honor of its humble origins\r\n\r\nThe Second: ARC Trooper CT-5555 ('Fives') from Star Wars: The Clone Wars. A brave, intrepid special operations soldier who very nearly saves everyone. Named in his honor and in hopes that Fiver can live up to this in future medical uses.", "finder_name": "Brenna N. Coleman", "found_city": "Grandville", "found_state": "MI", "found_country": "United States", "found_GPS_lat": "42.89375 N", "found_GPS_long": "85.738831 W", "found_year": 2023, "p_institution": { "institution_code": "CALV", "institution_name": "Calvin University", "institution_logo": "https://phagesdb.org/media/institutions/CalvinLogo.png", "institution_url": "http://www.calvin.edu/", "institution_city": "Grand Rapids", "institution_state": "MI", "institution_country": "USA", "institution_latitude": "42.930074", "institution_longitude": "-85.58763" }, "enriched_sample": false, "discovery_notes": "Soil was dark and loamy, above the grave of an unfortunate lapine casualty of Prof. Wertz's wife's vehicle.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Approx 1.5 mm across. Circular and typically clear. Suspected to be a lytic phage.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": { "short_name": "UPitt GPCL", "facility_name": "University of Pittsburgh Genomics and Proteomics Core Laboratories", "contact_person": "", "shipping_address": "", "facility_website": "http://www.genetics.pitt.edu/" }, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Rhodococcus", "species": "equi", "strain_name": "NRRL B-16538", "strain_species": { "id": 31, "genus": "Rhodococcus", "species_name": "equi", "species_genus": { "id": 2, "genus_domain": "Bacteria", "genus_name": "Rhodococcus", "genus_wikipedia": "http://en.wikipedia.org/wiki/Rhodococcus", "is_actinomycetales": true }, "species_wikipedia": "http://en.wikipedia.org/wiki/Rhodococcus_equi" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 31, "genus": "Rhodococcus", "species_name": "equi", "species_genus": { "id": 2, "genus_domain": "Bacteria", "genus_name": "Rhodococcus", "genus_wikipedia": "http://en.wikipedia.org/wiki/Rhodococcus", "is_actinomycetales": true }, "species_wikipedia": "http://en.wikipedia.org/wiki/Rhodococcus_equi" }, "host_genus": { "id": 2, "genus_domain": "Bacteria", "genus_name": "Rhodococcus", "genus_wikipedia": "http://en.wikipedia.org/wiki/Rhodococcus", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/imresizer-1701805280243.jpg", "dnam_file": null, "date_added": "2023-12-05T12:41:59-05:00", "date_modified": "2024-02-25T15:28:33-05:00" }, { "phage_name": "Archangel", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "It sounded cool.", "finder_name": "Kevin Bennett", "found_city": "Blacksburg", "found_state": "VA", "found_country": "United States", "found_GPS_lat": "37.23313 N", "found_GPS_long": "80.424287 W", "found_year": 2023, "p_institution": { "institution_code": "VTEC", "institution_name": "Virginia Tech", "institution_logo": "https://phagesdb.org/media/institutions/VirginiaTech.png", "institution_url": "http://www.vt.edu/", "institution_city": "Blacksburg", "institution_state": "VA", "institution_country": "United States", "institution_latitude": "37.228453", "institution_longitude": "-80.42347" }, "enriched_sample": true, "discovery_notes": "Collected from a mud sample along a creek, flush with vegetation.", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Large, turbid plaques with halos.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Archangel_Plaque.PNG", "em_file": "https://phagesdb.org/media/emPics/Archangel_EMPic.PNG", "digest_file": "https://phagesdb.org/media/digestPics/Archangel_Digest.PNG", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-11-07T10:02:35-05:00", "date_modified": "2024-02-25T15:28:13-05:00" }, { "phage_name": "ArcheaMcKenzie", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I took something learned in my biology lecture (archaea) and added my last name (McKenzie).", "finder_name": "Liam McKenzie and DeNarra Middleton", "found_city": "Cumberland", "found_state": "MD", "found_country": "USA", "found_GPS_lat": "39.64953 N", "found_GPS_long": "78.727024 W", "found_year": 2024, "p_institution": { "institution_code": "ALGY", "institution_name": "Allegany College of Maryland", "institution_logo": "https://phagesdb.org/media/institutions/allegany2.jpg", "institution_url": "", "institution_city": "Cumberland", "institution_state": "MD", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "The sample was collected by a dumpster at Allegany college of Maryland at the coordinates listed above.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Plaques began and ended the same, 10mm in diameter with solid edges and no halos/bullseyes.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "Upon sequencing, this phage was found to be 100% identical to Madebyisha.", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArcheaMcKenzie_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/ArcheaMcKenzie_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/ArcheaMcKenzie_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/IMG_1358_THUMBNAIL.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Archea_01_60kx_thumbnail.jpg", "dnam_file": null, "date_added": "2024-10-21T15:00:36-04:00", "date_modified": "2025-04-04T11:37:22-04:00" }, { "phage_name": "Archer", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Riley Simmons", "found_city": "Milbridge", "found_state": "ME", "found_country": "USA", "found_GPS_lat": "44.5353 N", "found_GPS_long": "67.8808 E", "found_year": 2015, "p_institution": { "institution_code": "UMMA", "institution_name": "University of Maine, Machias", "institution_logo": "https://phagesdb.org/media/institutions/UMM-Clippers-Logo-web.jpg", "institution_url": "http://www.umm.maine.edu/", "institution_city": "Machias", "institution_state": "ME", "institution_country": "USA", "institution_latitude": "44.711682", "institution_longitude": "-67.45805" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Archer_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Archer_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2015-12-09T08:17:52-05:00", "date_modified": "2020-09-17T14:06:36-04:00" }, { "phage_name": "Archer19", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "My last name is Bowman, so Archer is a reference to my last name. 19 is a reference to when I got married.", "finder_name": "Olivia Bowman", "found_city": "Milford", "found_state": "KS", "found_country": "United States", "found_GPS_lat": "39.073525 N", "found_GPS_long": "96.9034 W", "found_year": 2021, "p_institution": { "institution_code": "KSSU", "institution_name": "Kansas State University", "institution_logo": "https://phagesdb.org/media/institutions/kstate.jpg", "institution_url": "http://www.k-state.edu/", "institution_city": "Manhattan", "institution_state": "KS", "institution_country": "United States", "institution_latitude": "39.197485", "institution_longitude": "-96.58606" }, "enriched_sample": true, "discovery_notes": "From Milford Lake. Pulled from about 4 inches deep into the soil, about 200 feet from the water’s edge. Soil was moist, with little organic matter.", "isolation_temperature": 28, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "CAG3", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "Isoniazid-resistant mutant of G terrae 3612" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Archer19_Plaque.jpeg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-10-07T14:45:20-04:00", "date_modified": "2022-03-16T11:02:15-04:00" }, { "phage_name": "ArcherBoy", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name ArcherBoy came from a nickname given to a member of the discovery group (Bryan Zhang) by his childhood friends who affectionately referred to him in this manner.", "finder_name": "Jamie Wright, Duoyu Zhang(Bryan)", "found_city": "Spokane", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "47.667635 N", "found_GPS_long": "117.402805 W", "found_year": 2025, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 22, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Plaques measure ~1-1.5mm in length and are turbid in nature.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArcherBoy_Plaque_csHxXOk.JPG", "em_file": "https://phagesdb.org/media/emPics/ArcherBoy_EMPic_SP5tC20.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/ArcherBoy_Plaque_Thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/ArcherBoy_EMPic_Thumb.png", "dnam_file": null, "date_added": "2025-02-26T20:52:10-05:00", "date_modified": "2025-05-08T10:07:56-04:00" }, { "phage_name": "ArcherNM", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name ArcherNM came from me being an archery hunter and this passion is very close to my heart. The NM is for my initials.", "finder_name": "Nicole Mahan", "found_city": "Pullman", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "46.728969 N", "found_GPS_long": "117.165017 W", "found_year": 2013, "p_institution": { "institution_code": "WSHS", "institution_name": "Washington State University", "institution_logo": "https://phagesdb.org/media/institutions/logo-washington-state.jpg", "institution_url": "http://www.wsu.edu/", "institution_city": "Pullman", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "46.732132", "institution_longitude": "-117.1544" }, "enriched_sample": false, "discovery_notes": "The soil was damp when collected and the temperature was about 65 degrees Fahrenheit. the soil was obtained from about two inches from the surface and it was raining.", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "A", "temperate": true }, "psubcluster": { "subcluster": "A2" }, "morphotype": "SIPHO", "plaque_notes": "The morphology of the phage found is slightly turbid and is about 2.5 millimeters in size. the plaques also shows the signs of a comet tail.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2015-05-22", "seq_facility": { "short_name": "WASHU", "facility_name": "The McDonnell Genome Institute at Washington University", "contact_person": "", "shipping_address": "", "facility_website": "http://genome.wustl.edu/" }, "seq_method": { "short_name": "PACBIO", "method_name": "Pacific Biosciences" }, "coverage": null, "finishing_reactions": 0, "genome_length": 52561, "gcpercent": "64.2", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "CGGTCGGTTA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 91, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/ArcherNM_Final.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/ArcherNM_Minimal_Final.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/ArcherNM_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/ArcherNM_CoverSheet.docx", "submitted_annotation_date": "2015-06-02T12:54:16-04:00", "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": { "title": "Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity", "abstract": "The bacteriophage population is large, dynamic, ancient, and genetically diverse. Limited genomic information shows that phage genomes are mosaic, and the genetic architecture of phage populations remains ill-defined. To understand the population structure of phages infecting a single host strain, we isolated, sequenced, and compared 627 phages of Mycobacterium smegmatis. Their genetic diversity is considerable, and there are 28 distinct genomic types (clusters) with related nucleotide sequences. However, amino acid sequence comparisons show pervasive genomic mosaicism, and quantification of inter-cluster and intra-cluster relatedness reveals a continuum of genetic diversity, albeit with uneven representation of different phages. Furthermore, rarefaction analysis shows that the mycobacteriophage population is not closed, and there is a constant influx of genes from other sources. Phage isolation and analysis was performed by a large consortium of academic institutions, illustrating the substantial benefits of a disseminated, structured program involving large numbers of freshman undergraduates in scientific discovery. ", "full_author_list": "Pope WH, Bowman CA, Russell DA, Jacobs-Sera D, Asai DJ, Cresawn SG, Jacobs WR, Hendrix RW, Lawrence JG, Hatfull GF; Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science; Phage Hunters Integrating Research and Education; Mycobacterial Genetics Course", "short_author_list": "Pope, Bowman, Russell, et al", "article_url": "http://elifesciences.org/content/4/e06416", "journal": "eLIFE", "journal_volume": "4", "journal_issue": "", "journal_pages": "", "pub_year": "2015", "pubmed_id": "25919952" }, "in_genbank": true, "genbank_accession": "KU761559", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArcherNM_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/ArcherNM_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/ArcherNM_Digest.JPG", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/ArcherNM.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/ArcherNM_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/ArcherNM_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2013-11-19T09:24:03-05:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Archers", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Temesgen Ghidey, Matthew Sullivan, Nicholas Brewer", "found_city": "Saint Louis", "found_state": "MO", "found_country": "United States", "found_GPS_lat": "38.5681 N", "found_GPS_long": "90.4218 W", "found_year": 2020, "p_institution": { "institution_code": "STLC", "institution_name": "St. Louis Community College", "institution_logo": "https://phagesdb.org/media/institutions/StLouisCommunityCollege.png", "institution_url": "https://www.stlcc.edu/", "institution_city": "St. Louis", "institution_state": "MO", "institution_country": "USA", "institution_latitude": "38.629046", "institution_longitude": "-90.27866" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "rubripertincta", "strain_name": "NRRL B-16540", "strain_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Archers_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Archers_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2020-11-10T10:24:32-05:00", "date_modified": "2021-01-28T11:04:37-05:00" }, { "phage_name": "ArcherS7", "old_names": "Noose", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "William Blaine ", "found_city": "Hartford ", "found_state": "CT", "found_country": "USA", "found_GPS_lat": "41.744494 N", "found_GPS_long": "72.690511 W", "found_year": 2011, "p_institution": { "institution_code": "TRIN", "institution_name": "Trinity College", "institution_logo": "https://phagesdb.org/media/institutions/TrinityLogo_Htfrd_seal2colr.jpg", "institution_url": "http://www.trincoll.edu/", "institution_city": "Hartford", "institution_state": "CT", "institution_country": "USA", "institution_latitude": "41.747306", "institution_longitude": "-72.69037" }, "enriched_sample": true, "discovery_notes": "ArcherS7 was found in the soil surrounding a pink-flowered plan. The soil was extracted one inch under the surface. The soil was very moist, dark, and coarse. ", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "C", "temperate": false }, "psubcluster": { "subcluster": "C1" }, "morphotype": "MYO", "plaque_notes": "All plaques are relatively small, round, and very clear. ", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2012-02-01", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "IONTORRENT", "method_name": "Ion Torrent" }, "coverage": 230, "finishing_reactions": null, "genome_length": 156558, "gcpercent": "64.7", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": true, "is_phamerated": true, "num_ORFs": 237, "num_tRNAs": 31, "num_tmRNAs": 1, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": true, "paper_published_in": { "title": "Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity", "abstract": "The bacteriophage population is large, dynamic, ancient, and genetically diverse. Limited genomic information shows that phage genomes are mosaic, and the genetic architecture of phage populations remains ill-defined. To understand the population structure of phages infecting a single host strain, we isolated, sequenced, and compared 627 phages of Mycobacterium smegmatis. Their genetic diversity is considerable, and there are 28 distinct genomic types (clusters) with related nucleotide sequences. However, amino acid sequence comparisons show pervasive genomic mosaicism, and quantification of inter-cluster and intra-cluster relatedness reveals a continuum of genetic diversity, albeit with uneven representation of different phages. Furthermore, rarefaction analysis shows that the mycobacteriophage population is not closed, and there is a constant influx of genes from other sources. Phage isolation and analysis was performed by a large consortium of academic institutions, illustrating the substantial benefits of a disseminated, structured program involving large numbers of freshman undergraduates in scientific discovery. ", "full_author_list": "Pope WH, Bowman CA, Russell DA, Jacobs-Sera D, Asai DJ, Cresawn SG, Jacobs WR, Hendrix RW, Lawrence JG, Hatfull GF; Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science; Phage Hunters Integrating Research and Education; Mycobacterial Genetics Course", "short_author_list": "Pope, Bowman, Russell, et al", "article_url": "http://elifesciences.org/content/4/e06416", "journal": "eLIFE", "journal_volume": "4", "journal_issue": "", "journal_pages": "", "pub_year": "2015", "pubmed_id": "25919952" }, "in_genbank": true, "genbank_accession": "KC748970", "refseq_accession": "NC_021348", "plaque_file": "https://phagesdb.org/media/plaquePics/Noose_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/ArcherS7.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Noose_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2011-12-09T08:36:19-05:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Archery", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The phage was named Archery due to the plaque having a bullseye morphology.", "finder_name": "Devyn Schaefer, Yohei Aoki", "found_city": "Spokane", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "47.667667 N", "found_GPS_long": "117.402278 W", "found_year": 2022, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "The phage was discovered from moist soil that was next to a large field of grass. Specifically from the Peace Pole in front of College Hall. It was discovered in early September on a sunny day.", "isolation_temperature": 22, "growth_notes": "", "pcluster": { "cluster": "EK", "temperate": null }, "psubcluster": null, "morphotype": "", "plaque_notes": "The morphology of the phage are small plaques with fuzzy edges and a bullseye appearance.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Archery_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/Archery_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Archery_Digest.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Archery_Plaque_Thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/Archery_EMPic_Thumb.png", "dnam_file": null, "date_added": "2022-11-29T14:07:15-05:00", "date_modified": "2024-02-25T15:28:08-05:00" }, { "phage_name": "Archetta", "old_names": "", "program": null, "naming_notes": "", "finder_name": "Team Phat Phages", "found_city": "Los Angeles", "found_state": "CA", "found_country": "USA", "found_GPS_lat": "34.065 N", "found_GPS_long": "118.4425 W", "found_year": 2012, "p_institution": { "institution_code": "UCLA", "institution_name": "University of California, Los Angeles", "institution_logo": "https://phagesdb.org/media/institutions/UCLA.jpg", "institution_url": "http://www.ucla.edu/", "institution_city": "Los Angeles", "institution_state": "CA", "institution_country": "United States", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "Discovered in fall 2012 by Team Phat Phages: Chase Fong, Ariel Hamill, Tae Wuk Ko, and Ethan Sim. TA: Jovo Vijanderan. Instructor: Payam Benyamini. Laboratory Support: Krisanavane Reddi.\r\n\r\nArchetta was isolated from an enrichment culture inoculated with loose soil taken beneath a tree. The sample was collected on October 3rd, 2012 by student Ethan Sim.\r\n\r\nDNA preparation was performed by Dr. Krisanavane Reddi (UCLA). The genome was assembled by Wiliam Villella (UCLA) and confirmed by Dan Russel of the University of Pittsburgh.\r\n\r\nThe genome was annotated by Team Phage Rage (Justina Leo, Amber Li, Ryan Narbutas, and Carmen Ng) in fall 2014, with additional annotation by Edric Yoon. Instructor: Jordan Moberg Parker.", "isolation_temperature": 35, "growth_notes": "", "pcluster": { "cluster": "A", "temperate": true }, "psubcluster": { "subcluster": "A5" }, "morphotype": "SIPHO", "plaque_notes": "Clear, well-defined plaques with hazy edges, no halos.\r\n\r\nAverage size (diameter in mm): 3mm", "lysogeny_notes": "Clear plaques, genome contains an integrase gene.", "seq_finished": true, "date_finished": "2013-11-07", "seq_facility": { "short_name": "UCLA", "facility_name": "The UCLA Genotyping and Sequencing Core", "contact_person": "", "shipping_address": "", "facility_website": "http://www.genoseq.ucla.edu/" }, "seq_method": { "short_name": "454", "method_name": "454" }, "coverage": 103, "finishing_reactions": 0, "genome_length": 47409, "gcpercent": "60.6", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "CGGGAGGTAA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 75, "num_tRNAs": 1, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Archetta_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2017-09-18T17:28:00-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Archetta_flat.txt", "qced_genbank_file_date": "2017-09-18T17:28:00-04:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": true, "paper_published_in": { "title": "Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity", "abstract": "The bacteriophage population is large, dynamic, ancient, and genetically diverse. Limited genomic information shows that phage genomes are mosaic, and the genetic architecture of phage populations remains ill-defined. To understand the population structure of phages infecting a single host strain, we isolated, sequenced, and compared 627 phages of Mycobacterium smegmatis. Their genetic diversity is considerable, and there are 28 distinct genomic types (clusters) with related nucleotide sequences. However, amino acid sequence comparisons show pervasive genomic mosaicism, and quantification of inter-cluster and intra-cluster relatedness reveals a continuum of genetic diversity, albeit with uneven representation of different phages. Furthermore, rarefaction analysis shows that the mycobacteriophage population is not closed, and there is a constant influx of genes from other sources. Phage isolation and analysis was performed by a large consortium of academic institutions, illustrating the substantial benefits of a disseminated, structured program involving large numbers of freshman undergraduates in scientific discovery. ", "full_author_list": "Pope WH, Bowman CA, Russell DA, Jacobs-Sera D, Asai DJ, Cresawn SG, Jacobs WR, Hendrix RW, Lawrence JG, Hatfull GF; Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science; Phage Hunters Integrating Research and Education; Mycobacterial Genetics Course", "short_author_list": "Pope, Bowman, Russell, et al", "article_url": "http://elifesciences.org/content/4/e06416", "journal": "eLIFE", "journal_volume": "4", "journal_issue": "", "journal_pages": "", "pub_year": "2015", "pubmed_id": "25919952" }, "in_genbank": true, "genbank_accession": "MG099938", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Archetta_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/Archetta_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Archetta_Digest.jpg", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Archetta.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Archetta_plaque_thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/Archetta_EMPic_thumb.png", "dnam_file": null, "date_added": "2013-09-18T11:28:21-04:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Archibald", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Ling Zheng", "found_city": "Bloomington", "found_state": "IL", "found_country": "USA", "found_GPS_lat": "40.490833 N", "found_GPS_long": "88.991667 W", "found_year": 2015, "p_institution": { "institution_code": "ILWU", "institution_name": "Illinois Wesleyan University", "institution_logo": "https://phagesdb.org/media/institutions/logo-iwu_.jpg", "institution_url": "http://www.iwu.edu/", "institution_city": "Bloomington", "institution_state": "IL", "institution_country": "USA", "institution_latitude": "40.491190", "institution_longitude": "-88.99027" }, "enriched_sample": true, "discovery_notes": "Date of sample collection: 08/27/15\r\nTime of sample collection: 11: 04 A.M. \r\nTemperature: 68 degree Farenheit\r\nSite: Urban, under a tree.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2015-10-23T12:56:07-04:00", "date_modified": "2020-09-17T14:06:39-04:00" }, { "phage_name": "ArchibaldJ", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The astrophysicist John Archibald Wheeler coined the term \"wormhole\" to describe a hypothetical connection between two regions of space-time, that could potentially serve as a gateway between those two places. Like a wormhole, the study of phages may provide a gateway into new worlds of Scientific Study. The J is in reference to my initial. ", "finder_name": "Wren Jenkins", "found_city": "Bowling Green", "found_state": "KY", "found_country": "USA", "found_GPS_lat": "36.981111 N", "found_GPS_long": "36.456944 W", "found_year": 2016, "p_institution": { "institution_code": "WEKU", "institution_name": "Western Kentucky University", "institution_logo": "https://phagesdb.org/media/institutions/wkucuptallrb.jpg", "institution_url": "http://www.wku.edu/", "institution_city": "Bowling Green", "institution_state": "KY", "institution_country": "USA", "institution_latitude": "36.985737", "institution_longitude": "-86.45552" }, "enriched_sample": true, "discovery_notes": "Phage was discovered at 3:45 pm September 11th, 2016, at the Western Kentucky Office of Sustainability in Bowling Green, KY. Discovery Conditions were partly cloudy, with temperature 26.1 degrees Celsius (79 degrees Fahrenheit). The soil sample had medium-to-high moisture levels, and was taken from the Sustainability Office's compost pile. The sample was taken at a depth of 3 inches.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaques are clear and are generally around 2 millimeters in diameter. When they form in close proximity to each other, they often form lines of overlapping plaques (with a similar appearance to scales) rather than clusters. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/ArchibaldJ_Digest.PNG", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/M.SmegEM.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/M.SmegEM.jpg", "dnam_file": null, "date_added": "2016-11-17T13:46:25-05:00", "date_modified": "2020-09-17T14:07:24-04:00" }, { "phage_name": "Archibolt", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "My apartment has a puppy named Archie.", "finder_name": "Jessica Lee", "found_city": "Harrisonburg", "found_state": "VA", "found_country": "United States", "found_GPS_lat": "38.434144 N", "found_GPS_long": "78.860279 W", "found_year": 2024, "p_institution": { "institution_code": "JAMU", "institution_name": "James Madison University", "institution_logo": "https://phagesdb.org/media/institutions/james_madisonp.png", "institution_url": "http://www.jmu.edu/", "institution_city": "Harrisonburg", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "38.435340", "institution_longitude": "-78.86975" }, "enriched_sample": true, "discovery_notes": "Found in the soil near the pond in the arboretum that was moist and cold.", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The phages are big.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-11-04T12:29:51-05:00", "date_modified": "2024-11-04T12:29:51-05:00" }, { "phage_name": "ArchiDore", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I combined the names of my dogs to name my phage.", "finder_name": "Sabrena Munoz", "found_city": "Manhattan", "found_state": "KS", "found_country": "United States", "found_GPS_lat": "39.1294 N", "found_GPS_long": "96.4411 W", "found_year": 2024, "p_institution": { "institution_code": "KSSU", "institution_name": "Kansas State University", "institution_logo": "https://phagesdb.org/media/institutions/kstate.jpg", "institution_url": "http://www.k-state.edu/", "institution_city": "Manhattan", "institution_state": "KS", "institution_country": "United States", "institution_latitude": "39.197485", "institution_longitude": "-96.58606" }, "enriched_sample": true, "discovery_notes": "The phage sample was found in soil from Manhattan, KS. The soil was extremely moist and was collected at 17:22. Host range was negative for both G. Lacunae and G. Rubripertincta.", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "DW", "temperate": null }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "The plaques of ArchiDore have a transparent appearance. These plaques did not have a distinct border around the plaques but had a hazy halo around them.", "lysogeny_notes": "Based on the morphology and lysogeny testing of my phage, we have confirmed that ArchiDore is a lysogenic phage.", "seq_finished": true, "date_finished": "2025-01-15", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 8956, "finishing_reactions": 0, "genome_length": 51703, "gcpercent": "66.9", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "TGCCGAGGTA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 75, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/ArchiDore_CompleteNotes.txt", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/ArchiDore_Minimal_Final_1UqbBJt.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/ArchiDore_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/ArchiDore_CoverSheet.docx", "submitted_annotation_date": "2025-06-25T10:35:00-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/ArchiDore_flat.txt", "qced_genbank_file_date": "2025-06-25T10:35:00-04:00", "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "CAG3", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "Isoniazid-resistant mutant of G terrae 3612" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "PV876927", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArchiDore_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/ArchiDore_EMPic.png", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/ArchiDore.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-11-12T13:51:08-05:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Archie", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Rose M. Clarke", "found_city": "Corvallis", "found_state": "OR", "found_country": "USA", "found_GPS_lat": "44.567722 N", "found_GPS_long": "123.281986 W", "found_year": 2009, "p_institution": { "institution_code": "ORSU", "institution_name": "Oregon State University", "institution_logo": "https://phagesdb.org/media/institutions/OregonStateUniversity.jpg", "institution_url": "http://www.oregonstate.edu/", "institution_city": "Corvallis", "institution_state": "OR", "institution_country": "USA", "institution_latitude": "44.564006", "institution_longitude": "-123.2794" }, "enriched_sample": true, "discovery_notes": "Moist soil, depth 3 cm, in downspout runoff gully filled with dense ground cover and low-growing flowers. West Cordley Garden. 60°F", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "L", "temperate": true }, "psubcluster": { "subcluster": "L2" }, "morphotype": "SIPHO", "plaque_notes": "Plaques are small, about 1-2mm in diameter; all have defined “bulls eye” pattern, with center completely clear surrounded by ring of cloudy clearing; plates incubated at 37° for at least 24 hours", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2011-08-25", "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": 76271, "gcpercent": "58.7", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "TCGATCAGCC", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 128, "num_tRNAs": 12, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Archie_Final.dnam5", "submitted_minimal_dnam_file": null, "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Archie_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Archie_CoverSheet.doc", "submitted_annotation_date": "2014-11-20T15:46:59-05:00", "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": true, "paper_published_in": { "title": "Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity", "abstract": "The bacteriophage population is large, dynamic, ancient, and genetically diverse. Limited genomic information shows that phage genomes are mosaic, and the genetic architecture of phage populations remains ill-defined. To understand the population structure of phages infecting a single host strain, we isolated, sequenced, and compared 627 phages of Mycobacterium smegmatis. Their genetic diversity is considerable, and there are 28 distinct genomic types (clusters) with related nucleotide sequences. However, amino acid sequence comparisons show pervasive genomic mosaicism, and quantification of inter-cluster and intra-cluster relatedness reveals a continuum of genetic diversity, albeit with uneven representation of different phages. Furthermore, rarefaction analysis shows that the mycobacteriophage population is not closed, and there is a constant influx of genes from other sources. Phage isolation and analysis was performed by a large consortium of academic institutions, illustrating the substantial benefits of a disseminated, structured program involving large numbers of freshman undergraduates in scientific discovery. ", "full_author_list": "Pope WH, Bowman CA, Russell DA, Jacobs-Sera D, Asai DJ, Cresawn SG, Jacobs WR, Hendrix RW, Lawrence JG, Hatfull GF; Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science; Phage Hunters Integrating Research and Education; Mycobacterial Genetics Course", "short_author_list": "Pope, Bowman, Russell, et al", "article_url": "http://elifesciences.org/content/4/e06416", "journal": "eLIFE", "journal_volume": "4", "journal_issue": "", "journal_pages": "", "pub_year": "2015", "pubmed_id": "25919952" }, "in_genbank": true, "genbank_accession": "KT591489", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Archie_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Archie_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Archie_Digest.jpg", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Archie.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Archie_Plaque_Thumb_f82X1o9.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Archie_EMPic_Thumb.jpg", "dnam_file": "https://phagesdb.org/media/dnam/Archie.dnam5", "date_added": "2010-04-30T20:00:00-04:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Archila", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "My phage was named after a friends last name that inspired me where to look for my phage.", "finder_name": "Sarah Miscevich", "found_city": "Emmitsburg", "found_state": "MD", "found_country": "United States", "found_GPS_lat": "39.68174 N", "found_GPS_long": "77.35448 W", "found_year": 2022, "p_institution": { "institution_code": "MMYU", "institution_name": "Mount St. Mary’s University", "institution_logo": "https://phagesdb.org/media/institutions/msmu-logo.png", "institution_url": "https://msmary.edu/", "institution_city": "Emmitsburg", "institution_state": "MD", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "This phage was from soil collect by the steps leading up to the Mount St. Mary’s grotto. The 2 cm of this topsoil was collected. The soil was mostly dry and somewhat rocky, with multiple roots mixed in it. Close by was a stream leading down from the grotto.", "isolation_temperature": 33, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques on my plates were about 4-5mm plaques: typically varying in size; usually clustered together; plaques usually clear sometimes projected a little darker; very thin border.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-01-12T07:43:31-05:00", "date_modified": "2024-10-08T10:20:09-04:00" }, { "phage_name": "Archimedes", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Garima Patel", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "United States", "found_GPS_lat": "40.4405 N", "found_GPS_long": "79.9958 W", "found_year": 2019, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "DA", "temperate": null }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "The plaques are about 2 mm in diameter and are more clear than turbid.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2020-01-05", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 2281, "finishing_reactions": 0, "genome_length": 44938, "gcpercent": "62.8", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 11, "overhang_sequence": "TCCGCAAGGTA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 60, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Archimedes_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2020-07-07T12:51:08-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Archimedes_flat.txt", "qced_genbank_file_date": "2020-07-07T12:51:08-04:00", "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MT771339", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Archimedes_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Archimedes_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Archimedes.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Archimedes_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Archimedes_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2019-10-02T07:23:17-04:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Archipelago", "old_names": "BigBadBoy", "program": { "short_name": "PHIRE", "program_name": "Phage Hunters Integrating Research and Education", "program_blurb": "", "program_URL": "" }, "naming_notes": "Archipelago is a fun word.", "finder_name": "Chana,Nihal Kaur & Emezienna,Ngozi", "found_city": "Catonsville", "found_state": "MD", "found_country": "USA", "found_GPS_lat": "39.254449 N", "found_GPS_long": "76.712357 W", "found_year": 2023, "p_institution": { "institution_code": "UMBC", "institution_name": "University of Maryland, Baltimore County", "institution_logo": "https://phagesdb.org/media/institutions/UMBC_Logo.png", "institution_url": "http://www.umbc.edu/", "institution_city": "Baltimore", "institution_state": "MD", "institution_country": "USA", "institution_latitude": "39.256328", "institution_longitude": "-76.71072" }, "enriched_sample": false, "discovery_notes": "Slightly damp soil underneath mulch, roughly 0.5 inch depth, fine texture & small particles, like small rocks and debris", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "BF", "temperate": false }, "psubcluster": null, "morphotype": "PODO", "plaque_notes": "-they're very circular\r\n-very small in diameter, about 1-1.5 mm\r\n-difficult to observe if they're clear or turbid due to their small size", "lysogeny_notes": "Follows lytic cycle as the result of no observable mesa formation", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Streptomyces", "species": "mirabilis", "strain_name": "NRRL B-2400", "strain_species": { "id": 71, "genus": "Streptomyces", "species_name": "mirabilis", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 71, "genus": "Streptomyces", "species_name": "mirabilis", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Archipelago_Plaque.jpeg", "em_file": "https://phagesdb.org/media/emPics/Archipelago_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Archipelago_Digest.jpeg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Archipelago_Plaque-thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Archipelago_EMPic_Thumb.png", "dnam_file": null, "date_added": "2023-10-10T14:23:53-04:00", "date_modified": "2024-02-25T15:28:16-05:00" }, { "phage_name": "Archis", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The phage name is simply the first six letters of my first name.", "finder_name": "Archisha Ghosh", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.442222 N", "found_GPS_long": "80.01 W", "found_year": 2019, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "There was a 730 ft elevation and there was vegetation around. However, the soil was also clumped together in some places, as if some places were wet. The temperature was about 75 degrees and the soil was taken from just barely below the surface.", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "CV", "temperate": true }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "The capsids are approximately 83 nm wide and the tails are about 442 nm long. The phage creates plaques that are turbid which means the phage is temperate.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2020-01-05", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 1222, "finishing_reactions": 0, "genome_length": 49000, "gcpercent": "67.3", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "TCTCCGGTGA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 82, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Archis_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2020-06-30T16:13:05-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Archis_flat.txt", "qced_genbank_file_date": "2020-06-30T16:13:05-04:00", "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MT723942", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Archis_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Archis_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Archis_Digest_UY69JDo.tiff", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Archis.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Archis_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Archis_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2019-10-02T13:33:48-04:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Arcie", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Name came from the first letter of my partner's name and mine. RC and then we spelled it out to make Arcie. ", "finder_name": "Crystal Tardif & RoseMary Murphy ", "found_city": "Fort Kent ", "found_state": "ME", "found_country": "USA", "found_GPS_lat": "47.250369 N", "found_GPS_long": "68.586772 W", "found_year": 2012, "p_institution": { "institution_code": "UMFK", "institution_name": "University of Maine, Fort Kent", "institution_logo": "https://phagesdb.org/media/institutions/umfk.jpg", "institution_url": "http://www.umfk.maine.edu/", "institution_city": "Fort Kent", "institution_state": "ME", "institution_country": "USA", "institution_latitude": "47.249851", "institution_longitude": "-68.59010" }, "enriched_sample": true, "discovery_notes": "Found at University of Maine at Fort Kent in the garden by our green house. \r\n\r\n3 inches down\r\n\r\nSoil was dry ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaques were clear \r\n\r\nThey were 1 mm ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Arcie_EMPic.tiff", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Arcie_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2012-12-14T10:03:24-05:00", "date_modified": "2020-07-13T16:54:40-04:00" }, { "phage_name": "Arcturus", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Aaron Burghgraef", "found_city": "Grand Rapids", "found_state": "MI", "found_country": "USA", "found_GPS_lat": "42.931419 N", "found_GPS_long": "85.585086 W", "found_year": 2011, "p_institution": { "institution_code": "CALV", "institution_name": "Calvin University", "institution_logo": "https://phagesdb.org/media/institutions/CalvinLogo.png", "institution_url": "http://www.calvin.edu/", "institution_city": "Grand Rapids", "institution_state": "MI", "institution_country": "USA", "institution_latitude": "42.930074", "institution_longitude": "-85.58763" }, "enriched_sample": true, "discovery_notes": "Soil sample was collected near pine trees close to an overpass of a busy road (East Beltline). The soil was shaded by the trees, and many pine needles covered the ground. The soil was dry and contained many small bits of pine needles along with dirt. A thin layer of pine needles was removed before gathering the sample.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "All plaques were clear and circular in shape. Average diameter was around 2.0 mm.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Arcturus_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Arcturus_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2011-11-07T10:56:44-05:00", "date_modified": "2017-09-12T10:21:46-04:00" }, { "phage_name": "ArcusAngelus", "old_names": "Kbritt", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Kevin Britt", "found_city": "Austin", "found_state": "TX", "found_country": "USA", "found_GPS_lat": "30.277900 N", "found_GPS_long": "97.748700 W", "found_year": 2016, "p_institution": { "institution_code": "ASTN", "institution_name": "Austin Community College Highland Campus", "institution_logo": "https://phagesdb.org/media/institutions/AustinCC.jpg", "institution_url": "https://www.austincc.edu/campuses/highland-campus/", "institution_city": "Austin", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "F", "temperate": true }, "psubcluster": { "subcluster": "F1" }, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2016-12-22", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 193, "finishing_reactions": 0, "genome_length": 58569, "gcpercent": "61.4", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "CGGAAGGCGC", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 103, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/ArcusAngelus_CompleteNotes_Wc7cI6W.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/ArcusAngelus_Minimal_Final_ImJ5Q1O.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/ArcusAngelus_Authors_xPOci0f.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/ArcusAngelus_CoverSheet.pdf", "submitted_annotation_date": "2018-08-09T11:40:29-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/ArcusAngelus_flat.txt", "qced_genbank_file_date": "2018-08-09T11:40:29-04:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MH744415", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/ArcusAngelus.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2016-11-17T13:59:13-05:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Ardastra", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "\"Ardastra\" was the name of the horse I competed with during my last 2 years of high school until I took a break for college. The word is also Latin for \"strive for the stars\".", "finder_name": "Riley Burn", "found_city": "Rock Hill", "found_state": "SC", "found_country": "United States", "found_GPS_lat": "34.94 N", "found_GPS_long": "81.033056 W", "found_year": 2023, "p_institution": { "institution_code": "WNTH", "institution_name": "Winthrop University", "institution_logo": "https://phagesdb.org/media/institutions/WinthropUniversity.jpg", "institution_url": "http://www.winthrop.edu/", "institution_city": "Rock Hill", "institution_state": "SC", "institution_country": "USA", "institution_latitude": "34.939523", "institution_longitude": "-81.03154" }, "enriched_sample": false, "discovery_notes": "Discovered underneath a tree in the Winthrop Gardens on an overcast morning after it rained the previous night.", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/IMG_4953_10.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2023-10-24T09:30:02-04:00", "date_modified": "2024-02-25T15:28:14-05:00" }, { "phage_name": "Ardayla", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Combination of discoverers' first names.", "finder_name": "Arden Paglia and Micayla Herrmann", "found_city": "Spokane", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "47.6381 N", "found_GPS_long": "117.4211 W", "found_year": 2024, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 22, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "About 0.5 cm in diameter, clear.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Ardayla_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/Ardayla_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Ardayla_Plaque_Thumb.jpeg", "em_thumb_file": "https://phagesdb.org/media/emPics/Ardayla_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2024-03-11T07:28:38-04:00", "date_modified": "2025-08-01T10:53:34-04:00" }, { "phage_name": "Arden", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name of my phage came from a story I started to write about a year ago. I have connected with the main character a great ammount so I decided to name my phage after the character.", "finder_name": "Dean Skipper", "found_city": "River Falls", "found_state": "WI", "found_country": "USA", "found_GPS_lat": "44.9845 N", "found_GPS_long": "92.7545 W", "found_year": 2022, "p_institution": { "institution_code": "UWRF", "institution_name": "University of Wisconsin-River Falls", "institution_logo": "https://phagesdb.org/media/institutions/university_of_wisconsin_river_falls.png", "institution_url": "http://www.uwrf.edu/", "institution_city": "River Falls", "institution_state": "WI", "institution_country": "USA", "institution_latitude": "44.853133", "institution_longitude": "-92.62258" }, "enriched_sample": true, "discovery_notes": "The soil sample was collected by Karen Klyczek but the phage was isolated by Dean Skipper. The soil is dry and fine.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques are very small and unable to be measured. They are also cloudy and hard to see. The phages are very uniform and do not vary in size.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arden_Plaque.JPG", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-10-11T08:42:50-04:00", "date_modified": "2024-02-25T15:27:57-05:00" }, { "phage_name": "Ardmore", "old_names": "", "program": null, "naming_notes": "", "finder_name": "Marine Henry", "found_city": "Co. Waterford", "found_state": "", "found_country": "Ireland", "found_GPS_lat": "51.950994 N", "found_GPS_long": "7.723059 W", "found_year": 2009, "p_institution": null, "enriched_sample": false, "discovery_notes": "Soil sample from a field in a cattle farm vinicity", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "F", "temperate": true }, "psubcluster": { "subcluster": "F1" }, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": 52141, "gcpercent": "61.5", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": true, "is_phamerated": true, "num_ORFs": 87, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": true, "paper_published_in": null, "in_genbank": true, "genbank_accession": "GU060500", "refseq_accession": "NC_013936", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": "https://phagesdb.org/media/vDigestPics/Restriction_Map_Ardmore.jpg", "fasta_file": "https://phagesdb.org/media/fastas/Ardmore.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2010-04-30T20:00:00-04:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "AreaCodes", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Inside joke", "finder_name": "Rodolfo Villalobos, Jocelyn Withman", "found_city": "Boulder", "found_state": "CO", "found_country": "United States", "found_GPS_lat": "39.99676 N", "found_GPS_long": "105.24971 W", "found_year": 2025, "p_institution": { "institution_code": "UCBO", "institution_name": "University of Colorado Boulder", "institution_logo": "https://phagesdb.org/media/institutions/Colorado.jpg", "institution_url": "http://www.colorado.edu/", "institution_city": "Boulder", "institution_state": "CO", "institution_country": "USA", "institution_latitude": "40.007799", "institution_longitude": "-105.2659" }, "enriched_sample": true, "discovery_notes": "Found outside apartment, in the soil under the snow in Boulder Colorado.", "isolation_temperature": -6, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Siphoviridae", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AreaCodes_Plaque.HEIC", "em_file": "https://phagesdb.org/media/emPics/AreaCodes_EMPic.TIF", "digest_file": "https://phagesdb.org/media/digestPics/AreaCodes_Digest.HEIC", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2025-04-23T13:34:36-04:00", "date_modified": "2025-04-29T14:33:07-04:00" }, { "phage_name": "AreFloNak", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Combination of first 3 letters of our last names.", "finder_name": "Jesus Arellano, Diana Flores, Samantha Nakata", "found_city": "Bethany", "found_state": "OK", "found_country": "USA", "found_GPS_lat": "35.499167 N", "found_GPS_long": "97.674722 W", "found_year": 2021, "p_institution": { "institution_code": "UCOK", "institution_name": "University of Central Oklahoma", "institution_logo": "https://phagesdb.org/media/institutions/UniversityofCentralOklahoma.JPG", "institution_url": "https://www.uco.edu/", "institution_city": "Edmond", "institution_state": "OK", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "The soil came from rocky moist river bank with a lot of organic matter.", "isolation_temperature": 28, "growth_notes": "", "pcluster": { "cluster": "AU", "temperate": false }, "psubcluster": { "subcluster": "AU1" }, "morphotype": "SIPHO", "plaque_notes": "The phage forms clear plaques with 3.5mm diameter.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2022-01-10", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 2081, "finishing_reactions": 0, "genome_length": 58354, "gcpercent": "50.0", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 9, "overhang_sequence": "CGCCGGCCT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 100, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "sp. ", "strain_name": "ATCC 21022", "strain_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "21022", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AreFloNak_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/AreFloNak.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-10-13T15:44:32-04:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Areg16", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "\"Ar\" are the first two letters of my first name. \"eg\" are the first two letters of my last name. 16 was the arbitrary number I came up with to complete the name.", "finder_name": "Areian Eghbali", "found_city": "La Jolla ", "found_state": "CA", "found_country": "USA", "found_GPS_lat": "32.874444 N", "found_GPS_long": "117.241111 W", "found_year": 2014, "p_institution": { "institution_code": "UCSD", "institution_name": "University of California, San Diego", "institution_logo": "https://phagesdb.org/media/institutions/UCSD.png", "institution_url": "http://www.ucsd.edu/", "institution_city": "San Diego", "institution_state": "CA", "institution_country": "USA", "institution_latitude": "32.880335", "institution_longitude": "-117.2340" }, "enriched_sample": null, "discovery_notes": "The particular purifications used was taken out of 37°C incubation at 12 pm on 10/22. The titer of my final 10 plate lysate was 2.0E11 PFU/mL.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "After 5 purifications, I had plaques ranging from 1-2 milimeters. Plaques were bull's eye. Morphology is clear. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Areg16_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Areg16_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Areg16_Digest.JPG", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Areg16_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Areg16_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2014-12-10T14:28:56-05:00", "date_modified": "2020-07-29T13:42:16-04:00" }, { "phage_name": "Ares", "old_names": "", "program": { "short_name": "PHIRE", "program_name": "Phage Hunters Integrating Research and Education", "program_blurb": "", "program_URL": "" }, "naming_notes": "", "finder_name": "Laura Marinelli", "found_city": "Washington", "found_state": "DC", "found_country": "USA", "found_GPS_lat": "38.907200 N", "found_GPS_long": "77.036800 W", "found_year": 2003, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "B", "temperate": false }, "psubcluster": { "subcluster": "B2" }, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2011-09-20", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "454", "method_name": "454" }, "coverage": 250, "finishing_reactions": null, "genome_length": 67436, "gcpercent": "69.0", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": true, "is_phamerated": true, "num_ORFs": 92, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": true, "paper_published_in": { "title": "Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity", "abstract": "The bacteriophage population is large, dynamic, ancient, and genetically diverse. Limited genomic information shows that phage genomes are mosaic, and the genetic architecture of phage populations remains ill-defined. To understand the population structure of phages infecting a single host strain, we isolated, sequenced, and compared 627 phages of Mycobacterium smegmatis. Their genetic diversity is considerable, and there are 28 distinct genomic types (clusters) with related nucleotide sequences. However, amino acid sequence comparisons show pervasive genomic mosaicism, and quantification of inter-cluster and intra-cluster relatedness reveals a continuum of genetic diversity, albeit with uneven representation of different phages. Furthermore, rarefaction analysis shows that the mycobacteriophage population is not closed, and there is a constant influx of genes from other sources. Phage isolation and analysis was performed by a large consortium of academic institutions, illustrating the substantial benefits of a disseminated, structured program involving large numbers of freshman undergraduates in scientific discovery. ", "full_author_list": "Pope WH, Bowman CA, Russell DA, Jacobs-Sera D, Asai DJ, Cresawn SG, Jacobs WR, Hendrix RW, Lawrence JG, Hatfull GF; Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science; Phage Hunters Integrating Research and Education; Mycobacterial Genetics Course", "short_author_list": "Pope, Bowman, Russell, et al", "article_url": "http://elifesciences.org/content/4/e06416", "journal": "eLIFE", "journal_volume": "4", "journal_issue": "", "journal_pages": "", "pub_year": "2015", "pubmed_id": "25919952" }, "in_genbank": true, "genbank_accession": "JN699004", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Ares_1.tif", "digest_file": null, "vdigest_file": "https://phagesdb.org/media/vDigestPics/Ares_Restriction_Map.jpg", "fasta_file": "https://phagesdb.org/media/fastas/Ares.fasta", "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Ares_1_Thumb.jpeg", "dnam_file": "https://phagesdb.org/media/dnam/Ares.dnam5", "date_added": "2010-04-30T20:00:00-04:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Arete", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Kaitlyn McCracken", "found_city": "Orange City", "found_state": "IA", "found_country": "United States", "found_GPS_lat": "43.0008 N", "found_GPS_long": "96.0603 W", "found_year": 2019, "p_institution": { "institution_code": "NWRC", "institution_name": "Northwestern College", "institution_logo": "https://phagesdb.org/media/institutions/NorthwesternCollege_WeS7TIe.jpg", "institution_url": "http://www.nwciowa.edu/", "institution_city": "Orange City", "institution_state": "IA", "institution_country": "USA", "institution_latitude": "42.997964", "institution_longitude": "-96.05829" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "EM", "temperate": null }, "psubcluster": { "subcluster": "EM1" }, "morphotype": "PODO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2019-11-26", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 113, "finishing_reactions": 0, "genome_length": 53692, "gcpercent": "64.6", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 49, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Arete_CompleteNotes.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Arete_Minimal_Final.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Arete_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Arete_CoverSheet.pdf", "submitted_annotation_date": "2020-01-28T15:08:08-05:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Arete_flat.txt", "qced_genbank_file_date": "2020-01-28T15:06:00-05:00", "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MT024863", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Arete.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2019-11-11T08:03:37-05:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Aretha", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name Aretha comes from the ancient greek word meaning excellence. Although the name does not bear much significance towards our phage, the experimental process was excellent and our phage results turned out to be extremely favorable.", "finder_name": "Sean Cappellano, Haley Fleck", "found_city": "Spokane", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "47.66637 N", "found_GPS_long": "117.40699 W", "found_year": 2022, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "We collected the soil sample that contained our phage Aretha from the shoreline of the river on the Gonzaga campus. Our sample was taken from damp soil that contained some small rocks, stringy mud, and sand.", "isolation_temperature": 22, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques look clear with regular and irregular circular shape. The size of the plaques are 3-5mm in diameter, and have a cloudy ring around each clearing.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aretha_Plaque.jpg", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/Aretha_Digest.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aretha_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2022-11-17T08:53:48-05:00", "date_modified": "2024-02-25T15:28:08-05:00" }, { "phage_name": "AreToDeeTo", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Morgan Flynn and Victoria Hare", "found_city": "Boulder", "found_state": "CO", "found_country": "USA", "found_GPS_lat": "40.009722 N", "found_GPS_long": "105.269722 W", "found_year": 2010, "p_institution": { "institution_code": "UCBO", "institution_name": "University of Colorado Boulder", "institution_logo": "https://phagesdb.org/media/institutions/Colorado.jpg", "institution_url": "http://www.colorado.edu/", "institution_city": "Boulder", "institution_state": "CO", "institution_country": "USA", "institution_latitude": "40.007799", "institution_longitude": "-105.2659" }, "enriched_sample": true, "discovery_notes": "near shrub vegetation; 1.5 m from a building and about 1 m from a highly trafficked sidewalk ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Approximately 1 mm-4mm in diameter; inverse bulls-eye shape (clear center, cloudy dark exterior); incubated 45-48 hours at 37°C", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/R2D2_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/AreToDeeTo_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/AreToDeeTo_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/AreToDeeTo_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/AreToDeeTo_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2010-12-20T07:34:57-05:00", "date_modified": "2017-09-12T10:21:46-04:00" }, { "phage_name": "Arewe", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "\"Arewe\" is \"arrow\" in latin. ", "finder_name": "Pascal Kadamani", "found_city": "Newburgh", "found_state": "NY", "found_country": "USA", "found_GPS_lat": "41.51 N", "found_GPS_long": "74.01 W", "found_year": 2016, "p_institution": { "institution_code": "MSMC", "institution_name": "Mount Saint Mary College", "institution_logo": "https://phagesdb.org/media/institutions/MountSaintMaryCollege.JPG", "institution_url": "http://www.msmc.edu/", "institution_city": "Newburgh", "institution_state": "NY", "institution_country": "USA", "institution_latitude": "41.512859", "institution_longitude": "-74.01247" }, "enriched_sample": false, "discovery_notes": "I located my samples from two flower beds and under one tree. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The morphology of my plaques have a clear center with a halo looking fuzz around it. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arewe_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/Arewe_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Arewe_Digest.PNG", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arewe_Plaque.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Arewe_EMPic_5VVIyCs.jpg", "dnam_file": null, "date_added": "2016-11-16T22:27:23-05:00", "date_modified": "2020-09-17T14:07:18-04:00" }, { "phage_name": "Arey123", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I named the phage \"Arey\" because it is a life long nickname of mine and I thought it would fit my phage nicely.", "finder_name": "Andrew R. Reynolds", "found_city": "Philadelphia", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": null, "p_institution": { "institution_code": "LASL", "institution_name": "La Salle University", "institution_logo": "https://phagesdb.org/media/institutions/la-salle-university.gif", "institution_url": "http://www.lasalle.edu/", "institution_city": "Philadelphia", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.039459", "institution_longitude": "-75.15517" }, "enriched_sample": true, "discovery_notes": "Found by digging a few inches into the ground. Found in a landscape bed surrounded by concrete walkways and roads. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2015-12-01T16:36:43-05:00", "date_modified": "2015-12-01T16:36:43-05:00" }, { "phage_name": "Arfine", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Andrés S. Millán Laboy", "found_city": "Humacao", "found_state": "PR", "found_country": "", "found_GPS_lat": "18.1274 N", "found_GPS_long": "65.8184 W", "found_year": 2018, "p_institution": { "institution_code": "UPRC", "institution_name": "University of Puerto Rico at Cayey", "institution_logo": "https://phagesdb.org/media/institutions/PuertoRicoCayey.gif", "institution_url": "http://www.cayey.upr.edu/", "institution_city": "Cayey", "institution_state": "PR", "institution_country": "USA", "institution_latitude": "18.117905", "institution_longitude": "-66.16160" }, "enriched_sample": true, "discovery_notes": "Humid, fertile, normal in organic material", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "3mm x 3mm/ clear/ 24 hours/ 30°C", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2019-05-23T12:17:07-04:00", "date_modified": "2020-09-17T14:10:42-04:00" }, { "phage_name": "Argage", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Liam Argaw", "found_city": "Spokane", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "47.66699 N", "found_GPS_long": "117.39786 W", "found_year": 2024, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 22, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-12-06T21:23:15-05:00", "date_modified": "2025-08-01T10:53:34-04:00" }, { "phage_name": "Argan", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Phages were being isolated and found during the time the FIFA World Cup, with two partners they share many similarities, but when it comes to soccer it's different, one favors Argentina and another favors Poland. And so the name was created during a match between Argentina vs. Poland, and Argentina ended up winning.", "finder_name": "Mahir Rahman and Michael Kaczmarski", "found_city": "Glen Oaks", "found_state": "NY", "found_country": "United States", "found_GPS_lat": "40.74181 N", "found_GPS_long": "73.71456 W", "found_year": 2022, "p_institution": { "institution_code": "NYIT", "institution_name": "New York Institute of Technology", "institution_logo": "https://phagesdb.org/media/institutions/newyorkIT.png", "institution_url": "", "institution_city": "Old Westbury", "institution_state": "NY", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "The sample was in an enriched environment and was moist with a soft texture. Fertilizers were commonly used due to the fact it was collected in the backyard of my house, in a family vegetable garden, more specifically in a bed of lettuce. The soil was fertilized properly and watered frequently and taken care of. The temperature of the day the sample was taken was 72 degrees", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "AU", "temperate": false }, "psubcluster": { "subcluster": "AU6" }, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2023-01-19", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 441, "finishing_reactions": 0, "genome_length": 55220, "gcpercent": "50.3", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 9, "overhang_sequence": "CGCCGGCCT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 92, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Argan_CompleteNotes.txt", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Argan_Minimal_Final_oYDI1SM.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Argan_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Argan_CoverSheet.docx", "submitted_annotation_date": "2023-09-19T12:31:26-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Argan_flat_GiJC7r5.txt", "qced_genbank_file_date": "2023-09-19T12:31:26-04:00", "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "NRRL B-2880", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "OR613480", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Argan.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-12-09T09:25:52-05:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Argel7", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "the name of this phage comes from the two first letters in my first name and the three last letters form my last name. I consider 7 a special number, that is the reason I added it to the end of the name.", "finder_name": "Armando Rangel", "found_city": "Lawrenceville", "found_state": "GA", "found_country": "USA", "found_GPS_lat": "33.979581 N", "found_GPS_long": "84.002594 W", "found_year": 2014, "p_institution": { "institution_code": "GGWC", "institution_name": "Georgia Gwinnett College", "institution_logo": "https://phagesdb.org/media/institutions/GAGW_BRAND_01.jpg", "institution_url": "http://www.ggc.edu/", "institution_city": "Lawrenceville", "institution_state": "GA", "institution_country": "USA", "institution_latitude": "33.980655", "institution_longitude": "-84.00226" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Argel7_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Argel7_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2014-05-06T14:59:44-04:00", "date_modified": "2020-09-17T14:05:39-04:00" }, { "phage_name": "Argena", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "A tree from Phipps, we love trees!", "finder_name": "Jana Elenany", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "United States", "found_GPS_lat": "40.439 N", "found_GPS_long": "79.948 W", "found_year": 2025, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "Group members: Esther Yoo, Tom Meng\r\nThe soil came from an indoor, maintained facility. Small fern type of plant from Phipps Conservatory. Obtained from a well insulated facility, with certain gas present in the place, very rich dark soil, well watered tree plant. Found in Spring of 2025", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "DQ", "temperate": false }, "psubcluster": null, "morphotype": "", "plaque_notes": "Clear, small circular plaques.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2025-08-06", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 3178, "finishing_reactions": 0, "genome_length": 89560, "gcpercent": "60.3", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 126, "num_tRNAs": 1, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "rubripertincta", "strain_name": "NRRL B-16540", "strain_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Argena_Plaque_pil12Nl.png", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Argena.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2025-02-11T13:20:20-05:00", "date_modified": "2025-11-01T06:41:03-04:00" }, { "phage_name": "Argent26", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "A combination of my first name, last name, and birthday.", "finder_name": "Anthony Gentile", "found_city": "Melrose", "found_state": "MA", "found_country": "USA", "found_GPS_lat": "42.451111 N", "found_GPS_long": "71.076389 W", "found_year": 2020, "p_institution": { "institution_code": "MERI", "institution_name": "Merrimack College", "institution_logo": "https://phagesdb.org/media/institutions/14169_mc_centered_rgb.png", "institution_url": "http://www.merrimack.edu/", "institution_city": "North Andover", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "42.667953", "institution_longitude": "-71.12257" }, "enriched_sample": true, "discovery_notes": "Soil isolated from a raised garden bed used to grow tomatoes and squash.", "isolation_temperature": 21, "growth_notes": "", "pcluster": { "cluster": "E", "temperate": true }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Large, clear plaques.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2021-01-20", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 3762, "finishing_reactions": 0, "genome_length": 75132, "gcpercent": "62.9", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 9, "overhang_sequence": "CGCTTGTCA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 148, "num_tRNAs": 2, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Argent26_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2022-07-01T01:08:36-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Argent26.gbf", "qced_genbank_file_date": "2022-07-01T01:08:36-04:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "ON970597", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Argent26_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Argent26.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Argent26_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2020-12-15T13:42:27-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Argh", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Our name initials contributed to the naming process.", "finder_name": "Antonella Rivezzi and Gabriela Hilario", "found_city": "Montclair", "found_state": "NJ", "found_country": "USA", "found_GPS_lat": "40.864524 N", "found_GPS_long": "74.196829 W", "found_year": 2013, "p_institution": { "institution_code": "MCSU", "institution_name": "Montclair State University", "institution_logo": "https://phagesdb.org/media/institutions/msu_.jpg", "institution_url": "http://www.montclair.edu/", "institution_city": "Montclair", "institution_state": "NJ", "institution_country": "USA", "institution_latitude": "40.861767", "institution_longitude": "-74.19856" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Argh_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Argh_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Argh_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2013-12-03T09:42:22-05:00", "date_modified": "2020-09-17T14:05:18-04:00" }, { "phage_name": "Argie", "old_names": "Gregmatis", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Julia Dane and Sohail Mirza", "found_city": "Pensacola", "found_state": "FL", "found_country": "USA", "found_GPS_lat": "30.56 N", "found_GPS_long": "87.22 W", "found_year": 2016, "p_institution": { "institution_code": "UWFL", "institution_name": "University of West Florida", "institution_logo": "https://phagesdb.org/media/institutions/UWestFlorida.png", "institution_url": "http://uwf.edu/", "institution_city": "Pensacola", "institution_state": "FL", "institution_country": "United States", "institution_latitude": "30.546962", "institution_longitude": "-87.21669" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 26, "growth_notes": "", "pcluster": { "cluster": "W", "temperate": false }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2018-01-12", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 172, "finishing_reactions": 0, "genome_length": 61547, "gcpercent": "67.5", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 92, "num_tRNAs": 1, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Argie_CompleteNotes.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Argie_Minimal_Final_DReWbxR.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Argie_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Argie_CoverSheet_BmAy3nR.pdf", "submitted_annotation_date": "2019-01-31T15:01:49-05:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Argie_flat.txt", "qced_genbank_file_date": "2019-01-31T15:01:49-05:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MK494114", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Argie_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Argie.fasta", "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Argie_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2016-12-06T22:45:49-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Argo", "old_names": "TLAS27", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Samantha Nadeau", "found_city": "La Jolla", "found_state": "CA", "found_country": "USA", "found_GPS_lat": "32.874165 N", "found_GPS_long": "117.241791 W", "found_year": 2013, "p_institution": { "institution_code": "UCSD", "institution_name": "University of California, San Diego", "institution_logo": "https://phagesdb.org/media/institutions/UCSD.png", "institution_url": "http://www.ucsd.edu/", "institution_city": "San Diego", "institution_state": "CA", "institution_country": "USA", "institution_latitude": "32.880335", "institution_longitude": "-117.2340" }, "enriched_sample": true, "discovery_notes": "Soil was damp and dark, sunny area on south side of Argo residence hall. Approximately 68 degrees Fahrenheit. Soil from approximately 1 inch deep.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Plaques approximately 4 mm in diameter, turbid plaques, incubated at 37 degrees Celsius, incubated approximately 117 hours.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/TLAS27_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/TLAS27_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/TLAS27_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/TLAS27_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Argo_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2013-12-16T09:25:27-05:00", "date_modified": "2020-09-17T14:05:18-04:00" }, { "phage_name": "Argonaut", "old_names": "Argus", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Sophia Mitchell, Dominic Scolari", "found_city": "Boulder", "found_state": "CO", "found_country": "United States", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2019, "p_institution": { "institution_code": "UCBO", "institution_name": "University of Colorado Boulder", "institution_logo": "https://phagesdb.org/media/institutions/Colorado.jpg", "institution_url": "http://www.colorado.edu/", "institution_city": "Boulder", "institution_state": "CO", "institution_country": "USA", "institution_latitude": "40.007799", "institution_longitude": "-105.2659" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2019-12-05T15:05:18-05:00", "date_modified": "2021-01-28T11:04:23-05:00" }, { "phage_name": "Argos", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Argos is the name of the area and lake at USF in which the phage was found.", "finder_name": "Guillermina Lohfeldt", "found_city": "Tampa", "found_state": "FL", "found_country": "United States", "found_GPS_lat": "28.0629 N", "found_GPS_long": "82.4108 W", "found_year": 2019, "p_institution": { "institution_code": "USFL", "institution_name": "University of South Florida", "institution_logo": "https://phagesdb.org/media/institutions/UniversityofSouthFlorida.jpg", "institution_url": "http://www.usf.edu/", "institution_city": "Tampa", "institution_state": "FL", "institution_country": "USA", "institution_latitude": "28.058438", "institution_longitude": "-82.41395" }, "enriched_sample": null, "discovery_notes": "Found in moist lake shore soil of my University. Outside temp 88 degrees F. Sunny and humid conditions outside.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "PODO", "plaque_notes": "Clear, lytic, round with no jagged edges.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Argos_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/Argos_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Argos_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2019-10-23T06:54:46-04:00", "date_modified": "2020-09-17T14:10:57-04:00" }, { "phage_name": "Arguss", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I named my phage after the best character in all of harry potter. So much character development, so caring towards his cat, loves to hang students by their thumbs. It's not even a question as to why I picked the name Arguss, it just makes sense.", "finder_name": "Brooklyn Gray", "found_city": "Gainesville", "found_state": "TX", "found_country": "United States", "found_GPS_lat": "33.6171 N", "found_GPS_long": "97.1405 W", "found_year": 2020, "p_institution": { "institution_code": "UNTD", "institution_name": "University of North Texas", "institution_logo": "https://phagesdb.org/media/institutions/UNT-01.jpg", "institution_url": "http://www.unt.edu/", "institution_city": "Denton", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "33.207825", "institution_longitude": "-97.15253" }, "enriched_sample": true, "discovery_notes": "I collected soil from a mulch pile near a backyard garden in Gainesville, TX. The weather was hot and dry. I dug up the sample with a spoon and placed into a bag that I labeled \"WC Tree\".", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "There were two different plaque sizes, 1mm and 2mm in diameter. The plaques were clear and round", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Streptomyces", "species": "griseus", "strain_name": "ATCC 10137", "strain_species": { "id": 4, "genus": "Streptomyces", "species_name": "griseus", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", 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"https://phagesdb.org/media/emPics/Argyle_EMPic.TIF", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-10-04T11:34:11-04:00", "date_modified": "2022-03-16T11:02:29-04:00" }, { "phage_name": "Aria", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Ariana Barlas", "found_city": "Albany", "found_state": "NY", "found_country": "United States", "found_GPS_lat": "42.68841 N", "found_GPS_long": "73.861896 W", "found_year": 2023, "p_institution": { "institution_code": "ACPS", "institution_name": "Albany College of Pharmacy and Health Sciences", "institution_logo": "https://phagesdb.org/media/institutions/apchsnav_logo.png", "institution_url": "https://www.acphs.edu/", "institution_city": "Albany", "institution_state": "NY", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "Albany, New York, Summertime", "isolation_temperature": 26, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Diameter less than 1 mm, small plaques", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "rubripertincta", "strain_name": "NRRL B-16540", "strain_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aria_Plaque.jpeg", "em_file": "https://phagesdb.org/media/emPics/Aria_EMPic.jpeg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aria_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Aria_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2023-11-13T12:09:36-05:00", "date_modified": "2025-09-22T15:21:20-04:00" }, { "phage_name": "Ariadne", "old_names": "", "program": { "short_name": "PHIRE", "program_name": "Phage Hunters Integrating Research and Education", "program_blurb": "", "program_URL": "" }, "naming_notes": "", "finder_name": "Vaishnavi Mahalingam", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.4443 N", "found_GPS_long": "79.9532 W", "found_year": 2019, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "EC", "temperate": false }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Small, clear, slightly haloed plaques.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2019-06-28", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 67, "finishing_reactions": 0, "genome_length": 54347, "gcpercent": "68.4", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 100, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Ariadne_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2019-10-07T23:23:32-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Ariadne.gbf", "qced_genbank_file_date": "2019-10-07T23:23:32-04:00", "isolation_host": { "genus": "Microbacterium", "species": "paraoxydans", "strain_name": "NWU1", "strain_species": { "id": 45, "genus": "Microbacterium", "species_name": "paraoxydans", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "Isolated by Nebraska Wesleyan University" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 45, "genus": "Microbacterium", "species_name": "paraoxydans", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MN585986", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Ariadne.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": "https://phagesdb.org/media/dnam/Ariadne.dnam5", "date_added": "2019-03-04T17:11:41-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "ArianaSWT", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named after a studio album by the singer Ariana Grande", "finder_name": "Daniel Baerwald and Eden Brodsky", "found_city": "St. Louis", "found_state": "MO", "found_country": "United States of America", "found_GPS_lat": "38.643752 N", "found_GPS_long": "90.313098 W", "found_year": 2025, "p_institution": { "institution_code": "WUSL", "institution_name": "Washington University in St. Louis", "institution_logo": "https://phagesdb.org/media/institutions/WashU2_.jpg", "institution_url": "http://www.wustl.edu/", "institution_city": "St. Louis", "institution_state": "MO", "institution_country": "USA", "institution_latitude": "38.649087", "institution_longitude": "-90.31083" }, "enriched_sample": false, "discovery_notes": "From soft soil near a tree and some mulch. The sample was taken five inches deep.", "isolation_temperature": 24, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Streptomyces", "species": "lividans", "strain_name": "JI 1326", "strain_species": { "id": 3, "genus": "Streptomyces", "species_name": "lividans", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 3, "genus": "Streptomyces", "species_name": "lividans", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2025-10-20T12:34:07-04:00", "date_modified": "2025-10-20T12:34:07-04:00" }, { "phage_name": "Ariando", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name of this phage is a combination of the first names of the students who isolated the phage.", "finder_name": "Fernando Hern, Arij Gabir", "found_city": "Boulder", "found_state": "CO", "found_country": "United States", "found_GPS_lat": "40.000458 N", "found_GPS_long": "105.247817 W", "found_year": 2019, "p_institution": { "institution_code": "UCBO", "institution_name": "University of Colorado Boulder", "institution_logo": "https://phagesdb.org/media/institutions/Colorado.jpg", "institution_url": "http://www.colorado.edu/", "institution_city": "Boulder", "institution_state": "CO", "institution_country": "USA", "institution_latitude": "40.007799", "institution_longitude": "-105.2659" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": -4, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "The plaques had a clear plaque morphology indicating a lytic phage.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Ariando_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/Ariando_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Ariando_Digest.jpeg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Ariando_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Ariando_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2019-04-30T15:15:21-04:00", "date_modified": "2021-01-28T11:04:23-05:00" }, { "phage_name": "Arianna", "old_names": "", "program": { "short_name": "PHIRE", "program_name": "Phage Hunters Integrating Research and Education", "program_blurb": "", "program_URL": "" }, "naming_notes": "", "finder_name": "Kira Zack", "found_city": "Suscon", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "41.311944 N", "found_GPS_long": "75.731944 W", "found_year": 2018, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", 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deletion of 21723 - 21893 bp", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 54, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Arianna_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2022-08-03T12:42:07-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Arianna.gbf", "qced_genbank_file_date": "2022-08-03T12:42:07-04:00", "isolation_host": { "genus": "Corynebacterium", "species": "vitaeruminis", "strain_name": "CAG1", "strain_species": { "id": 17, "genus": "Corynebacterium", "species_name": "vitaeruminis", "species_genus": { "id": 7, "genus_domain": "Bacteria", "genus_name": "Corynebacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "Derived from NCIB9291, but without the prophage in it." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 17, "genus": "Corynebacterium", "species_name": "vitaeruminis", "species_genus": { "id": 7, "genus_domain": "Bacteria", "genus_name": "Corynebacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 7, "genus_domain": "Bacteria", "genus_name": "Corynebacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "OP172878", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Arianna_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Arianna.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arianna_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Arianna_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2018-04-02T08:40:52-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Arib1", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Anna Ribich", "found_city": "Duluth", "found_state": "MN", "found_country": "USA", "found_GPS_lat": "46.816500 N", "found_GPS_long": "92.105500 W", "found_year": 2016, "p_institution": { "institution_code": "CSSC", "institution_name": "College of St. Scholastica", "institution_logo": "https://phagesdb.org/media/institutions/CSSlogo14.jpg", "institution_url": "http://www.css.edu/", "institution_city": "Duluth", "institution_state": "MN", "institution_country": "USA", "institution_latitude": "46.818302", "institution_longitude": "-92.10086" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "P", "temperate": true }, "psubcluster": { "subcluster": "P1" }, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2016-12-16", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 2205, "finishing_reactions": 0, "genome_length": 46732, "gcpercent": "67.5", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 12, "overhang_sequence": "CCCGCCCCCCGA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 78, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Arib1_CompleteNotes_uLQUF7D.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Arib1_Minimal_Final_JEVDMs7.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Arib1_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Arib1_CoverSheet.pdf", "submitted_annotation_date": "2017-08-29T11:48:20-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Arib1_flat_sKMjBMY.txt", "qced_genbank_file_date": "2017-08-29T11:48:20-04:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MF919492", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arib1_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Arib1_EMPic.tiff", "digest_file": "https://phagesdb.org/media/digestPics/Arib1_Digest.jpg", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Arib1.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arib1_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2016-10-12T10:17:57-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Arid", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I named my phage Arid because it represents the desert climate of the Intermountain West.", "finder_name": "Siena Levine", "found_city": "Pocatello", "found_state": "ID", "found_country": "United States", "found_GPS_lat": "42.868049 N", "found_GPS_long": "112.429867 W", "found_year": 2025, "p_institution": { "institution_code": "IDSU", "institution_name": "Idaho State University", "institution_logo": "https://phagesdb.org/media/institutions/ISU-vertical.png", "institution_url": "https://www.isu.edu/", "institution_city": "Pocatello", "institution_state": "ID", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "My sample was collected at Idaho State University. It was colllected at the garden between the Gale Life Sciences building and the Speech Language Pathology/nursing building. It was collected by a pink flower, most likely a tulip. The soil had previously been irrigated, but was starting to dry up in the late summer sun. It was collected at about 10 in the morning, and the temperature outside was about 64 degrees Fahrenheit. The weather conditions were warm and mostly sunny, with very few clouds. The soil was semi-wet organic material.", "isolation_temperature": 24, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2025-10-07T14:52:55-04:00", "date_modified": "2025-10-07T14:52:55-04:00" }, { "phage_name": "Arie", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The phage will be named after Preisser's dog, Arie, who is a sheep dog mix.", "finder_name": "Jade Preisser and Elle Rau", "found_city": "Boulder", "found_state": "CO", "found_country": "United States", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2022, "p_institution": { "institution_code": "UCBO", "institution_name": "University of Colorado Boulder", "institution_logo": "https://phagesdb.org/media/institutions/Colorado.jpg", "institution_url": "http://www.colorado.edu/", "institution_city": "Boulder", "institution_state": "CO", "institution_country": "USA", "institution_latitude": "40.007799", "institution_longitude": "-105.2659" }, "enriched_sample": true, "discovery_notes": "Soil came from a large pot full of mulch, dirt, and plants outside the Sewall dorm.", "isolation_temperature": 23, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "The Arie phage creates large turbid plaques because it is temperate.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arie_Plaque.HEIC", "em_file": "https://phagesdb.org/media/emPics/Arie_EMPic.TIF", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-11-29T14:58:03-05:00", "date_modified": "2024-02-25T15:27:58-05:00" }, { "phage_name": "Ariel", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Morgan Sherer", "found_city": "Columbus", "found_state": "OH", "found_country": "USA", "found_GPS_lat": "40.00405 N", "found_GPS_long": "83.002236 W", "found_year": 2012, "p_institution": { "institution_code": "TOSU", "institution_name": "The Ohio State University", "institution_logo": "https://phagesdb.org/media/institutions/ohiostate_logo.jpg", "institution_url": "http://www.osu.edu/", "institution_city": "Columbus", "institution_state": "OH", "institution_country": "USA", "institution_latitude": "40.014457", "institution_longitude": "-83.03091" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "J", "temperate": true }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2013-02-04", "seq_facility": { "short_name": "VCU", "facility_name": "Virginia Commonwealth University Nucleic Acids Research Facilities", "contact_person": "", "shipping_address": "", "facility_website": "http://www.narf.vcu.edu/" }, "seq_method": { "short_name": "454", "method_name": "454" }, "coverage": 190, "finishing_reactions": 11, "genome_length": 109801, "gcpercent": "61.0", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 4, "overhang_sequence": "ATCC", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": true, "is_phamerated": true, "num_ORFs": 245, "num_tRNAs": 2, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Ariel_Final_1.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Ariel_Minimal_Final.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Ariel_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Ariel_CoverSheet.txt", "submitted_annotation_date": "2018-01-26T20:07:52-05:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Ariel_flat_updated.txt", "qced_genbank_file_date": "2018-01-26T20:07:52-05:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": true, "paper_published_in": { "title": "Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity", "abstract": "The bacteriophage population is large, dynamic, ancient, and genetically diverse. Limited genomic information shows that phage genomes are mosaic, and the genetic architecture of phage populations remains ill-defined. To understand the population structure of phages infecting a single host strain, we isolated, sequenced, and compared 627 phages of Mycobacterium smegmatis. Their genetic diversity is considerable, and there are 28 distinct genomic types (clusters) with related nucleotide sequences. However, amino acid sequence comparisons show pervasive genomic mosaicism, and quantification of inter-cluster and intra-cluster relatedness reveals a continuum of genetic diversity, albeit with uneven representation of different phages. Furthermore, rarefaction analysis shows that the mycobacteriophage population is not closed, and there is a constant influx of genes from other sources. Phage isolation and analysis was performed by a large consortium of academic institutions, illustrating the substantial benefits of a disseminated, structured program involving large numbers of freshman undergraduates in scientific discovery. ", "full_author_list": "Pope WH, Bowman CA, Russell DA, Jacobs-Sera D, Asai DJ, Cresawn SG, Jacobs WR, Hendrix RW, Lawrence JG, Hatfull GF; Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science; Phage Hunters Integrating Research and Education; Mycobacterial Genetics Course", "short_author_list": "Pope, Bowman, Russell, et al", "article_url": "http://elifesciences.org/content/4/e06416", "journal": "eLIFE", "journal_volume": "4", "journal_issue": "", "journal_pages": "", "pub_year": "2015", "pubmed_id": "25919952" }, "in_genbank": true, "genbank_accession": "KM400683", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Ariel_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Ariel_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Ariel_Digest.jpg", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Ariel.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Ariel_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Ariel_EMPic_Thumb.png", "dnam_file": null, "date_added": "2012-12-07T09:11:25-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Arielagos", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Roberto Fuentes", "found_city": "Emmitsburg", "found_state": "MD", "found_country": "United States", "found_GPS_lat": "39.68088 N", "found_GPS_long": "77.34865 W", "found_year": 2022, "p_institution": { "institution_code": "MMYU", "institution_name": "Mount St. Mary’s University", "institution_logo": "https://phagesdb.org/media/institutions/msmu-logo.png", "institution_url": "https://msmary.edu/", "institution_city": "Emmitsburg", "institution_state": "MD", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "I collected my sample in the stream bank right outside the tunnel heading to the arcc. The day we collected our samples it was warm out so there wasn’t running water, but the soil was still damp. It almost had a clay like texture with small debris such as rocks in it. I got some soil from the side of the bank where it had some shade.", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "AN", "temperate": false }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "My plaques are mostly 4mm in diameter. The plaques themselves are clear in the center with a cloudy ring around them. There also was a bullseye for most of them.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2023-01-11", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 6292, "finishing_reactions": 0, "genome_length": 15297, "gcpercent": "65.3", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 11, "overhang_sequence": "CCCGCGCCCAC", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 23, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Arielagos_CompleteNotes.xlsx", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Arielagos_Minimal_Final_vIBEG7G.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Arielagos_Authors_9J8MTXv.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Arielagos_CoverSheet.pdf", "submitted_annotation_date": "2023-08-08T10:55:04-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Arielagos_flat_KWSIzjo.txt", "qced_genbank_file_date": "2023-08-08T10:55:04-04:00", "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "OR521077", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Arielagos.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-01-11T13:43:52-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Ariella", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "This phage is named after a young girl who means a lot to me. She is rambunctious and hilarious, and I love her with all my heart. ", "finder_name": "Katelyn Driggers", "found_city": "Rock Hill", "found_state": "SC", "found_country": "USA", "found_GPS_lat": "34.9393 N", "found_GPS_long": "81.0298 W", "found_year": 2018, "p_institution": { "institution_code": "WNTH", "institution_name": "Winthrop University", "institution_logo": "https://phagesdb.org/media/institutions/WinthropUniversity.jpg", "institution_url": "http://www.winthrop.edu/", "institution_city": "Rock Hill", "institution_state": "SC", "institution_country": "USA", "institution_latitude": "34.939523", "institution_longitude": "-81.03154" }, "enriched_sample": true, "discovery_notes": "The phage was collected from a soil sample on August 27, 2018. It was found under a Magnolia tree at a depth of about 2-3 inches at 24 degrees Celsius. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2018-10-25T14:09:58-04:00", "date_modified": "2020-09-17T14:09:59-04:00" }, { "phage_name": "Arielle", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Arielle Lambert", "found_city": "Baltimore", "found_state": "MD", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2008, "p_institution": { "institution_code": "UMBC", "institution_name": "University of Maryland, Baltimore County", "institution_logo": "https://phagesdb.org/media/institutions/UMBC_Logo.png", "institution_url": "http://www.umbc.edu/", "institution_city": "Baltimore", "institution_state": "MD", "institution_country": "USA", "institution_latitude": "39.256328", "institution_longitude": "-76.71072" }, "enriched_sample": true, "discovery_notes": "Soil by bushes next to smoke eater next to Biological Sciences building on UMBC campus", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arielle_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Arielle_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Arielle_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arielle_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Arielle_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2010-04-30T20:00:00-04:00", "date_modified": "2017-09-12T10:21:46-04:00" }, { "phage_name": "ArielleDownes", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Arielle Downes", "found_city": "Washington", "found_state": "DC", "found_country": "USA", "found_GPS_lat": "38.9177 N", "found_GPS_long": "77.0212 W", "found_year": 2017, "p_institution": { "institution_code": "HWRD", "institution_name": "Howard University", "institution_logo": "https://phagesdb.org/media/institutions/howard_university_logo2.jpg", "institution_url": "http://www.howard.edu/", "institution_city": "Washington", "institution_state": "DC", "institution_country": "USA", "institution_latitude": "38.922905", "institution_longitude": "-77.01943" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArielleDownes_Plaque.jpeg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/ArielleDownes_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2017-09-18T07:14:03-04:00", "date_modified": "2020-09-17T14:08:19-04:00" }, { "phage_name": "Arielthelab", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Ariel is Mia's service dog in training and a labrador retriever.", "finder_name": "MHatfield, ARussell, OKelly, RRedmond", "found_city": "Amherst", "found_state": "MA", "found_country": "USA", "found_GPS_lat": "42.390052 N", "found_GPS_long": "72.524784 W", "found_year": 2023, "p_institution": { "institution_code": "UMAS", "institution_name": "University of Massachusetts Amherst", "institution_logo": "https://phagesdb.org/media/institutions/UMassAmherst.png", "institution_url": "", "institution_city": "Amherst", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "The sample was collected from a dirt patch in the grass near a high traffic sidewalk. The patch is located under a tree's leaves, but not at the base of the tree. The patch is possibly shaded during most of the day. The soil was damp when the sample was collected.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The average size of the plaque is between 1-1.5mm. The plaques are clear, the size of a pen tip, and circular with regular edges.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-10-24T09:27:14-04:00", "date_modified": "2024-02-25T15:28:26-05:00" }, { "phage_name": "Arienne", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Ayesha Vohra", "found_city": "Richmond", "found_state": "VA", "found_country": "USA", "found_GPS_lat": "37.604106 N", "found_GPS_long": "77.57785 W", "found_year": 2012, "p_institution": { "institution_code": "VACU", "institution_name": "Virginia Commonwealth University", "institution_logo": "https://phagesdb.org/media/institutions/VCU.jpg", "institution_url": "http://www.vcu.edu/", "institution_city": "Richmond", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "37.549255", "institution_longitude": "-77.45341" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "F", "temperate": true }, "psubcluster": { "subcluster": "F1" }, "morphotype": "SIPHO", "plaque_notes": "Round, tiny clear center (~1.5mm), big turbid/halo (~9mm)", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": { "short_name": "VCU", "facility_name": "Virginia Commonwealth University Nucleic Acids Research Facilities", "contact_person": "", "shipping_address": "", "facility_website": "http://www.narf.vcu.edu/" }, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arienne_Plaque.tif", "em_file": "https://phagesdb.org/media/emPics/Arienne_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arienne_Plaque_Thumbs.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Arienne_EMPic_Thumbs.jpg", "dnam_file": null, "date_added": "2012-11-19T14:48:01-05:00", "date_modified": "2017-09-12T10:27:31-04:00" }, { "phage_name": "Aries55", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Braylan Jackson", "found_city": "Rock Hill", "found_state": "SC", "found_country": "USA", "found_GPS_lat": "34.941704 N", "found_GPS_long": "81.031891 W", "found_year": 2018, "p_institution": { "institution_code": "WNTH", "institution_name": "Winthrop University", "institution_logo": "https://phagesdb.org/media/institutions/WinthropUniversity.jpg", "institution_url": "http://www.winthrop.edu/", "institution_city": "Rock Hill", "institution_state": "SC", "institution_country": "USA", "institution_latitude": "34.939523", "institution_longitude": "-81.03154" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "EE", "temperate": false }, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques on my bacterial lawns ranged from 2 millimeters to 4 mm in diameter. Mild turbidity in the plaques, grew very quickly.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2020-01-28", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 4574, "finishing_reactions": 0, "genome_length": 17452, "gcpercent": "68.7", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 9, "overhang_sequence": "CCCGCCCCA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 25, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Aries55_CompleteNotes.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Aries55_Minimal_Final_nGaBN9N.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Aries55_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Aries55_CoverSheet.pdf", "submitted_annotation_date": "2021-04-19T13:57:50-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Aries55.gbf", "qced_genbank_file_date": "2021-04-19T13:57:50-04:00", "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MZ005676", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aries55_Plaque.png", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/Aries55_Digest.jpg", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Aries55.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aries55_Plaque_Thumb_npNJnmk.png", "em_thumb_file": null, "dnam_file": null, "date_added": "2018-09-27T13:05:24-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Ariess", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "My zodiac sign is Aries and I happen to be a very big fan of astrology.", "finder_name": "Keidra Carter", "found_city": "Fairfax", "found_state": "VA", "found_country": "United States", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2021, "p_institution": { "institution_code": "GEMA", "institution_name": "George Mason University", "institution_logo": "https://phagesdb.org/media/institutions/GeorgeMason_YjNctcY.jpg", "institution_url": "https://www.gmu.edu/", "institution_city": "Fairfax", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "Found in the garden of Innovation lecture hall on the George Mason University campus in Fairfax.", "isolation_temperature": 22, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Lytic", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-05-04T11:15:37-04:00", "date_modified": "2021-10-15T14:03:20-04:00" }, { "phage_name": "Arietta", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Arietta was named after the student that studied her. The name means \"a little Aria\".", "finder_name": "Aria David", "found_city": "Cullowhee", "found_state": "NC", "found_country": "USA", "found_GPS_lat": "35.3125 N", "found_GPS_long": "83.1802 W", "found_year": 2018, "p_institution": { "institution_code": "WCAR", "institution_name": "Western Carolina University", "institution_logo": "https://phagesdb.org/media/institutions/westerncarolina.jpg", "institution_url": "http://www.wcu.edu/", "institution_city": "Cullowhee", "institution_state": "NC", "institution_country": "United States", "institution_latitude": "35.308879", "institution_longitude": "-83.18506" }, "enriched_sample": true, "discovery_notes": "Soil containing phage was collected from under the bridge that connects Natural Science and Stillwell. The area is shaded and cool. The soil is dark, cold, and moist.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Medium sized plaques with large halos. The average size of the plaques is 340nm.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arietta_Plaque.tif", "em_file": "https://phagesdb.org/media/emPics/Arietta_EMPic.TIF", "digest_file": "https://phagesdb.org/media/digestPics/Arietta_Digest.tif", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arietta_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Arietta_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2018-11-28T13:41:37-05:00", "date_modified": "2020-09-17T14:09:59-04:00" }, { "phage_name": "ArigunDD10", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name of the phage is kept by the students (B.Sc. Honours in Biomedical science) who worked and discovered the Mycobacteriophages from the soil samples collected by them. The first three letters of \"ArigunDD10\" are taken from the names of the students: Ari (Aridni), gun (gunjan)and the letters in uppercase are one letter abbreviation of the location: Dwarka, Delhi and '10'is for the number given to the phage from which the lysate is prepared.", "finder_name": "Aridni Shah&Gunjan Chauhan", "found_city": "New Delhi", "found_state": "", "found_country": "India", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2013, "p_institution": { "institution_code": "DEHL", "institution_name": "Acharya Narendra Dev College", "institution_logo": "https://phagesdb.org/media/institutions/logo_du_QpufriF.png", "institution_url": "http://www.du.ac.in/du/index.php?page=acharya-narendra-dev-college", "institution_city": "", "institution_state": "", "institution_country": "", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "Isolated from a soil sample procured from a place in west of Delhi called Dwarka. The protocol followed for isolation of the Mycobacteriophages was as described in the manual \"Phagehunting Teacher Workshop-2012. \r\n\r\nThe work was carried out in Dr.Urmi Bajpai's laboratary at department of Biomedical Science, Acharya Narendra Dev College, University of Delhi under ELITE fellowship undergraduate research program sponsored by the college to carry out the the PHAGE DISCOVERY Research Project (PDRP).", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "B", "temperate": false }, "psubcluster": { "subcluster": "B1" }, "morphotype": "SIPHO", "plaque_notes": "The plaque is round in shape, large in size (about 4 mm in diameter)with a diffused boundary.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": 107, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "KR029087.1", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArigunDD10_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/ArigunDD10_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/ArigunDD10_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/ArigunDD10_EMPic_Thumb.jpeg", "dnam_file": null, "date_added": "2013-10-08T10:30:08-04:00", "date_modified": "2021-09-24T10:06:42-04:00" }, { "phage_name": "ArigunHALO", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name of the phage is kept by the students who worked and discovered the Mycobacteriophages from the soil samples collected by them. The first three letters of \"ArigunHALO\" are taken from the names of the students: Ari (Aridni), gun (gunjan) and the letters in uppercase stands for ‘halo’ (found around the plaque).", "finder_name": "Aridni Shah&Gunjan Chauhan", "found_city": "", "found_state": "", "found_country": "", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2013, "p_institution": { "institution_code": "DEHL", "institution_name": "Acharya Narendra Dev College", "institution_logo": "https://phagesdb.org/media/institutions/logo_du_QpufriF.png", "institution_url": "http://www.du.ac.in/du/index.php?page=acharya-narendra-dev-college", "institution_city": "", "institution_state": "", "institution_country": "", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "Isolated from a soil sample procured from a place in west of Delhi called Dwarka. The protocol followed for isolation of the Mycobacteriophages was as described in the manual \"Phagehunting Teacher Workshop-2012\". \r\nThe work was carried out in Dr.Urmi Bajpai's laboratary at the department of Biomedical Science, Acharya Narendra Dev College, University of Delhi of Delhi under ELITE fellowship undergraduate research program sponsored by the college to carry out the the PHAGE DISCOVERY Research Project (PDRP).", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The shape of plaque is circular (about 1-2mm in diameter) with a halo around each one of them which is about 5 mm in diameter and looks like concentric circles.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArigunHALO_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/ArigunHALO_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/ArigunHALO_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/ArigunHALO_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2013-10-08T10:30:18-04:00", "date_modified": "2021-09-24T10:08:32-04:00" }, { "phage_name": "ArigunLND", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name of the phage is kept by the students who worked and discovered the Mycobacteriophages from the soil samples collected by them. The first three letters of \"ArigunLND\" are taken from the names of the students: Ari (Aridni), gun (gunjan)and the letters in uppercase are one letter abbreviation of the location: Laxmi Nagar, Delhi.", "finder_name": "Aridni Shah&Gunjan Chauhan", "found_city": "Delhi", "found_state": "", "found_country": "India", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2013, "p_institution": { "institution_code": "DEHL", "institution_name": "Acharya Narendra Dev College", "institution_logo": "https://phagesdb.org/media/institutions/logo_du_QpufriF.png", "institution_url": "http://www.du.ac.in/du/index.php?page=acharya-narendra-dev-college", "institution_city": "", "institution_state": "", "institution_country": "", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "Isolated from a soil sample procured from a place in east of Delhi called Laxmi Nagar. The protocol followed for isolation of the Mycobacteriophages was as described in the manual \"Phagehunting Teacher Workshop-2012. \r\n\r\nThe work was carried out in Dr.Urmi Bajpai's laboratary at the department of Biomedical Science, Acharya Narendra Dev College, University of Delhi of Delhi under ELITE fellowship undergraduate research program sponsored by the college to carry out the the PHAGE DISCOVERY Research Project (PDRP)..", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Small (about 2 mm in diameter)circular with sharp boundary. (picture enclosed)", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArigunLND_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/ArigunLND_Plaque_Thumb_nv1RvTp.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2013-10-08T10:30:01-04:00", "date_modified": "2021-09-24T10:09:17-04:00" }, { "phage_name": "Ariko", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Ariko is a lovely Japanese name.", "finder_name": "Zhenwen Yu", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "United States", "found_GPS_lat": "40.442222 N", "found_GPS_long": "79.9575 W", "found_year": 2019, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "Location: A small park adjacent to the parking near Litchfield Towers of the University of Pittsburgh.\r\nDate and time of collection: 09/10/2019 4:02pm-4:04pm\r\nThe weather is sunny, and the temperature is 31°C during the collection, so the soil sample is very dry, even it was hidden deep under the wood chip mulch near the Ficus religiosa. It was a bit hard to dig the soil sample because it was dry enough to be dust and rocks.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques are all small and clear. They have very round shapes and their diameters range from 1-2mm at different stages of developments.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Ariko_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Ariko_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Ariko_Digest.png", "vdigest_file": "https://phagesdb.org/media/vDigestPics/Ariko_VirtualDigest.png", "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Ariko_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Ariko_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2019-10-14T21:45:15-04:00", "date_modified": "2020-09-17T14:11:56-04:00" }, { "phage_name": "AriLen", "old_names": "AriLennox", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name came from the artist, who was born in Washington, DC.", "finder_name": "Omya Goodwin", "found_city": "Washington", "found_state": "DC", "found_country": "Unites States", "found_GPS_lat": "36.0 N", "found_GPS_long": "77.0 W", "found_year": 2019, "p_institution": { "institution_code": "HWRD", "institution_name": "Howard University", "institution_logo": "https://phagesdb.org/media/institutions/howard_university_logo2.jpg", "institution_url": "http://www.howard.edu/", "institution_city": "Washington", "institution_state": "DC", "institution_country": "USA", "institution_latitude": "38.922905", "institution_longitude": "-77.01943" }, "enriched_sample": true, "discovery_notes": "Found at the Health Science Library across the street from College Hall South and School of Communication, in the courtyard", "isolation_temperature": 26, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2019-11-15T07:16:01-05:00", "date_modified": "2020-09-17T14:11:02-04:00" }, { "phage_name": "AriMey", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name of this phage was created by turning the Names Meyli and Araceli into one singular name.", "finder_name": "Meyli Lorenzana and Araceli Rivera", "found_city": "Little Falls", "found_state": "NJ", "found_country": "United States", "found_GPS_lat": "40.869 N", "found_GPS_long": "74.2082 W", "found_year": 2023, "p_institution": { "institution_code": "MCSU", "institution_name": "Montclair State University", "institution_logo": "https://phagesdb.org/media/institutions/msu_.jpg", "institution_url": "http://www.montclair.edu/", "institution_city": "Montclair", "institution_state": "NJ", "institution_country": "USA", "institution_latitude": "40.861767", "institution_longitude": "-74.19856" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 26, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "sp. ", "strain_name": "ATCC 21022", "strain_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "21022", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-11-17T12:24:37-05:00", "date_modified": "2024-02-25T15:28:35-05:00" }, { "phage_name": "Arise", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "We chose “Arise” because it captures the excitement of seeing new colonies grow kinda like a tiny microbial uprising. It also gives a sense of resilience and positivity, as if the bacteria are constantly waking up and thriving in their environment.", "finder_name": "Ryan Poon, Stacey Laurente, Elgin Law, Emilie Xi", "found_city": "", "found_state": "", "found_country": "", "found_GPS_lat": "42.391785 N", "found_GPS_long": "72.528538 W", "found_year": 2025, "p_institution": { "institution_code": "UMAS", "institution_name": "University of Massachusetts Amherst", "institution_logo": "https://phagesdb.org/media/institutions/UMassAmherst.png", "institution_url": "", "institution_city": "Amherst", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "By the sidewalk where snow has melted and no grass is growing, slightly moist but not muddy.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Arise measures 1-5mm in diameter, is circular, and has a bullseye appearance", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2025-03-31T13:07:18-04:00", "date_modified": "2025-03-31T13:07:18-04:00" }, { "phage_name": "Arissanae", "old_names": "Noelle", "program": { "short_name": "PHIRE", "program_name": "Phage Hunters Integrating Research and Education", "program_blurb": "", "program_URL": "" }, "naming_notes": "Named after Pat Wright's grandchildren by Noel Rowe, the adopter of Arissanae. Pat Wright is the Founder and Director of Centre Val Bio Research Station in Ranomafana, Madagascar.", "finder_name": "Deborah Jacobs-Sera", "found_city": "Ranomafana", "found_state": "", "found_country": "Madagascar", "found_GPS_lat": "21.26089 S", "found_GPS_long": "47.454083 E", "found_year": 2018, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": true, "discovery_notes": "Enriched and isolated at room temperature. Soil sample was taken adjacent to a tomato plant at Thermal Hotel.", "isolation_temperature": 22, "growth_notes": "", "pcluster": { "cluster": "A", "temperate": true }, "psubcluster": { "subcluster": "A9" }, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2018-07-19", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 891, "finishing_reactions": 0, "genome_length": 53365, "gcpercent": "62.6", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "CGGTCGGTTA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 94, "num_tRNAs": 1, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Noelle_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Arissanae.gbf", "qced_genbank_file_date": "2019-01-28T17:21:34-05:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MK468591", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Noelle_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Noelle_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Arissanae.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/30Aclear_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Noelle_EMPic_Thumb.jpg", "dnam_file": "https://phagesdb.org/media/dnam/347_Arissanae.GBS_pkg", "date_added": "2018-07-23T15:08:45-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Aristophanes", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Plato, an ancient and perhaps the most influential western philosopher of all time, wrote about the meaning of love in his work Symposium. Symposium describes a banquet of notable men who give speeches about the god of love and desire and about love itself. Aristophanes describes that humans were actually made of two heads, four arms, and four legs where one day we upset Zeus and thus he divided us all in equal halves, condemning us to look for our counterpart. From this, Aristophanes argues that love is the desire to be whole -- again.", "finder_name": "Autumn Knight; Francis Lapid", "found_city": "Baltimore", "found_state": "MD", "found_country": "USA", "found_GPS_lat": "39.253797 N", "found_GPS_long": "76.710297 W", "found_year": 2022, "p_institution": { "institution_code": "UMBC", "institution_name": "University of Maryland, Baltimore County", "institution_logo": "https://phagesdb.org/media/institutions/UMBC_Logo.png", "institution_url": "http://www.umbc.edu/", "institution_city": "Baltimore", "institution_state": "MD", "institution_country": "USA", "institution_latitude": "39.256328", "institution_longitude": "-76.71072" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "1-2 mm in diameter after 24hours of incubation. Plaques were clear in the center with turbid edges.", "lysogeny_notes": "No mesa growth was appreciated on the spot lysogeny test plate after 14 days of incubation. From this, we conclude our phage likely has a virulent life cycle.", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Streptomyces", "species": "mirabilis", "strain_name": "NRRL B-2400", "strain_species": { "id": 71, "genus": "Streptomyces", "species_name": "mirabilis", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 71, "genus": "Streptomyces", "species_name": "mirabilis", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aristophanes_Plaque.heic", "em_file": "https://phagesdb.org/media/emPics/Aristophanes_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Aristophanes_Digest.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/S4_G2_Aristophanes_thumb.png", "dnam_file": null, "date_added": "2022-10-12T08:20:10-04:00", "date_modified": "2024-02-25T15:27:52-05:00" }, { "phage_name": "Aristotle", "old_names": "Phoebee", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name was randomly picked.", "finder_name": "Shirley Dong", "found_city": "Pittsburgh ", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2018, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "The sample was collected on a cloudy and rainy afternoon at 4:25 p.m. The soil was extremely moist and there were many bushes around.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques are all tiny and clear. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2019-01-26T09:28:18-05:00", "date_modified": "2020-09-17T14:10:37-04:00" }, { "phage_name": "Ariweezy", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Ariweezy is named because it is Ariba’s rap name. Lil Wayne is often referred to as “Lil Weezy,” so Ariba’s alternate ego is referred as “Ariweezy”.\r\n", "finder_name": "Ariba Islam and Victoria Matos", "found_city": "Old Westbury", "found_state": "NY", "found_country": "USA", "found_GPS_lat": "40.7648 N", "found_GPS_long": "73.9808 W", "found_year": 2018, "p_institution": { "institution_code": "SUOW", "institution_name": "SUNY Old Westbury", "institution_logo": "https://phagesdb.org/media/institutions/SUNYOldWestbury.png", "institution_url": "https://www.oldwestbury.edu/", "institution_city": "Old Westbury", "institution_state": "NY", "institution_country": "USA", "institution_latitude": "40.782786", "institution_longitude": "-73.57952" }, "enriched_sample": true, "discovery_notes": "Our positive plaque was picked from Bisma’s plate. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaques appear to be similar in size, but were extremely small. Our Titer was 4.8x10^6. Most were cloudy. The sizes are small and diameter and was extremely small that I couldn’t measure.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2018-12-06T09:07:12-05:00", "date_modified": "2020-09-17T14:10:27-04:00" }, { "phage_name": "Arizona", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Shannon Denny", "found_city": "Phoenix", "found_state": "AZ", "found_country": "USA", "found_GPS_lat": "33.486622 N", "found_GPS_long": "112.200691 W", "found_year": 2011, "p_institution": { "institution_code": "WSHS", "institution_name": "Washington State University", "institution_logo": "https://phagesdb.org/media/institutions/logo-washington-state.jpg", "institution_url": "http://www.wsu.edu/", "institution_city": "Pullman", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "46.732132", "institution_longitude": "-117.1544" }, "enriched_sample": true, "discovery_notes": "Very dry soil (looks like very fine dirt) from the surface of the ground at around 100° F. It was from my front yard in Arizona.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaque ranges from 1mm to 3mm, turbid, round with a tail.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arizona_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/Arizona_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arizona_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Arizona_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2011-11-02T10:35:22-04:00", "date_modified": "2017-09-12T10:21:46-04:00" }, { "phage_name": "ArizonaGT", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name came from the drink Arizona Green Tea", "finder_name": "Jaleeah Greene Reyes/Brennen Scheerer", "found_city": "Denton", "found_state": "TX", "found_country": "Denton", "found_GPS_lat": "33.207884 N", "found_GPS_long": "97.149145 W", "found_year": 2025, "p_institution": { "institution_code": "UNTD", "institution_name": "University of North Texas", "institution_logo": "https://phagesdb.org/media/institutions/UNT-01.jpg", "institution_url": "http://www.unt.edu/", "institution_city": "Denton", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "33.207825", "institution_longitude": "-97.15253" }, "enriched_sample": true, "discovery_notes": "The soil sample was collected at 2:16 pm on February 3rd, 2025, at (33.2155958, 97.1521053) in Denton, Texas. The temperature this morning was 80°F. The area the sample was dug from was near trees and under a bit of brush and was damp and warm.", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "BP", "temperate": null }, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaque was about 1 mm, and it was circular and clear", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2025-08-18", "seq_facility": { "short_name": "UNT", "facility_name": "University of North Texas", "contact_person": "Richard Hale/Lee Hughes", "shipping_address": "", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 132, "finishing_reactions": 0, "genome_length": 37566, "gcpercent": "71.3", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 58, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Streptomyces", "species": "sanglieri", "strain_name": "UNT16F27A", "strain_species": { "id": 73, "genus": "Streptomyces", "species_name": "sanglieri", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 73, "genus": "Streptomyces", "species_name": "sanglieri", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArizonaGT_Plaque.tif", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/ArizonaGT_Digest_a0xdatb.jpeg", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/ArizonaGT.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2025-03-17T21:53:53-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Arkadelphia", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Chapman Cooper and Noah Embrey", "found_city": "Arkadelphia", "found_state": "AR", "found_country": "United States", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2023, "p_institution": { "institution_code": "OUBU", "institution_name": "Ouachita Baptist University", "institution_logo": "https://phagesdb.org/media/institutions/ouachita-baptist-university.jpg", "institution_url": "http://www.obu.edu/", "institution_city": "Arkadelphia", "institution_state": "AR", "institution_country": "USA", "institution_latitude": "34.125830", "institution_longitude": "-93.05277" }, "enriched_sample": true, "discovery_notes": "Found it at the edge of a church parking lot.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaques are moderately turbid and generally around one to two millimeters in diameter. The plaques also have a tail/swish shape inside of them.", "lysogeny_notes": "It would appear to make a good amount of lysogens as the plaques are very foggy.", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "CAG3", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "Isoniazid-resistant mutant of G terrae 3612" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arkadelphia_Plaque_9QCurN4.jpg", "em_file": "https://phagesdb.org/media/emPics/Arkadelphia_EMPic.png", "digest_file": "https://phagesdb.org/media/digestPics/Arkadelphia_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arkadelphia_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Arkadelphia_EMpic_thumb.jpg", "dnam_file": null, "date_added": "2023-09-19T09:02:48-04:00", "date_modified": "2024-05-01T16:37:16-04:00" }, { "phage_name": "ArKay", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "It involved a pun with the initial of the last name of my partner and I’s. Her last name initial, “R” and my last name initial “K”, when combined came out as “Arkay” or \"R.K\". Also this word is similar to the word Archive.", "finder_name": "Ubaid Khan & Isha Raza", "found_city": "Kings Park", "found_state": "NY", "found_country": "USA", "found_GPS_lat": "40.884167 N", "found_GPS_long": "73.266111 W", "found_year": 2018, "p_institution": { "institution_code": "SUOW", "institution_name": "SUNY Old Westbury", "institution_logo": "https://phagesdb.org/media/institutions/SUNYOldWestbury.png", "institution_url": "https://www.oldwestbury.edu/", "institution_city": "Old Westbury", "institution_state": "NY", "institution_country": "USA", "institution_latitude": "40.782786", "institution_longitude": "-73.57952" }, "enriched_sample": true, "discovery_notes": "Sample was collected from the backyard of my house. The soil was relatively wet and it was filled with organic matter", "isolation_temperature": 20, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Irregular shaped plaques (hexagonal) with an approximate diameter of 2 mm and a titer of 7.0 X 10^9 PFU/mL. The DNA concentration was 29.75 ng/ul\r\n", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArKay_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/ArKay_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/ArKay_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/ArKay_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2018-11-19T10:51:57-05:00", "date_modified": "2020-09-17T14:10:27-04:00" }, { "phage_name": "Arker", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "We liked archer but decided Arker was cool too.", "finder_name": "Abigale Eash/Parker Weigel", "found_city": "Owings Mills", "found_state": "MD", "found_country": "United States", "found_GPS_lat": "39.42983 N", "found_GPS_long": "76.77403 W", "found_year": 2023, "p_institution": { "institution_code": "STEV", "institution_name": "Stevenson University", "institution_logo": "https://phagesdb.org/media/institutions/Stevenson_University_logo.png", "institution_url": "https://www.stevenson.edu/", "institution_city": "Owings Mills", "institution_state": "MD", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "It was just off the trailhead of the Owings Mills campus trail down by the river.", "isolation_temperature": 31, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arker_Plaque.jpeg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-11-17T11:53:15-05:00", "date_modified": "2024-02-25T15:28:31-05:00" }, { "phage_name": "Arlene", "old_names": "Biscut", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Brendan Newcomer, Bri Elliott", "found_city": "Manhattan", "found_state": "KS", "found_country": "United States", "found_GPS_lat": "39.18974 N", "found_GPS_long": "96.57103 W", "found_year": 2022, "p_institution": { "institution_code": "KSSU", "institution_name": "Kansas State University", "institution_logo": "https://phagesdb.org/media/institutions/kstate.jpg", "institution_url": "http://www.k-state.edu/", "institution_city": "Manhattan", "institution_state": "KS", "institution_country": "United States", "institution_latitude": "39.197485", "institution_longitude": "-96.58606" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 79, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "CAG3", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "Isoniazid-resistant mutant of G terrae 3612" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arlene_Plaque.JPG", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-11-29T09:26:40-05:00", "date_modified": "2024-02-25T15:28:03-05:00" }, { "phage_name": "Arlex5", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Arjan Baleswaran, Alex cielo", "found_city": "Pullman", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "46.7381 N", "found_GPS_long": "117.1661 E", "found_year": 2017, "p_institution": { "institution_code": "WSHS", "institution_name": "Washington State University", "institution_logo": "https://phagesdb.org/media/institutions/logo-washington-state.jpg", "institution_url": "http://www.wsu.edu/", "institution_city": "Pullman", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "46.732132", "institution_longitude": "-117.1544" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2017-04-04T17:53:54-04:00", "date_modified": "2020-09-17T14:08:53-04:00" }, { "phage_name": "Arley", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name for this phage came from the combination of the two people's initials who discovered this phage.", "finder_name": "Elaine Rickards and Lauren Anderson", "found_city": "Spokane", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "47.666667 N", "found_GPS_long": "117.402778 W", "found_year": 2017, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "Our phage was discovered at 22 degrees Celsius. Our phage also grows at 37 degrees Celsius with the same titer, but with different plaque morphology. At 37 degrees Celsius, the plaques are more cloudy and quite a bit smaller than the plaques grown at room temperature. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "This phage's plaque morphology at 22 degrees Celsius includes the creation of clear, round plaques with about 6mm diameters. When grown at 37 degrees Celsius, the plaques formed are much smaller, each about 1 mm in diameter, and have a cloudy ring around the outside of each plaque.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arley_Plaque.JPG", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arley_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2017-04-13T13:52:12-04:00", "date_modified": "2020-09-17T14:08:59-04:00" }, { "phage_name": "Arlington", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The meaning of Arlington is the name of the lake I grew up on.", "finder_name": "Zachary MacKenzie", "found_city": "Salem", "found_state": "NH", "found_country": "United States", "found_GPS_lat": "42.830068 N", "found_GPS_long": "71.223564 W", "found_year": 2021, "p_institution": { "institution_code": "UNHM", "institution_name": "University of New Hampshire at Manchester", "institution_logo": "https://phagesdb.org/media/institutions/unh_manchester.png", "institution_url": "", "institution_city": "Manchester", "institution_state": "NH", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "The soil was solid and cold, no motion seen.", "isolation_temperature": 26, "growth_notes": "", "pcluster": { "cluster": "FE", "temperate": false }, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaques are frosted in the center and fuzzy around the edges, the plaques are small in size around 2 mm in diameter.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/Arlington_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/5a_phage_em.png", "dnam_file": null, "date_added": "2021-06-29T13:48:08-04:00", "date_modified": "2022-03-16T11:01:54-04:00" }, { "phage_name": "Arlo", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named after my dog", "finder_name": "Brittany Stewart", "found_city": "Bluff Dale", "found_state": "TX", "found_country": "USA", "found_GPS_lat": "32.318889 N", "found_GPS_long": "98.020806 W", "found_year": 2017, "p_institution": { "institution_code": "TARL", "institution_name": "Tarleton State University", "institution_logo": "https://phagesdb.org/media/institutions/TarletonStateUniversity.png", "institution_url": "http://www.tarleton.edu", "institution_city": "Stephensville", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "32.216025", "institution_longitude": "-98.21594" }, "enriched_sample": false, "discovery_notes": "Found in a community vegetable garden in Bluff Dale, Texas. Isolated using direct isolation. ", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "A", "temperate": true }, "psubcluster": { "subcluster": "A1" }, "morphotype": "SIPHO", "plaque_notes": "Medium plaque size.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2017-12-10", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 1987, "finishing_reactions": 0, "genome_length": 52960, "gcpercent": "63.8", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "CGGATGGTAA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 96, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Arlo_CompleteNotes_LkLudvn.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Arlo_Minimal_Final_JSCEvid.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Arlo_Authors_Elj0vL3.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Arlo_CoverSheet_5lpkSfl.pdf", "submitted_annotation_date": "2018-06-28T10:54:46-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Arlo.flat.txt", "qced_genbank_file_date": "2018-06-28T10:54:46-04:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MH576971", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arlo_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Arlo_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Arlo_Digest.pptx", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Arlo.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arlo_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Arlo_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2017-11-17T21:43:32-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Armadillo", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Riley Draper", "found_city": "Twin Lake", "found_state": "MI", "found_country": "USA", "found_GPS_lat": "43.398504 N", "found_GPS_long": "86.154503 W", "found_year": 2015, "p_institution": { "institution_code": "HOPE", "institution_name": "Hope College", "institution_logo": "https://phagesdb.org/media/institutions/Hope.jpg", "institution_url": "http://www.hope.edu/", "institution_city": "Holland", "institution_state": "MI", "institution_country": "USA", "institution_latitude": "42.788980", "institution_longitude": "-86.10404" }, "enriched_sample": true, "discovery_notes": "Soil sample was taken from a rural compost pile. The temperature outside was 15.55 degrees Celsius, and the soil was moist. The sample was taken at a depth of roughly 5.0 cm below ground. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaques have a distinct bulls eye pattern, with a small clearing in the middle of an otherwise somewhat turbid plaque. The plaques have a diameter of about 4 millimeters. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Armadillo_Plaque.jpg", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/Armadillo_Digest.JPG", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Armadillo_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2015-11-06T11:30:58-05:00", "date_modified": "2020-09-17T14:06:19-04:00" }, { "phage_name": "ArmadiloMcFaji", "old_names": "", "program": { "short_name": "KBRIN", "program_name": "Kentucky Biomedical Infrastructure Network Small Genomes Discovery Program", "program_blurb": "", "program_URL": "" }, "naming_notes": "The tail reminded me of an armadillo tail. ", "finder_name": "Kyie Ernest and Katherine McManus", "found_city": "Richmond", "found_state": "KY", "found_country": "USA", "found_GPS_lat": "37.742 N", "found_GPS_long": "84.3035 W", "found_year": 2017, "p_institution": { "institution_code": "EKEN", "institution_name": "Eastern Kentucky University", "institution_logo": "https://phagesdb.org/media/institutions/EasternKentucky_uni_logo.png", "institution_url": "http://www.eku.edu/", "institution_city": "", "institution_state": "", "institution_country": "", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "n/a", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "MYO", "plaque_notes": "clear lytic", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArmadiloMcFaji_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/ArmadiloMcFaji_EMPic.TIF", "digest_file": "https://phagesdb.org/media/digestPics/ArmadiloMcFaji_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/ArmadiloMcFaji_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2017-05-05T10:21:58-04:00", "date_modified": "2020-09-17T14:08:18-04:00" }, { "phage_name": "Armando", "old_names": "Gordy", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name Armando is the middle name of the researcher who discovered the Armando bacteriophage.", "finder_name": "James Franke", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.445396 N", "found_GPS_long": "79.957995 W", "found_year": 2015, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": true, "discovery_notes": "Soil sample taken from the University of Pittsburgh campus, adjacent to the Chevron Science Center (also near Eberly Hall). Soil was extracted from warm, damp area with leaves present on the ground during weather that was overcast, around 75°F. The previous 48 hours had seen less sun and more clouds, highs in the upper 80s and lows in the mid-70s (°F). \r\n", "isolation_temperature": 75, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaques showed two distinct sizes. Larger plaques were on average 3-4mm in diameter, while smaller plaques were on average 1-2mm. The larger plaques were slightly turbid, with some haloing occurring throughout the plates. Smaller plaques showed clear and distinct definition and were evident on several platings of the Armando phage.", "lysogeny_notes": "The Armando phage exhibits both lytic and lysogenic qualities as demonstrated by the different plaque morphologies obtained through several plating trials. ", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2015-10-12T17:35:26-04:00", "date_modified": "2017-09-28T16:41:24-04:00" }, { "phage_name": "Armani", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Armani is my name, therefore I thought it would be appropriate for me to name the phage after myself. It is like my child.", "finder_name": "Armani Moore", "found_city": "Nyack", "found_state": "NY", "found_country": "United States of America", "found_GPS_lat": "41.088611 N", "found_GPS_long": "73.932222 W", "found_year": 2019, "p_institution": { "institution_code": "NYAK", "institution_name": "Alliance University (formerly Nyack College)", "institution_logo": "https://phagesdb.org/media/institutions/AllianceUniversity.png", "institution_url": "https://allianceu.edu/", "institution_city": "New York", "institution_state": "NY", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "Dirt sample was found at Nyack College at 1:24pm on September 30, 2019. Found in the same soil sample as Tara Jean-Charles' terrae phage. I adopted her second phage.", "isolation_temperature": 28, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "radiodurans", "strain_name": "NRRL B-24799", "strain_species": { "id": 83, "genus": "Microbacterium", "species_name": "radiodurans", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 83, "genus": "Microbacterium", "species_name": "radiodurans", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Armani_EMPic.TIF", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Armani_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2019-10-24T11:50:15-04:00", "date_modified": "2020-09-17T14:11:48-04:00" }, { "phage_name": "ArmaVirumque", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Emmaline Raven", "found_city": "Worcester", "found_state": "MA", "found_country": "USA", "found_GPS_lat": "42.268056 N", "found_GPS_long": "71.810833 W", "found_year": 2021, "p_institution": { "institution_code": "WOPI", "institution_name": "Worcester Polytechnic Institute", "institution_logo": "https://phagesdb.org/media/institutions/WPI.png", "institution_url": "http://www.wpi.edu/", "institution_city": "Worcester", "institution_state": "MA", "institution_country": "United States", "institution_latitude": "42.274947", "institution_longitude": "-71.80640" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArmaVirumque_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-10-04T11:11:43-04:00", "date_modified": "2021-10-11T12:08:33-04:00" }, { "phage_name": "ArMaWen", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Sean Coleman", "found_city": "Baltimore", "found_state": "MD", "found_country": "USA", "found_GPS_lat": "39.255283 N", "found_GPS_long": "76.707849 W", "found_year": 2018, "p_institution": { "institution_code": "UOZK", "institution_name": "University of the Ozarks", "institution_logo": "https://phagesdb.org/media/institutions/OzarksLogo.jpg", "institution_url": "https://ozarks.edu/", "institution_city": "Clarksville", "institution_state": "AR", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "Isolated using the Direct Isolation protocol, with incubation at 30C on PYCa media.", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "EK", "temperate": null }, "psubcluster": { "subcluster": "EK1" }, "morphotype": "PODO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2018-10-16", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 360, "finishing_reactions": 0, "genome_length": 53939, "gcpercent": "59.9", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 54, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/ArMaWen_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2018-12-16T19:45:24-05:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/ArMaWen.gbf", "qced_genbank_file_date": "2018-12-16T19:45:24-05:00", "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MK308638", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArMaWen_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/ArMaWen_EMPic.png", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/ArMaWen.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/ArMaWen_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/ArMaWen_EM_Pic_Thumb.jpg", "dnam_file": "https://phagesdb.org/media/dnam/ArMaWen.dnam5", "date_added": "2018-09-27T11:30:33-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Armin", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "\"Armin\" is one of my favorite characters from the popular anime, \"Attack on Titan.\" His demonstrated leadership and quick thinking throughout the show are why I like his character so much.", "finder_name": "Keilana Johnston", "found_city": "Spokane", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "47.66757 N", "found_GPS_long": "117.40489 W", "found_year": 2024, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "Found under a tree near Gonzaga University's Jepson Center in late August.", "isolation_temperature": 22, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "PODO", "plaque_notes": "The diameter of a plaque after one week of incubation is around 1.22mm. The edges of the plaque are turbid. The full plate titer was calculated to 1.3 x 10^10 plaque forming units per milliliter.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "NRRL B-2880", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Armin_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/Armin_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Armin_Digest.jpeg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Armin_Plaque_Thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/Armin_EMPic_Thumb.png", "dnam_file": null, "date_added": "2024-12-03T08:09:09-05:00", "date_modified": "2025-08-01T10:53:34-04:00" }, { "phage_name": "Arminius", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "It was named after a Roman soldier called Arminius. The story behind it is that Arminius was a soldier in the Roman army, even though he had German ideologies, and during one of the wars he destroyed his own army (kind of similar to what the phage does to a bacterium: it incorporates itself into the bacteria, and the destroys its host).", "finder_name": "Lilit Grigoryan", "found_city": "Providence", "found_state": "RI", "found_country": "USA", "found_GPS_lat": "41.827778 N", "found_GPS_long": "71.401667 W", "found_year": 2014, "p_institution": { "institution_code": "BRWN", "institution_name": "Brown University", "institution_logo": "https://phagesdb.org/media/institutions/brown_logo2.jpg", "institution_url": "http://www.brown.edu/", "institution_city": "Providence", "institution_state": "RI", "institution_country": "USA", "institution_latitude": "41.827013", "institution_longitude": "-71.40255" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "The plaque sizes were circle with diameters of about 2-3 mm. \r\nAlso, the edges of the plaques were cloudy, which indicates its possibility of being a temperate phage. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arminius_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Arminius_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Arminius_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arminius_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Arminius_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2014-12-04T09:11:02-05:00", "date_modified": "2020-09-17T14:05:51-04:00" }, { "phage_name": "Armintorix", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Kenneth Penn-Simpson", "found_city": "Owenton", "found_state": "KY", "found_country": "United States", "found_GPS_lat": "38.181953 N", "found_GPS_long": "84.890636 W", "found_year": 2019, "p_institution": { "institution_code": "WEKU", "institution_name": "Western Kentucky University", "institution_logo": "https://phagesdb.org/media/institutions/wkucuptallrb.jpg", "institution_url": "http://www.wku.edu/", "institution_city": "Bowling Green", "institution_state": "KY", "institution_country": "USA", "institution_latitude": "36.985737", "institution_longitude": "-86.45552" }, "enriched_sample": true, "discovery_notes": "I had discovered the phage in my grandfather's carwash. The site in the soil had been dug down into by 5 inches and had plant matter. The weather was 78 degrees farenheit with partial cloudiness and low winds.", "isolation_temperature": 25, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "The phage has a protein head with a tail but no spider-like legs.", "lysogeny_notes": "The plaques produced are clear and are around 2mm wide.", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Armintorix_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Armintorix_EMPic.TIF", "digest_file": "https://phagesdb.org/media/digestPics/Armintorix_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Armintorix_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Armintorix_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2019-10-31T06:12:16-04:00", "date_modified": "2020-09-17T14:11:07-04:00" }, { "phage_name": "Armstrong", "old_names": "", "program": { "short_name": "PHIRE", "program_name": "Phage Hunters Integrating Research and Education", "program_blurb": "", "program_URL": "" }, "naming_notes": "Named after Louis Armstrong", "finder_name": "Kerry Iles", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.444253 N", "found_GPS_long": "79.953239 W", "found_year": 2017, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "EB", "temperate": false }, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaques are clear and 2-6 mm in diameter with turbid halos.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2018-04-25", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 205, "finishing_reactions": 0, "genome_length": 39928, "gcpercent": "67.1", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "ACTCCCGGCA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 68, "num_tRNAs": 2, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Armstrong_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2018-09-01T22:11:03-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Armstrong.gbf", "qced_genbank_file_date": "2018-09-01T22:11:03-04:00", "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MH834596", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Armstrong_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Armstrong_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Armstrong.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Armstrong_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Armstrong_EMPic_Thumb.jpg", "dnam_file": "https://phagesdb.org/media/dnam/Armstrong.dnam5", "date_added": "2018-03-29T20:51:45-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Arna", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Allison Ruhl and Noah Apostol", "found_city": "Blaine", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "48.99198 N", "found_GPS_long": "122.55381 W", "found_year": 2021, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 25, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arna_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arna_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2021-12-03T14:08:41-05:00", "date_modified": "2025-09-12T13:57:38-04:00" }, { "phage_name": "Arnie", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "There was no significance with the name Arnie, rather it was decided based on a fun name.", "finder_name": "Delaney DeBauch", "found_city": "Kenosha", "found_state": "WI", "found_country": "United States", "found_GPS_lat": "42.62026 N", "found_GPS_long": "87.82169 W", "found_year": 2023, "p_institution": { "institution_code": "CRTH", "institution_name": "Carthage College", "institution_logo": "https://phagesdb.org/media/institutions/Carthage-vert-2c.png", "institution_url": "http://www.carthage.edu/", "institution_city": "Kenosha", "institution_state": "WI", "institution_country": "USA", "institution_latitude": "42.624596", "institution_longitude": "-87.81996" }, "enriched_sample": false, "discovery_notes": "Collected from a flower garden outside the Campbell student union at Carthage College. Taken from about an inch under the top soil. The soil was damp during collection.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The phage is around 0.5mm in diameter. It experiences lysogenic death, which causes it to appear cloudy instead of clear. The phage is circular and uniform in size. It typically takes around 4 days of incubation to appear.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arnie_Plaque.jpeg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-10-26T10:38:36-04:00", "date_modified": "2024-02-25T15:28:24-05:00" }, { "phage_name": "Arnold", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Cooper Brett", "found_city": "Harrisonburg", "found_state": "VA", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2014, "p_institution": { "institution_code": "JAMU", "institution_name": "James Madison University", "institution_logo": "https://phagesdb.org/media/institutions/james_madisonp.png", "institution_url": "http://www.jmu.edu/", "institution_city": "Harrisonburg", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "38.435340", "institution_longitude": "-78.86975" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2014-12-05T14:10:42-05:00", "date_modified": "2020-09-17T14:06:04-04:00" }, { "phage_name": "Aro9312", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The first three letters of my last name, the year I was born and the year my phage was found.", "finder_name": "Nikita Arora", "found_city": "Columbus", "found_state": "OH", "found_country": "USA", "found_GPS_lat": "39.99525 N", "found_GPS_long": "83.009584 W", "found_year": 2012, "p_institution": { "institution_code": "TOSU", "institution_name": "The Ohio State University", "institution_logo": "https://phagesdb.org/media/institutions/ohiostate_logo.jpg", "institution_url": "http://www.osu.edu/", "institution_city": "Columbus", "institution_state": "OH", "institution_country": "USA", "institution_latitude": "40.014457", "institution_longitude": "-83.03091" }, "enriched_sample": null, "discovery_notes": "Found in dry crackly mud, collected on a sunny, warm day near a parking meter by catfish biffs, around 4:00 p.m.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaques were very tiny and clear, approximately 0.5mm^2 in diameter.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aro9312_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Aro9312_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Aro9312_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aro9312_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Aro9312_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2012-11-29T12:15:25-05:00", "date_modified": "2020-07-09T19:35:33-04:00" }, { "phage_name": "ARod", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "We chose the name ARod because before our lab group met, we didn't know anything about each other. The only thing we found that we had in common was that we had all been fishing, and you need a fishing rod to fish. Hence the name ARod.", "finder_name": "Quinn Beisel", "found_city": "Amherst", "found_state": "MA", "found_country": "United States", "found_GPS_lat": "42.39178 N", "found_GPS_long": "72.52405 W", "found_year": 2024, "p_institution": { "institution_code": "UMAS", "institution_name": "University of Massachusetts Amherst", "institution_logo": "https://phagesdb.org/media/institutions/UMassAmherst.png", "institution_url": "", "institution_city": "Amherst", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "The soil was moderately moist and had a significant amount of plant growth within it. There was also a lot of sunlight in the area the soil was extracted.", "isolation_temperature": 24, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques were moderately clear, with round edges, and a diameter of 2mm.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ARod_Plaque.png", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-10-29T10:40:37-04:00", "date_modified": "2025-04-04T11:37:36-04:00" }, { "phage_name": "Arogya", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Arogya means being free of illness and in good health in Sanskrit.", "finder_name": "Krisha Patel", "found_city": "Davie", "found_state": "FL", "found_country": "United States", "found_GPS_lat": "26.07979 N", "found_GPS_long": "80.2415 W", "found_year": 2024, "p_institution": { "institution_code": "NOSE", "institution_name": "Nova Southeastern University", "institution_logo": "https://phagesdb.org/media/institutions/NSUFlorida-Primary-Stacked-Blue.jpg", "institution_url": "https://www.nova.edu/", "institution_city": "Fort Lauderdale", "institution_state": "FL", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "It was found outside the Shepard Broad Law Library on September 4, 2024. The soil was moist and full of organic material. The samples were collected from the surface of the ground about one inch in depth. The temperature was 80 degrees Fahrenheit, sunny, and breezy, and it was drizzling when I collected the samples.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaque was picked from the 10E-3 serial dilution. The plaques are most visible and isolated on the corners of the plates. The plaque was 0.1 cm.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "rubripertincta", "strain_name": "NRRL B-16540", "strain_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arogya_Plaque.HEIC", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-10-21T08:50:18-04:00", "date_modified": "2025-04-04T11:37:27-04:00" }, { "phage_name": "Aroostook", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Until I moved to Texas four years ago, I had been living in Maine my entire life. I still consider myself a \"Mainer\" rather than a \"Texan,\" and I always will. Because this place is very special and unique to me, I wanted to name my phage after it. Originally, I wanted to name my phage \"Island Falls,\" the town in which I grew up. However, to give my phage a simpler, one-word name, I chose to name it Aroostook, the county in which Island Falls is located.", "finder_name": "Lauren Rockwell", "found_city": "Longview ", "found_state": "TX", "found_country": "USA", "found_GPS_lat": "32.467045 N", "found_GPS_long": "94.724361 W", "found_year": 2015, "p_institution": { "institution_code": "LETO", "institution_name": "LeTourneau University", "institution_logo": "https://phagesdb.org/media/institutions/LeTourneau.png", "institution_url": "http://www.letu.edu/", "institution_city": "Longview", "institution_state": "TX", "institution_country": "United States", "institution_latitude": "32.466083", "institution_longitude": "-94.72640" }, "enriched_sample": null, "discovery_notes": "I collected my environmental sample on campus at LeTourneau University on 9/17/15 at about 8:20 AM. The specific location of where I retrieved my sample was at the base of a bush beside a parking lot in front of a residence hall. The weather was 73°F and sunny. The soil was slightly moist, partly because it was at the base of the plant and also because the ground had dew on it.", "isolation_temperature": 37, "growth_notes": "", "pcluster": { "cluster": "G", "temperate": true }, "psubcluster": { "subcluster": "G1" }, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2016-02-04", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 4385, "finishing_reactions": 0, "genome_length": 41903, "gcpercent": "66.6", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 11, "overhang_sequence": "CCCCATGGCAT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 63, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Aroostook_CompleteNotes.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Aroostook_Minimal_Final_cVTkHk1.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Aroostook_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Aroostook_CoverSheet.pdf", "submitted_annotation_date": "2017-08-02T16:56:07-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Aroostook_flat_U3CRyJe.txt", "qced_genbank_file_date": "2017-08-02T16:57:36-04:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MF668268", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Aroostook_EMPic.png", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Aroostook.fasta", "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Aroostook_EM_Thumbnail.png", "dnam_file": "https://phagesdb.org/media/dnam/Aroostook.dnam5", "date_added": "2015-11-29T22:19:36-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Arpeggio", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Julia Terhark", "found_city": "Springfield", "found_state": "MO", "found_country": "United States", "found_GPS_lat": "37.214805 N", "found_GPS_long": "93.227168 W", "found_year": 2024, "p_institution": { "institution_code": "EVGL", "institution_name": "Evangel University", "institution_logo": "https://phagesdb.org/media/institutions/evangel.png", "institution_url": "https://www.evangel.edu/", "institution_city": "Springfield", "institution_state": "MO", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-12-02T09:22:40-05:00", "date_modified": "2025-04-04T11:37:23-04:00" }, { "phage_name": "Arpie", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named after one of the sweetest TA we have met in the class. Dedicated to Arpan Das. ", "finder_name": "Madison Starling and Klaudya Jacobs", "found_city": "Boulder", "found_state": "CO", "found_country": "USA", "found_GPS_lat": "40.009 N", "found_GPS_long": "105.2692 W", "found_year": 2018, "p_institution": { "institution_code": "UCBO", "institution_name": "University of Colorado Boulder", "institution_logo": "https://phagesdb.org/media/institutions/Colorado.jpg", "institution_url": "http://www.colorado.edu/", "institution_city": "Boulder", "institution_state": "CO", "institution_country": "USA", "institution_latitude": "40.007799", "institution_longitude": "-105.2659" }, "enriched_sample": null, "discovery_notes": "Found outside of our lab building, Porter Bioscience building near the field ", "isolation_temperature": 28, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "about .2 cm diameter\r\ntemperate\r\nturbid edges", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arpie_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Arpie_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Arpie_Digest_dJk2SGd.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arpie_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Screen_Shot_2018-12-11_at_8.51.02_PM.png", "dnam_file": null, "date_added": "2018-11-15T22:30:30-05:00", "date_modified": "2020-09-17T14:10:39-04:00" }, { "phage_name": "Arrakis", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named for the titular planet in the Dune series.", "finder_name": "Joshua Walton", "found_city": "Alexandria", "found_state": "VA", "found_country": "United States", "found_GPS_lat": "38.835248 N", "found_GPS_long": "77.083216 W", "found_year": 2023, "p_institution": { "institution_code": "GEMA", "institution_name": "George Mason University", "institution_logo": "https://phagesdb.org/media/institutions/GeorgeMason_YjNctcY.jpg", "institution_url": "https://www.gmu.edu/", "institution_city": "Fairfax", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "Collected from the potting plant soil of a patio tomato garden box in late August.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-11-07T12:03:33-05:00", "date_modified": "2024-02-25T15:28:14-05:00" }, { "phage_name": "Array", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Our friend (Amy) helped us pick out the name", "finder_name": "Samantha Johnston & Evan Skaanes", "found_city": "Pullman", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "46.7291 N", "found_GPS_long": "117.1625 E", "found_year": 2017, "p_institution": { "institution_code": "WSHS", "institution_name": "Washington State University", "institution_logo": "https://phagesdb.org/media/institutions/logo-washington-state.jpg", "institution_url": "http://www.wsu.edu/", "institution_city": "Pullman", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "46.732132", "institution_longitude": "-117.1544" }, "enriched_sample": false, "discovery_notes": "Found by a sidewalk on campus, with lots of small plants. The soil was a little wet and kind of hard.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "When preforming experiments we would choose to use the larger morphology to continue with.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2017-12-07T23:52:00-05:00", "date_modified": "2020-09-17T14:08:54-04:00" }, { "phage_name": "Arri", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Madeline M Borsos", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.4406 N", "found_GPS_long": "79.9959 W", "found_year": 2017, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "Arri was discovered in the mulch bed beneath an apple tree at the South Oakland Community Orchard.", "isolation_temperature": 27, "growth_notes": "", "pcluster": { "cluster": "DC", "temperate": true }, "psubcluster": { "subcluster": "DC1" }, "morphotype": "SIPHO", "plaque_notes": "Small plaques (less than 1mm in diameter), plentiful.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2017-12-19", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 1792, "finishing_reactions": 0, "genome_length": 58650, "gcpercent": "67.8", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 94, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Arri_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2019-04-26T15:39:49-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Arri_flat.txt", "qced_genbank_file_date": "2019-04-26T15:39:49-04:00", "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MK864266", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arri_Plaque.jpg", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/Arri_Digest.jpg", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Arri.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arri_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2017-10-10T11:50:59-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Arrietty", "old_names": "", "program": null, "naming_notes": "The naming of this phage come from a film called \"Arrietty\"", "finder_name": "Safa Ghafoor, Justin Chen", "found_city": "Bethpage", "found_state": "NY", "found_country": "United States", "found_GPS_lat": "40.73087 N", "found_GPS_long": "73.48405 W", "found_year": 2024, "p_institution": { "institution_code": "NYIT", "institution_name": "New York Institute of Technology", "institution_logo": "https://phagesdb.org/media/institutions/newyorkIT.png", "institution_url": "", "institution_city": "Old Westbury", "institution_state": "NY", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Arrietty_EMPic.png", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-10-29T15:19:51-04:00", "date_modified": "2025-04-04T11:37:45-04:00" }, { "phage_name": "Arrow", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The phage produces plaques reminiscent of bullseyes and so we named it Arrow because BullsEye was taken.", "finder_name": "Bella Connolly and Victoria Sultan", "found_city": "Spokane", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "47.667 N", "found_GPS_long": "117.4015 W", "found_year": 2018, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "Was discovered on the back lawn of the Crosby building on Gonzaga's campus.", "isolation_temperature": 25, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arrow_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/Arrow_EMPic_bgUqHU5.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arrow_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Arrow_EMPic_Thumb.png", "dnam_file": null, "date_added": "2018-03-29T20:53:01-04:00", "date_modified": "2020-09-17T14:10:45-04:00" }, { "phage_name": "Arroyo", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name Arroyo was chosen because it is the Spanish word for a dry creek that seasonally fills and flows after sufficient rain.", "finder_name": "Virology Course", "found_city": "Choctaw", "found_state": "OK", "found_country": "USA", "found_GPS_lat": "35.448056 N", "found_GPS_long": "97.288889 W", "found_year": 2017, "p_institution": { "institution_code": "UCOK", "institution_name": "University of Central Oklahoma", "institution_logo": "https://phagesdb.org/media/institutions/UniversityofCentralOklahoma.JPG", "institution_url": "https://www.uco.edu/", "institution_city": "Edmond", "institution_state": "OK", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "Katie Chalifoux, Jessica Mejia, Carina Gutierrez and Hari Kotturi", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "EB", "temperate": false }, "psubcluster": null, "morphotype": "", "plaque_notes": "The virus forms clear plaques with cloudy halo. Plaques are around 4mm in diameter.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2018-09-27", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 1225, "finishing_reactions": 0, "genome_length": 42129, "gcpercent": "66.6", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "TCTCCCGGCA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 69, "num_tRNAs": 3, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Arroyo_CompleteNotes_8nO7IE9.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Arroyo_Minimal_Final_c4pIya5.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Arroyo_Authors_kLYzYiU.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Arroyo_CoverSheet_eOKZcDc.pdf", "submitted_annotation_date": "2019-05-13T11:40:30-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Arroyo_rev_vqH3kqB.gbf", "qced_genbank_file_date": "2019-07-15T12:26:10-04:00", "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MK937610", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arroyo_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Arroyo_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Arroyo_Digest.png", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Arroyo.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arroyo_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Arroyo_EMPic_Thumb.jpg", "dnam_file": "https://phagesdb.org/media/dnam/Arroyo_rev_maBteeN.dnam5", "date_added": "2017-09-28T12:31:16-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Arroz", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Aaron Beach", "found_city": "Corpus Christi", "found_state": "TX", "found_country": "USA", "found_GPS_lat": "27.7625 N", "found_GPS_long": "97.407222 W", "found_year": 2011, "p_institution": { "institution_code": "DLMR", "institution_name": "Del Mar College", "institution_logo": "https://phagesdb.org/media/institutions/DelMarLogo_.jpg", "institution_url": "http://www.delmar.edu/", "institution_city": "Corpus Christi", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "27.764369", "institution_longitude": "-97.40711" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arroz_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/Arroz_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Arroz_Digest.jpeg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arroz_Plaque_Thumb_z5efAVR.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Arroz_EMPic_Thumb.png", "dnam_file": null, "date_added": "2011-11-30T10:31:18-05:00", "date_modified": "2020-06-04T17:54:34-04:00" }, { "phage_name": "ArsaTree", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named by my partner, the soil sample was dug up near a tree outside of the lab building.", "finder_name": "John Alban, Christian Huilotl", "found_city": "Montclair", "found_state": "NJ", "found_country": "United States", "found_GPS_lat": "40.8666 N", "found_GPS_long": "74.1976 W", "found_year": 2023, "p_institution": { "institution_code": "MCSU", "institution_name": "Montclair State University", "institution_logo": "https://phagesdb.org/media/institutions/msu_.jpg", "institution_url": "http://www.montclair.edu/", "institution_city": "Montclair", "institution_state": "NJ", "institution_country": "USA", "institution_latitude": "40.861767", "institution_longitude": "-74.19856" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 26, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "sp. ", "strain_name": "ATCC 21022", "strain_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "21022", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-11-21T11:14:04-05:00", "date_modified": "2024-02-25T15:28:35-05:00" }, { "phage_name": "Arsenal", "old_names": "", "program": { "short_name": "PHIRE", "program_name": "Phage Hunters Integrating Research and Education", "program_blurb": "", "program_URL": "" }, "naming_notes": "I named the phage Arsenal, after my favorite soccer team. I have played soccer for 6/7 years, and always supported them.", "finder_name": "Finn Russell", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.425023 N", "found_GPS_long": "79.925745 W", "found_year": 2023, "p_institution": null, "enriched_sample": true, "discovery_notes": "I found the sample in a patch of soil. It was on Victory Way and Saline St. I dug six inches deep to find it.", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques look turbid and 2-3 millimeters in diameter each.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arsenal_Plaque.png", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/VictoryWay_thumbnail.png", "em_thumb_file": null, "dnam_file": null, "date_added": "2023-03-19T16:07:09-04:00", "date_modified": "2023-03-19T16:08:40-04:00" }, { "phage_name": "Arsene", "old_names": "Obi1", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named after the fictional gentleman thief Arsene Lupin, a character created by French writer Maurice Leblanc. Sometimes referred to as the \"French Sherlock Holmes\".", "finder_name": "Aaron Reyes", "found_city": "Ottawa", "found_state": "", "found_country": "Canada", "found_GPS_lat": "45.40186 N", "found_GPS_long": "75.64545 W", "found_year": 2023, "p_institution": { "institution_code": "UOTT", "institution_name": "University of Ottawa", "institution_logo": "https://phagesdb.org/media/institutions/uottawa.png", "institution_url": "", "institution_city": "Ottawa", "institution_state": "", "institution_country": "Canada", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "Found in flower bed containing daffodils near General Cancer Centre in Ottawa.", "isolation_temperature": 16, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Forms medium sized plaques.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arsene_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/Arsene_EMPic_e4POud4.png", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arsene_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Arsene_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2023-10-16T09:42:11-04:00", "date_modified": "2025-07-28T16:23:03-04:00" }, { "phage_name": "Arson", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Devon Baker, Alessandra Haywood", "found_city": "Havre de Grace", "found_state": "MD", "found_country": "United States of America", "found_GPS_lat": "39.55444 N", "found_GPS_long": "76.11792 W", "found_year": 2022, "p_institution": { "institution_code": "UMBC", "institution_name": "University of Maryland, Baltimore County", "institution_logo": "https://phagesdb.org/media/institutions/UMBC_Logo.png", "institution_url": "http://www.umbc.edu/", "institution_city": "Baltimore", "institution_state": "MD", "institution_country": "USA", "institution_latitude": "39.256328", "institution_longitude": "-76.71072" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": 27, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Streptomyces", "species": "mirabilis", "strain_name": "NRRL B-2400", "strain_species": { "id": 71, "genus": "Streptomyces", "species_name": "mirabilis", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 71, "genus": "Streptomyces", "species_name": "mirabilis", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arson_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Arson_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arson_Plaque-Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/S7_G10_Arson_Thumb.png", "dnam_file": null, "date_added": "2022-09-30T09:08:46-04:00", "date_modified": "2024-02-25T15:27:52-05:00" }, { "phage_name": "Artemis", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Beatrice Selen Senocak", "found_city": "Providence", "found_state": "RI", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2011, "p_institution": { "institution_code": "BRWN", "institution_name": "Brown University", "institution_logo": "https://phagesdb.org/media/institutions/brown_logo2.jpg", "institution_url": "http://www.brown.edu/", "institution_city": "Providence", "institution_state": "RI", "institution_country": "USA", "institution_latitude": "41.827013", "institution_longitude": "-71.40255" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2011-11-16T09:45:07-05:00", "date_modified": "2017-09-12T10:21:46-04:00" }, { "phage_name": "Artemis2UCLA", "old_names": "Artemis", "program": null, "naming_notes": "The discovery team initially named their phage Artemis, but this name was already taken by another group in the database. So we modified the name to Artemis2UCLA in winter 2013.", "finder_name": "H Omranipour, M Omranipour, S Peterson, J Roth", "found_city": "Reseda", "found_state": "CA", "found_country": "USA", "found_GPS_lat": "34.2011 N", "found_GPS_long": "118.5364 W", "found_year": 2011, "p_institution": { "institution_code": "UCLA", "institution_name": "University of California, Los Angeles", "institution_logo": "https://phagesdb.org/media/institutions/UCLA.jpg", "institution_url": "http://www.ucla.edu/", "institution_city": "Los Angeles", "institution_state": "CA", "institution_country": "United States", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "Phage isolation performed by Hedyeh Omranipour, Mojdeh Omranipour, Stephanie Peterson, and Joe Roth (spring 2011). DNA preparation performed by Krisanavane Reddi. Assembly performed by William Villella (UCLA) and confirmed by Charles Bowman (University of Pittsburgh). Preliminary genome annotation performed by Antoine Koehl, Stephanie Yee, Kathleen Tan, and Jonathan Yang (winter 2013). Curation of annotation results performed by Shannon Cooper (spring 2013, UCLA) and Debbie Jacobs-Sera (University of Pittsburgh, summer 2013). ", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "A", "temperate": true }, "psubcluster": { "subcluster": "A6" }, "morphotype": "SIPHO", "plaque_notes": "Large plaques with clear center and turbid edges; average plaque size not reported", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2013-05-14", "seq_facility": { "short_name": "UCLA", "facility_name": "The UCLA Genotyping and Sequencing Core", "contact_person": "", "shipping_address": "", "facility_website": "http://www.genoseq.ucla.edu/" }, "seq_method": { "short_name": "454", "method_name": "454" }, "coverage": 675, "finishing_reactions": 0, "genome_length": 52344, "gcpercent": "61.4", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "CGGTCGGTTA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": true, "is_phamerated": true, "num_ORFs": 102, "num_tRNAs": 3, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "KF560333", "refseq_accession": "NC_022977", "plaque_file": "https://phagesdb.org/media/plaquePics/Artemis2UCLA_Plaque.tif", "em_file": "https://phagesdb.org/media/emPics/Artemis2UCLA_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Artemis2UCLA.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Artemis2UCLA_Plaque_Thumbs.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Artemis2UCLA_EMPic_Thumbs.jpg", "dnam_file": "https://phagesdb.org/media/dnam/Artemis2UCLA_FP.dnam5", "date_added": "2012-03-12T08:46:20-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Artemis9", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Anna Gorske", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "United States", "found_GPS_lat": "40.4458 N", "found_GPS_long": "79.9631 W", "found_year": 2019, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Artemis9_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/Artemis9_EMPic.png", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Artemis9_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Artemis9_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2019-10-02T07:10:27-04:00", "date_modified": "2020-09-17T14:11:56-04:00" }, { "phage_name": "ArtemisFowl", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "This phage is named after Artemis Fowl, the protagonist of a book series after the same name. The author's name is Eoin, which is similar to the unconventional spelling of Eian's name. Artemis Fowl has a very analytical mind which would be perfect for science.", "finder_name": "Juliana Zacher and Eian Vargas", "found_city": "Oxford", "found_state": "OH", "found_country": "United States", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2019, "p_institution": { "institution_code": "MUOH", "institution_name": "Miami University", "institution_logo": "https://phagesdb.org/media/institutions/miami-university-logo.gif", "institution_url": "http://www.miami.muohio.edu/", "institution_city": "Oxford", "institution_state": "OH", "institution_country": "USA", "institution_latitude": "39.510802", "institution_longitude": "-84.73085" }, "enriched_sample": true, "discovery_notes": "The soil was collected on September 3, 2019 in Dogwood Grove on the Miami University Oxford campus. It was collected from a small clearing about 1 cm below the surface, and the soil was sandy, loose, and light in color. Sparse weeds were growing in the clearing area.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Plagues are small and turgid. The phage is likely lysogenic because of the cloudy appearance of the plaques.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2019-10-24T12:12:07-04:00", "date_modified": "2020-09-17T14:11:32-04:00" }, { "phage_name": "Artemisia", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Erin Henley", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.4444 N", "found_GPS_long": "79.9583 E", "found_year": 2017, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Artemisia_Plaque.JPG", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Artemisia_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2017-03-15T11:52:38-04:00", "date_modified": "2020-09-17T14:08:29-04:00" }, { "phage_name": "Arthan", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Ethan Sievers and Arnav Kotla", "found_city": "Boulder", "found_state": "CO", "found_country": "USA", "found_GPS_lat": "40.005828 N", "found_GPS_long": "105.292506 W", "found_year": 2024, "p_institution": { "institution_code": "UCBO", "institution_name": "University of Colorado Boulder", "institution_logo": "https://phagesdb.org/media/institutions/Colorado.jpg", "institution_url": "http://www.colorado.edu/", "institution_city": "Boulder", "institution_state": "CO", "institution_country": "USA", "institution_latitude": "40.007799", "institution_longitude": "-105.2659" }, "enriched_sample": true, "discovery_notes": "Peak of mountain in Boulder Colorado, cold and muddy terrain.Outside temperature at time of collection: 2.7 degrees celsius. Date collected: 1/22/24 Time Collected: 1801", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Large, cloudy temperate phage", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arthan_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Arthan_EMPic.TIF", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-04-29T10:33:27-04:00", "date_modified": "2025-04-04T11:37:41-04:00" }, { "phage_name": "ArtherBaxter", "old_names": "A.Baxter", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name of the infection used for our culture was Arthrobacter which A.Baxters name comes from. ", "finder_name": "Madison Honer", "found_city": "Philadelphia", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2015, "p_institution": { "institution_code": "STJO", "institution_name": "Saint Joseph's University", "institution_logo": "https://phagesdb.org/media/institutions/SJU.jpg", "institution_url": "http://www.sju.edu/", "institution_city": "Philadelphia", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "39.995544", "institution_longitude": "-75.23895" }, "enriched_sample": null, "discovery_notes": "Found in front of a tree, surrounded by sidewalk in a high traffic area of a Freshman Residence Hall at Saint Josephs University. Dry, fine soil", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "AP", "temperate": false }, "psubcluster": null, "morphotype": "", "plaque_notes": "Small, 1.25mm in diameter, isolated, plaques are evenly distributed throughout. Depth of plaque and transparency slightly vary. Consistent size throughout and takes approximately 51,800 plaques to completely lyse one plate.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "sp. ", "strain_name": "ATCC 21022", "strain_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "21022", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArtherBaxter_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/ArtherBaxter_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/ArtherBaxter_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/ArtherBaxter_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/ArtherBaxter_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2015-12-02T09:51:42-05:00", "date_modified": "2020-09-17T14:06:46-04:00" }, { "phage_name": "ArthroBear", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "It was named for a nickname of mine as a child. ", "finder_name": "Meghan Garanich", "found_city": "Freeland", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "41.02 N", "found_GPS_long": "75.9 W", "found_year": 2013, "p_institution": { "institution_code": "BUCK", "institution_name": "Bucknell University", "institution_logo": "https://phagesdb.org/media/institutions/Bucknell.jpg", "institution_url": "http://www.bucknell.edu/", "institution_city": "Lewisburg", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.955364", "institution_longitude": "-76.88495" }, "enriched_sample": null, "discovery_notes": "None", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Clear, lytic life style. Large plaque being 3.0mm", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "sp. ", "strain_name": "ATCC 21022", "strain_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "21022", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2013-12-05T21:17:31-05:00", "date_modified": "2013-12-05T21:17:31-05:00" }, { "phage_name": "ArthroPeanut", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Jillian Korn", "found_city": "Lewisburg", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2013, "p_institution": { "institution_code": "BUCK", "institution_name": "Bucknell University", "institution_logo": "https://phagesdb.org/media/institutions/Bucknell.jpg", "institution_url": "http://www.bucknell.edu/", "institution_city": "Lewisburg", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.955364", "institution_longitude": "-76.88495" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "sp. ", "strain_name": "ATCC 21022", "strain_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "21022", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2013-10-25T10:30:21-04:00", "date_modified": "2013-10-25T10:30:21-04:00" }, { "phage_name": "ArthroTrooper", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Christopher J. Schwake", "found_city": "Lewisburg", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2013, "p_institution": { "institution_code": "BUCK", "institution_name": "Bucknell University", "institution_logo": "https://phagesdb.org/media/institutions/Bucknell.jpg", "institution_url": "http://www.bucknell.edu/", "institution_city": "Lewisburg", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.955364", "institution_longitude": "-76.88495" }, "enriched_sample": true, "discovery_notes": "Soil was isolated from a flower bed adjacent to a walkway. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaques range in size from 1 -5 mm\r\n\r\nPlaques are clear, not cloudy", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "sp. ", "strain_name": "ATCC 21022", "strain_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "21022", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Trooper_EMPic.tiff", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/ArthroTrooper_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2013-10-25T10:30:28-04:00", "date_modified": "2020-05-29T13:53:22-04:00" }, { "phage_name": "Arthur", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The phage is named after the lake that it was found in and we loved the TV show as children. ", "finder_name": "Meg Costella and Eleanor Hammond", "found_city": "Spokane ", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "47.66 N", "found_GPS_long": "117.4 W", "found_year": 2014, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": false, "discovery_notes": "Found in Lake Arthur on the Gonzaga campus in Spokane, Washington. The outside temperature was -2.22 degrees celsius.\r\n\r\ntail length: 348nm \r\ntotal length: 413nm\r\n(size units corrected by A. Braley)", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "2mm in diameter, lytic, titer from 2/27/14: 8.2x10^9", "lysogeny_notes": "lytic", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arthur_Plaque.webloc", "em_file": "https://phagesdb.org/media/emPics/Arthur_EMPic.tiff", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Arthur_EMPic_Thumb.png", "dnam_file": null, "date_added": "2014-04-08T11:34:52-04:00", "date_modified": "2020-09-17T14:06:07-04:00" }, { "phage_name": "Arthur1941", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "My grandpa's name plus his birth year.", "finder_name": "Sarah Haimowitz", "found_city": "Williamsburg", "found_state": "VA", "found_country": "United States", "found_GPS_lat": "37.2696 N", "found_GPS_long": "76.7144 W", "found_year": 2024, "p_institution": { "institution_code": "CWAM", "institution_name": "College of William & Mary", "institution_logo": "https://phagesdb.org/media/institutions/william_and_mary-01.jpg", "institution_url": "http://www.wm.edu/", "institution_city": "Williamsburg", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "37.272588", "institution_longitude": "-76.71691" }, "enriched_sample": null, "discovery_notes": "dry soil sample that was sitting indoors over 9 months", "isolation_temperature": 20, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Very small plaques, there maybe were the tiniest bullseyes.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Arthur1941_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Arthur1941_Digest.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Arthur1941_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2024-11-07T11:49:56-05:00", "date_modified": "2025-09-24T13:42:39-04:00" }, { "phage_name": "ArthurDiablo", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "This is the name that my professor had his name changed to in autocorrect and I thought that was a enigmatic and cool name.", "finder_name": "Dong Yoon Han", "found_city": "Riverside", "found_state": "CA", "found_country": "USA", "found_GPS_lat": "33.912028 N", "found_GPS_long": "117.502021 W", "found_year": 2017, "p_institution": { "institution_code": "LASI", "institution_name": "La Sierra University", "institution_logo": "https://phagesdb.org/media/institutions/LaSierra_Deah4d4.jpg", "institution_url": "https://lasierra.edu/", "institution_city": "Riverside", "institution_state": "CA", "institution_country": "USA", "institution_latitude": "33.912017", "institution_longitude": "-117.4995" }, "enriched_sample": true, "discovery_notes": "There were lost of mulch and bark, recently rained, 8 degrees Celsius, dug around 7 centimeters deep\r\n1/23/17 14:42 ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Small and opaque\r\nNot hazy at the edges\r\n", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArthurDiablo_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/ArthurDiablo_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2017-03-14T13:24:27-04:00", "date_modified": "2020-09-17T14:07:52-04:00" }, { "phage_name": "ArthurGU", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Mahealani Benitez, Avery Schroeder", "found_city": "Spokane", "found_state": "WA", "found_country": "United States of America", "found_GPS_lat": "47.666027 N", "found_GPS_long": "117.404235 W", "found_year": 2023, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 22, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "ATCC 607", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "607", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArthurGU_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/ArthurGU_EMPic.png", "digest_file": "https://phagesdb.org/media/digestPics/ArthurGU_Digest.png", "vdigest_file": "https://phagesdb.org/media/vDigestPics/ArthurGU_VirtualDigest.png", "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Screen_Shot_2023-11-30_at_11.39.24_AM.png", "em_thumb_file": "https://phagesdb.org/media/emPics/Screen_Shot_2023-11-30_at_11.41.56_AM.png", "dnam_file": null, "date_added": "2023-11-17T12:32:57-05:00", "date_modified": "2024-10-08T10:20:05-04:00" }, { "phage_name": "ArthuroReed", "old_names": "ArthoReed", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Raashmi Krishnasamy", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.294014 N", "found_GPS_long": "80.116187 W", "found_year": 2015, "p_institution": { "institution_code": "CAMU", "institution_name": "Carnegie Mellon University", "institution_logo": "https://phagesdb.org/media/institutions/Burgundy_CMU_JPG_Logo.jpg", "institution_url": "http://www.cmu.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.442741", "institution_longitude": "-79.94255" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "sp. ", "strain_name": "ATCC 21022", "strain_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "21022", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/ArthoReed_EMPic.tiff", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/ArthoReed_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2015-11-19T16:12:16-05:00", "date_modified": "2020-09-17T14:06:15-04:00" }, { "phage_name": "ArthursBeavers", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named it after the beavers that reside in Lake Arthur.", "finder_name": "Ava Fink and Audriana Alfaro", "found_city": "Spokane", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "47.66656 N", "found_GPS_long": "117.40488 W", "found_year": 2022, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "Soil collected on the banks of Lake Arthur at Gonzaga University. At the time of collection the soil was wet as it was raining.", "isolation_temperature": 22, "growth_notes": "", "pcluster": { "cluster": "EE", "temperate": false }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Medium size plaques with halo. Centers are clear.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArthursBeavers_Plaque.jpeg", "em_file": "https://phagesdb.org/media/emPics/ArthursBeavers_EMPic.jpeg", "digest_file": "https://phagesdb.org/media/digestPics/ArthursBeavers_Digest.jpeg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/ArthursBeavers_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2022-04-21T12:57:52-04:00", "date_modified": "2025-09-12T13:59:38-04:00" }, { "phage_name": "ArthurtheSnake", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "A small garter snake was swimming near the edge of the bank where the sample was collected. Sierra caught and gently handled the snake. Our phage was named ArthurtheSnake due to this experience upon collecting the sample along with the name of the lake it was extracted from.", "finder_name": "Sierra Salter, Sydney Jensen", "found_city": "Spokane", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "47.664887 N", "found_GPS_long": "117.403236 W", "found_year": 2021, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "The soil sample was collected from the southern point of Lake Arthur on Gonzaga University's campus. The sample was extracted by scooping up the topsoil from the shallows near the bank of the lake. The sample was composed of lake water, decaying plant medium, lakebed soil, and silt.", "isolation_temperature": 23, "growth_notes": "", "pcluster": { "cluster": "EE", "temperate": false }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "ArthurtheSnake forms small to medium-sized plaques that are approximately 3 mm in diameter. The plaques possess clear centers and slightly turbid edges. The plaques are all uniformly round and symmetrical.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArthurtheSnake_Plaque_CDoXLJS.jpg", "em_file": "https://phagesdb.org/media/emPics/ArthurtheSnake_EMPic_GzoZmjP.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/ArthurtheSnake_Plaque_Thumb.jpg.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/ArthurtheSnake_EMPic_Thumb.ext.jpg", "dnam_file": null, "date_added": "2021-12-08T11:14:03-05:00", "date_modified": "2022-03-16T11:02:40-04:00" }, { "phage_name": "Arti", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "It's my dog's name, short for Artemis.", "finder_name": "Emily Tolbert", "found_city": "Wamego", "found_state": "KS", "found_country": "United States", "found_GPS_lat": "39.244623 N", "found_GPS_long": "96.317539 W", "found_year": 2021, "p_institution": { "institution_code": "KSSU", "institution_name": "Kansas State University", "institution_logo": "https://phagesdb.org/media/institutions/kstate.jpg", "institution_url": "http://www.k-state.edu/", "institution_city": "Manhattan", "institution_state": "KS", "institution_country": "United States", "institution_latitude": "39.197485", "institution_longitude": "-96.58606" }, "enriched_sample": true, "discovery_notes": "found 1.5 inches below soil surface near diseased, broken tree.", "isolation_temperature": 25, "growth_notes": "", "pcluster": { "cluster": "CR", "temperate": false }, "psubcluster": { "subcluster": "CR2" }, "morphotype": "SIPHO", "plaque_notes": "Round/Circle shape, fuzzy edge", "lysogeny_notes": "Lytic", "seq_finished": true, "date_finished": "2022-01-18", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 1111, "finishing_reactions": 0, "genome_length": 66539, "gcpercent": "66.0", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "CGCCGCGTAC", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 90, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Arti_CompleteNotes.xlsx", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Arti_Minimal_Final_hUOt10O.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Arti_Authors_I9k0FIy.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Arti_CoverSheet_eVmdTV4.docx", "submitted_annotation_date": "2023-08-02T13:51:52-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Arti_flat.txt", "qced_genbank_file_date": "2023-08-02T13:51:52-04:00", "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "CAG3", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "Isoniazid-resistant mutant of G terrae 3612" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "OR434020", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arti_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Arti_EMPic.jpeg", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Arti.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-10-29T14:38:05-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Artichoke", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Isabella Morrison", "found_city": "Emmitsburg", "found_state": "MD", "found_country": "United States", "found_GPS_lat": "39.68282 N", "found_GPS_long": "77.35284 W", "found_year": 2022, "p_institution": { "institution_code": "MMYU", "institution_name": "Mount St. Mary’s University", "institution_logo": "https://phagesdb.org/media/institutions/msmu-logo.png", "institution_url": "https://msmary.edu/", "institution_city": "Emmitsburg", "institution_state": "MD", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "A soil sample was collected in September from the Mount St. Mary's University campus. The sample was collected behind Bradley Hall, up the hill in the creek. The sample was very moist and \r\ndark. The air temperature was 75°F. Phage were isolated by enrichment culturing at 25°C.", "isolation_temperature": 25, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-01-12T11:58:46-05:00", "date_modified": "2024-10-08T10:20:09-04:00" }, { "phage_name": "Articuno", "old_names": "", "program": { "short_name": "KBRIN", "program_name": "Kentucky Biomedical Infrastructure Network Small Genomes Discovery Program", "program_blurb": "", "program_URL": "" }, "naming_notes": "", "finder_name": "Nash Roderick", "found_city": "Bowling Green", "found_state": "KY", "found_country": "USA", "found_GPS_lat": "36.9884 N", "found_GPS_long": "86.4524 W", "found_year": 2017, "p_institution": { "institution_code": "WEKU", "institution_name": "Western Kentucky University", "institution_logo": "https://phagesdb.org/media/institutions/wkucuptallrb.jpg", "institution_url": "http://www.wku.edu/", "institution_city": "Bowling Green", "institution_state": "KY", "institution_country": "USA", "institution_latitude": "36.985737", "institution_longitude": "-86.45552" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 82, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "1.0-2.0mm bullseye plaques\r\n24 to 48 hour incubation periods at 37C", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2017-12-12T00:18:35-05:00", "date_modified": "2020-09-17T14:08:16-04:00" }, { "phage_name": "ArtieJr", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Amanda Salazar", "found_city": "Denton", "found_state": "TX", "found_country": "USA", "found_GPS_lat": "33.212903 N", "found_GPS_long": "97.145858 W", "found_year": 2011, "p_institution": { "institution_code": "UNTD", "institution_name": "University of North Texas", "institution_logo": "https://phagesdb.org/media/institutions/UNT-01.jpg", "institution_url": "http://www.unt.edu/", "institution_city": "Denton", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "33.207825", "institution_longitude": "-97.15253" }, "enriched_sample": true, "discovery_notes": "ArtieJr was found on the UNT campus in front of the Art Building. It was about 90 degrees outside at 12:23 p.m. The soil was sandy and dry. Found by organic matter. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "ArtieJr has three different sizes 0.1, 0.2, and 0.4, but most of them were a 0.2. The plaques are clear with a faint halo. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArtieJr_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/ArtieJr_EMPic.png", "digest_file": "https://phagesdb.org/media/digestPics/ArtieJr_Digest.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/ArtieJr_Plaque_Thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/ArtieJr_EMPic_Thumb.png", "dnam_file": null, "date_added": "2011-10-26T11:03:54-04:00", "date_modified": "2020-08-07T10:54:18-04:00" }, { "phage_name": "Artiphact", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The phage name Artiphact is a play on the word \"Artifact.\"", "finder_name": "Pranav Arora, Neil Patel", "found_city": "Philadelphia", "found_state": "PA", "found_country": "United States of America", "found_GPS_lat": "39.958046 N", "found_GPS_long": "75.189666 W", "found_year": 2024, "p_institution": { "institution_code": "DRXL", "institution_name": "Drexel University", "institution_logo": "https://phagesdb.org/media/institutions/logo-drexel.jpg", "institution_url": "http://drexel.edu/", "institution_city": "Philadelphia", "institution_state": "PA", "institution_country": "United States", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "EF", "temperate": false }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2024-12-26", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 6482, "finishing_reactions": 0, "genome_length": 56697, "gcpercent": "63.8", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 81, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Artiphact_Plaque.jpeg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Artiphact.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Artiphact_Plaque_vgNL9qP.jpeg", "em_thumb_file": null, "dnam_file": null, "date_added": "2024-11-21T10:56:04-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Artis", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Patrick Prosper Jr", "found_city": "Washington D.C.", "found_state": "DC", "found_country": "USA", "found_GPS_lat": "38.923522 N", "found_GPS_long": "77.018873 W", "found_year": 2018, "p_institution": { "institution_code": "HWRD", "institution_name": "Howard University", "institution_logo": "https://phagesdb.org/media/institutions/howard_university_logo2.jpg", "institution_url": "http://www.howard.edu/", "institution_city": "Washington", "institution_state": "DC", "institution_country": "USA", "institution_latitude": "38.922905", "institution_longitude": "-77.01943" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Artis_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Artis_EMPic.png", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Artis_Plaque_Thumb_TraoGvY.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Artis_EMPic_Thumb.png", "dnam_file": null, "date_added": "2018-09-20T14:41:11-04:00", "date_modified": "2025-10-01T16:26:21-04:00" }, { "phage_name": "Artist", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Jaime Snape", "found_city": "Bronx", "found_state": "NY", "found_country": "United states of America", "found_GPS_lat": "73.853038 N", "found_GPS_long": "40.897487 W", "found_year": 2019, "p_institution": { "institution_code": "DCBL", "institution_name": "Dominican University New York", "institution_logo": "https://phagesdb.org/media/institutions/CV_DU_stacked_2022.png", "institution_url": "https://www.duny.edu/", "institution_city": "Orangeburg", "institution_state": "NY", "institution_country": "USA", "institution_latitude": "41.039643", "institution_longitude": "-73.94976" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2019-11-07T13:11:52-05:00", "date_modified": "2021-01-28T11:04:02-05:00" }, { "phage_name": "Artorias", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "This pahge is named after one of the bosses from Darksouls. Darksouls is one of my favorite games to play and Artoias is one of my favorite bosses to fight.", "finder_name": "Clay Simpson", "found_city": "Kirkwood", "found_state": "MO", "found_country": "United States", "found_GPS_lat": "38.56818 N", "found_GPS_long": "90.42132 W", "found_year": 2022, "p_institution": { "institution_code": "STLC", "institution_name": "St. Louis Community College", "institution_logo": "https://phagesdb.org/media/institutions/StLouisCommunityCollege.png", "institution_url": "https://www.stlcc.edu/", "institution_city": "St. Louis", "institution_state": "MO", "institution_country": "USA", "institution_latitude": "38.629046", "institution_longitude": "-90.27866" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 25, "growth_notes": "", "pcluster": { "cluster": "DJ", "temperate": false }, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2023-02-20", "seq_facility": { "short_name": "NCSTATE", "facility_name": "NC State Genomic Sciences Laboratory", "contact_person": "Jenn Schaff", "shipping_address": "", "facility_website": "http://research.ncsu.edu/gsl/" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 4659, "finishing_reactions": 0, "genome_length": 59847, "gcpercent": "51.5", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 9, "overhang_sequence": "CGCCGCTCT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 92, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Artorias_CompleteNotes_kT7jiTR.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Artorias_Minimal_Final_78korW4.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Artorias_Authors_EK5LnyM.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Artorias_CoverSheet_9FRJW3G.pdf", "submitted_annotation_date": "2023-06-23T07:36:37-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Artorias_flat.txt", "qced_genbank_file_date": "2023-06-23T07:35:31-04:00", "isolation_host": { "genus": "Gordonia", "species": "rubripertincta", "strain_name": "NRRL B-16540", "strain_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "OR195047", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Artorias_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Artorias_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Artorias.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Artorias_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Artorias_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2022-11-14T09:11:22-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Artpop", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "This phage is named after Artpop, Lady Gaga's fourth studio album. It was listened to on repeat during the trek to the Philadelphia Museum of Art and the collection of the environmental sample. The album's critical reception following the success of Gaga's The Fame, The Fame Monster, and Born This Way albums' astronomical successes meant that the performance artistry of Artpop went severely underappreciated. Little monsters rise up; Justice for Artpop.", "finder_name": "Christopher Masiello and Aneeka Phadnis", "found_city": "Philadelphia", "found_state": "PA", "found_country": "United States", "found_GPS_lat": "39.965002 N", "found_GPS_long": "75.182643 W", "found_year": 2022, "p_institution": { "institution_code": "DRXL", "institution_name": "Drexel University", "institution_logo": "https://phagesdb.org/media/institutions/logo-drexel.jpg", "institution_url": "http://drexel.edu/", "institution_city": "Philadelphia", "institution_state": "PA", "institution_country": "United States", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "This sample was collected from a wet section of soil next to a sidewalk. It was located about 200 feet from the Schuylkill \r\nriverbank and watered by runoff.", "isolation_temperature": 24, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaques are roughly 2 millimeters in diameter and very round with defined edges and smooth texturing.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Artpop_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-10-24T08:13:50-04:00", "date_modified": "2024-02-25T15:28:05-05:00" }, { "phage_name": "Artu", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Christopher Apuzzo", "found_city": "", "found_state": "MD", "found_country": "United States", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2025, "p_institution": { "institution_code": "ALGY", "institution_name": "Allegany College of Maryland", "institution_logo": "https://phagesdb.org/media/institutions/allegany2.jpg", "institution_url": "", "institution_city": "Cumberland", "institution_state": "MD", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2025-10-30T12:16:09-04:00", "date_modified": "2025-10-30T12:16:09-04:00" }, { "phage_name": "Arturo", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Duncan Oliphant", "found_city": "Hampden-Sydney", "found_state": "VA", "found_country": "USA", "found_GPS_lat": "37.230244 N", "found_GPS_long": "78.459618 W", "found_year": 2011, "p_institution": { "institution_code": "HMSD", "institution_name": "Hampden-Sydney College", "institution_logo": "https://phagesdb.org/media/institutions/hsc_seal.jpg", "institution_url": "http://www.hsc.edu/", "institution_city": "Hampden-Sydney", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "37.241291", "institution_longitude": "-78.46095" }, "enriched_sample": true, "discovery_notes": "The soil sample was taken four paces off the back steps of my apartment complex called Sagebrook. It was 66 degrees outside and the soil was taken from about 3 inches underneath the top. The surrounding area was wooded areas with many pine trees around.", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "A", "temperate": true }, "psubcluster": { "subcluster": "A4" }, "morphotype": "SIPHO", "plaque_notes": "The plaque is 4 mm in diameter and has an area of 12.56 mm squared.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2012-01-24", "seq_facility": null, "seq_method": null, "coverage": 340, "finishing_reactions": null, "genome_length": 51500, "gcpercent": "64.1", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "CGGCCGGTAA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": true, "is_phamerated": true, "num_ORFs": 86, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": true, "paper_published_in": { "title": "Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity", "abstract": "The bacteriophage population is large, dynamic, ancient, and genetically diverse. Limited genomic information shows that phage genomes are mosaic, and the genetic architecture of phage populations remains ill-defined. To understand the population structure of phages infecting a single host strain, we isolated, sequenced, and compared 627 phages of Mycobacterium smegmatis. Their genetic diversity is considerable, and there are 28 distinct genomic types (clusters) with related nucleotide sequences. However, amino acid sequence comparisons show pervasive genomic mosaicism, and quantification of inter-cluster and intra-cluster relatedness reveals a continuum of genetic diversity, albeit with uneven representation of different phages. Furthermore, rarefaction analysis shows that the mycobacteriophage population is not closed, and there is a constant influx of genes from other sources. Phage isolation and analysis was performed by a large consortium of academic institutions, illustrating the substantial benefits of a disseminated, structured program involving large numbers of freshman undergraduates in scientific discovery. ", "full_author_list": "Pope WH, Bowman CA, Russell DA, Jacobs-Sera D, Asai DJ, Cresawn SG, Jacobs WR, Hendrix RW, Lawrence JG, Hatfull GF; Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science; Phage Hunters Integrating Research and Education; Mycobacterial Genetics Course", "short_author_list": "Pope, Bowman, Russell, et al", "article_url": "http://elifesciences.org/content/4/e06416", "journal": "eLIFE", "journal_volume": "4", "journal_issue": "", "journal_pages": "", "pub_year": "2015", "pubmed_id": "25919952" }, "in_genbank": true, "genbank_accession": "JX307702", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Arturo_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Arturo.fasta", "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Arturo_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2011-10-27T06:37:05-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "ArTwo", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "An extension of the name R2, since this phage was adopted from Rebecca for cultivation by Allison Castaneda and thus was the second phage coming from a single plate.", "finder_name": "Rebecca Petersen", "found_city": "Blacksburg", "found_state": "VA", "found_country": "USA", "found_GPS_lat": "37.225833 N", "found_GPS_long": "80.424167 W", "found_year": 2015, "p_institution": { "institution_code": "VTEC", "institution_name": "Virginia Tech", "institution_logo": "https://phagesdb.org/media/institutions/VirginiaTech.png", "institution_url": "http://www.vt.edu/", "institution_city": "Blacksburg", "institution_state": "VA", "institution_country": "United States", "institution_latitude": "37.228453", "institution_longitude": "-80.42347" }, "enriched_sample": true, "discovery_notes": "170 Drillfield Drive, Price Hall, in moist soil next to the building.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Plaques are numerous at 1:100 and of small-to-medium size", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArTwo_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/ArTwo_EMPic.png", "digest_file": "https://phagesdb.org/media/digestPics/ArTwo_Digest.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/ArTwo_Plaque_Thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/ArTwo_EMPic_Thumb.png", "dnam_file": null, "date_added": "2015-11-09T10:08:42-05:00", "date_modified": "2020-09-17T14:06:24-04:00" }, { "phage_name": "Arty", "old_names": "Philliss", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Shannon Watson and Cj Clarke", "found_city": "Philadelphia", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "39.9526 N", "found_GPS_long": "75.2129 W", "found_year": 2017, "p_institution": { "institution_code": "USPH", "institution_name": "University of the Sciences (now St. Joseph's Univ)", "institution_logo": "https://phagesdb.org/media/institutions/USciences.png", "institution_url": "https://www.sju.edu/", "institution_city": "Philadelphia", "institution_state": "PA", "institution_country": "United States", "institution_latitude": "39.947118", "institution_longitude": "-75.20724" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arty_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Arty_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arty_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Arty_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2017-11-12T16:53:53-05:00", "date_modified": "2020-09-17T14:07:59-04:00" }, { "phage_name": "Aruba", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "It was named after where it was found.", "finder_name": "Vassie Ware and Catherine Mageeney", "found_city": "", "found_state": "", "found_country": "Aruba", "found_GPS_lat": "12.5 N", "found_GPS_long": "69.9667 W", "found_year": 2014, "p_institution": { "institution_code": "LEHI", "institution_name": "Lehigh University", "institution_logo": "https://phagesdb.org/media/institutions/LeHigh.jpg", "institution_url": "http://www.lehigh.edu/", "institution_city": "Bethlehem", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.607157", "institution_longitude": "-75.37829" }, "enriched_sample": true, "discovery_notes": "This was a sand sample from a beach in Aruba", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "The plaques are 3mm bullseye plaques that appear in 24 hours. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. 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Frozen soil is hard to get and very chunky.", "isolation_temperature": 22, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Small clear plaques measuring about 3mm.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arugula_Plaque_XHLtFeF.JPG", "em_file": "https://phagesdb.org/media/emPics/Arugula_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/thumbnailPHAGE_YAPgiWX.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/thumnailplaque.jpg", "dnam_file": null, "date_added": "2024-03-11T10:27:33-04:00", "date_modified": "2025-08-01T10:53:34-04:00" }, { "phage_name": "ArV1", "old_names": "", "program": null, "naming_notes": "", "finder_name": "Simoliunas et al", "found_city": "Vilnius", "found_state": "", "found_country": "Lithuania", "found_GPS_lat": "54.687424 N", "found_GPS_long": "25.280118 E", "found_year": 2014, "p_institution": null, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "AR", "temperate": false }, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2014-10-08", "seq_facility": null, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": null, "finishing_reactions": null, "genome_length": 71200, "gcpercent": "61.6", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 101, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "sp. 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", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "KM879463", "refseq_accession": "NC_026606", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/ArV1.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2015-05-19T11:15:20-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "ArV2", "old_names": "", "program": null, "naming_notes": "", "finder_name": "Simoliunas", "found_city": "Vilnius", "found_state": "", "found_country": "Lithuania", "found_GPS_lat": "54.839573 N", "found_GPS_long": "25.369245 E", "found_year": 2014, "p_institution": null, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "Singleton", "temperate": null }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2014-10-31", "seq_facility": null, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": null, "finishing_reactions": null, "genome_length": 37372, "gcpercent": "62.7", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 9, "overhang_sequence": "CCTCCGGCA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 68, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "sp. ", "strain_name": "68b", "strain_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "KF692088", "refseq_accession": "NC_022972", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/ArV2.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2015-05-18T16:55:30-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Arva", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Emma Boudreaux and Amy Hardy", "found_city": "Orono", "found_state": "ME", "found_country": "United States", "found_GPS_lat": "44.915628 N", "found_GPS_long": "68.69072 W", "found_year": 2021, "p_institution": { "institution_code": "UMHC", "institution_name": "University of Maine, Honors College", "institution_logo": "https://phagesdb.org/media/institutions/crest-umaine-honors.jpg", "institution_url": "http://www.honors.umaine.edu/", "institution_city": "Orono", "institution_state": "ME", "institution_country": "USA", "institution_latitude": "44.897979", "institution_longitude": "-68.66874" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "CAG3", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "Isoniazid-resistant mutant of G terrae 3612" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arva_Plaque.jpg", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/Arva_Digest.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/IMG_20211207_133640.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Copy_of_Arva_001_1_1.jpg", "dnam_file": null, "date_added": "2021-10-11T15:24:14-04:00", "date_modified": "2022-03-16T11:02:29-04:00" }, { "phage_name": "Arvin", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name of this phage is after me, Arvin Sequeira.", "finder_name": "Arvin Sequeira", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.444293 N", "found_GPS_long": "79.956425 W", "found_year": 2019, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "I discovered the phage outside of the Wellness Center next to Mark A. Nordernberg Hall. It was underneath a tree on a sunny morning day with little moisture in the soil. There was lots of foliage around the soil sample and there was also a lot of mulch.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The phage has medium-sized plaques after being incubated. They are clear plaques, not turbid.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arvin_Plaque_lJqwfIS.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arvin_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2019-10-11T14:10:03-04:00", "date_modified": "2020-09-17T14:11:56-04:00" }, { "phage_name": "Arvo", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Arvo in Australian means afternoon. I went to take my dog to the dog park and thought this is a good area to pick some soil. Once I picked the soil I went back to the lab and started to isolate my phage and was successful. So as I was thinking of a name I wanted to pay tribute to the wonderful afternoon I had with my best friend dexter (dog).", "finder_name": "Claudia Lizarraga", "found_city": "Port St. Lucie", "found_state": "FL", "found_country": "United States", "found_GPS_lat": "27.286389 N", "found_GPS_long": "80.308056 W", "found_year": 2019, "p_institution": { "institution_code": "IRSC", "institution_name": "Indian River State College", "institution_logo": "https://phagesdb.org/media/institutions/logo_irsc2.png", "institution_url": "http://www.irsc.edu/", "institution_city": "Fort Pierce", "institution_state": "FL", "institution_country": "USA", "institution_latitude": "27.423570", "institution_longitude": "-80.35789" }, "enriched_sample": true, "discovery_notes": "Soil was picked from Lyngate Dog Park in Port St. Lucie, FL. Soil was picked in the afternoon around 6:30pm, it was very humid. At the time it was 83° F. The soil picked was around some trees and it was dark and moist.", "isolation_temperature": 28, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaques were fuzzy and clear in the middle. The majority of the plaques were big and a couple of small ones.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arvo_Plaque.jpg", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/Arvo_Digest.PNG", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arvo_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2019-11-06T15:42:20-05:00", "date_modified": "2020-09-17T14:10:59-04:00" }, { "phage_name": "ARVoroninDirt", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "My initials", "finder_name": "Andrew Voronin", "found_city": "Shrewsbury", "found_state": "MA", "found_country": "United States", "found_GPS_lat": "42.30087 N", "found_GPS_long": "71.689771 W", "found_year": 2022, "p_institution": { "institution_code": "WOPI", "institution_name": "Worcester Polytechnic Institute", "institution_logo": "https://phagesdb.org/media/institutions/WPI.png", "institution_url": "http://www.wpi.edu/", "institution_city": "Worcester", "institution_state": "MA", "institution_country": "United States", "institution_latitude": "42.274947", "institution_longitude": "-71.80640" }, "enriched_sample": true, "discovery_notes": "The dirst was collected from my front yard under mulch and was initially very dry. The collection depth was 3 inches", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaque mostly of uniform size, there may be 1-3 different sized plaques", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-10-10T10:32:14-04:00", "date_modified": "2022-10-10T10:32:14-04:00" }, { "phage_name": "Aryas", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "We came up with the name Aryas because it’s half of Aryelle and half of Yasmin.", "finder_name": "Aryelle Smith and Yasmin Evans", "found_city": "Radford ", "found_state": "VA", "found_country": "USA", "found_GPS_lat": "37.1435 N", "found_GPS_long": "80.5465 W", "found_year": 2018, "p_institution": { "institution_code": "RADF", "institution_name": "Radford University", "institution_logo": "https://phagesdb.org/media/institutions/RADF.png", "institution_url": "https://www.radford.edu/", "institution_city": "Radford", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "The soil sample was taken near a wetland in Radford University along the tree edge. Near the location their was a water drain and an animal hole. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The original plaque we picked was well isolated and about 1.5mm. The plaque was determined to be a turban plaque. Throughout the serial dilution process our plaques have varied to be anywhere from 1mm to 3mm.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": { "short_name": "UPitt GPCL", "facility_name": "University of Pittsburgh Genomics and Proteomics Core Laboratories", "contact_person": "", "shipping_address": "", "facility_website": "http://www.genetics.pitt.edu/" }, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aryas_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/Aryas_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aryas_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Aryas_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2018-09-23T20:28:12-04:00", "date_modified": "2020-09-17T14:09:37-04:00" }, { "phage_name": "Arzan", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The plaque size is small and circular like Millet. Millet is called \"Arzan\" in Persian.", "finder_name": "Arvin Zaker", "found_city": "Ottawa, Ontario", "found_state": "", "found_country": "Canada", "found_GPS_lat": "45.399335 N", "found_GPS_long": "75.705799 W", "found_year": 2021, "p_institution": { "institution_code": "UOTT", "institution_name": "University of Ottawa", "institution_logo": "https://phagesdb.org/media/institutions/uottawa.png", "institution_url": "", "institution_city": "Ottawa", "institution_state": "", "institution_country": "Canada", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "The sample was taken from compost soil from the garden surrounding the Natural Resources Canada building in Ottawa, Ontario.", "isolation_temperature": 19, "growth_notes": "", "pcluster": { "cluster": "FI", "temperate": null }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "The plaque is small in size. It is circular and clear. The phage may be mainly lytic", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2022-01-12", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 1180, "finishing_reactions": 0, "genome_length": 58710, "gcpercent": "47.6", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 9, "overhang_sequence": "CGCGGCCCT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 97, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "NRRL B-2880", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Arzan_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Arzan_EMPic_Bp5CUgZ.png", "digest_file": "https://phagesdb.org/media/digestPics/Arzan_Digest_VJrnnDl.jpg", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Arzan.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Arzan_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Arzan_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2021-10-27T12:41:28-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "ArzE", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "We named our phage after musician Ezra Koenig, the lead singer of the band Vampire Weekend. His twitter handle is @arzE so that's what we decided to name our phage.", "finder_name": "Erin Brown and Sierra Barnett", "found_city": "Denton", "found_state": "TX", "found_country": "USA", "found_GPS_lat": "33.212158 N", "found_GPS_long": "97.147258 W", "found_year": 2014, "p_institution": { "institution_code": "UNTD", "institution_name": "University of North Texas", "institution_logo": "https://phagesdb.org/media/institutions/UNT-01.jpg", "institution_url": "http://www.unt.edu/", "institution_city": "Denton", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "33.207825", "institution_longitude": "-97.15253" }, "enriched_sample": true, "discovery_notes": "My soil sample was taken on September 1st 2014 at 7:30pm.n The temperature was about 85 degrees", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Our plaques are all clear, not cloudy. They are very circular and tend to be the same size which is 1mm.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Streptomyces", "species": "griseus", "strain_name": "ATCC 10137", "strain_species": { "id": 4, "genus": "Streptomyces", "species_name": "griseus", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "10137", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 4, "genus": "Streptomyces", "species_name": "griseus", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArzE_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/ArzE_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2014-10-28T17:21:11-04:00", "date_modified": "2020-09-17T14:07:20-04:00" }, { "phage_name": "ArzetLebnen", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "ArzetLebnen is the Arabic name for the Lebanese cedar tree. It represents slow growth at first, similar to my phage. However, it develops into a strong and resilient tree.", "finder_name": "Aya Zeineddine", "found_city": "Ottawa", "found_state": "", "found_country": "Canada", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2025, "p_institution": { "institution_code": "UOTT", "institution_name": "University of Ottawa", "institution_logo": "https://phagesdb.org/media/institutions/uottawa.png", "institution_url": "", "institution_city": "Ottawa", "institution_state": "", "institution_country": "Canada", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "The soil sample was collected from\r\na shaded region of a plant bed under a shrub. The soil was slightly moist and very compacted. The ambient temperature when the sample was collected was 16°C.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques that ArzetLebnen forms are very small have a small and are slightly turbid.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ArzetLebnen_Plaque_hU3QY4J.pdf", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2025-10-22T13:06:11-04:00", "date_modified": "2025-10-22T13:06:11-04:00" }, { "phage_name": "Asa16", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I wanted the name of my bacteriophage to be significant, so I decided to name it \"Asa16.\" \"Asa\" has a meaning in multiple languages. A few of the languages are Hebrew, where it means healer; Japanese, where it means morning (symbolic for new beginnings); and Persian, where it means powerful and beautiful. \"16\" in the name represents the age I was when I collected the bacteriophage.", "finder_name": "Alia Abdulla", "found_city": "New Haven", "found_state": "CT", "found_country": "United States", "found_GPS_lat": "41.3347 N", "found_GPS_long": "72.9421 W", "found_year": 2020, "p_institution": { "institution_code": "SCSU", "institution_name": "Southern Connecticut State University", "institution_logo": "https://phagesdb.org/media/institutions/SCSUlogo.jpg", "institution_url": "http://www.southernct.edu/", "institution_city": "New Haven", "institution_state": "CT", "institution_country": "USA", "institution_latitude": "41.332498", "institution_longitude": "-72.94454" }, "enriched_sample": true, "discovery_notes": "There was a rainstorm a few days before the soil collection happened. On the day of collection, it was sunny, however, sunlight did not shine on the collection area. When the soil was taken, the outside temperature was 17.8 degrees Celsius. Also, the site was next to a trail, which looked as if it was hardly used. At the collection site, 20 millimeters were dug into the ground with a spatula, and 15 milliliters of the soil was taken. The soil was damp and was surrounded by decomposing leaves and sticks. The collection happened around 9:04 AM on August 31, 2020. This was the second soil sample collected that day.", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "AZ", "temperate": true }, "psubcluster": { "subcluster": "AZ1" }, "morphotype": "", "plaque_notes": "Medium plaques with an average diameter of 4.74 mm. The center of each plaque is clear with a turbid ring surrounding it.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2021-01-07", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 2348, "finishing_reactions": 0, "genome_length": 43601, "gcpercent": "66.6", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 11, "overhang_sequence": "CGAAGGGGCAT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 70, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Asa16_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2021-07-28T11:42:18-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Asa16_flat.txt", "qced_genbank_file_date": "2021-07-28T11:42:18-04:00", "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "NRRL B-2880", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MZ681506", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asa16_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Asa16_EMPic.png", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Asa16.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Asa16_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2020-11-04T09:57:49-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "AsaBoo", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Aphra Murray", "found_city": "Gettysburg", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "39.834444 N", "found_GPS_long": "77.235833 W", "found_year": 2014, "p_institution": { "institution_code": "GTTY", "institution_name": "Gettysburg College", "institution_logo": "https://phagesdb.org/media/institutions/Gettysburg_College.png", "institution_url": "http://www.gettysburg.edu/", "institution_city": "Gettysburg", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "39.836144", "institution_longitude": "-77.23780" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2014-11-17T15:56:19-05:00", "date_modified": "2020-09-17T14:06:04-04:00" }, { "phage_name": "Asada", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "From the iconic vine in which the dude just wants to order a taco and the delivery dude's all like \"Asada\"", "finder_name": "Cari Otto, Bianca Dibbern", "found_city": "Boulder", "found_state": "CO", "found_country": "USA", "found_GPS_lat": "40.006667 N", "found_GPS_long": "105.266389 W", "found_year": 2019, "p_institution": { "institution_code": "UCBO", "institution_name": "University of Colorado Boulder", "institution_logo": "https://phagesdb.org/media/institutions/Colorado.jpg", "institution_url": "http://www.colorado.edu/", "institution_city": "Boulder", "institution_state": "CO", "institution_country": "USA", "institution_latitude": "40.007799", "institution_longitude": "-105.2659" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": -2, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Turbid plaques, less than 1mm in diameter", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": { "short_name": "UPitt GPCL", "facility_name": "University of Pittsburgh Genomics and Proteomics Core Laboratories", "contact_person": "", "shipping_address": "", "facility_website": "http://www.genetics.pitt.edu/" }, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asada_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/Asada_EMPic.png", "digest_file": "https://phagesdb.org/media/digestPics/Asada_Digest_Gfw1SBD.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Asada_Plaque_Thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/Asada_EMPic_Thumb.png", "dnam_file": null, "date_added": "2019-04-25T16:36:41-04:00", "date_modified": "2021-01-28T11:04:23-05:00" }, { "phage_name": "Asap3", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Asap is the first initials of all the group members' last names. 3 is the assigned lab group number.", "finder_name": "L. Alford, S. Alford, N. Spodek, S. Pizette", "found_city": "Amherst", "found_state": "MA", "found_country": "United States", "found_GPS_lat": "42.38386 N", "found_GPS_long": "72.53124 W", "found_year": 2025, "p_institution": { "institution_code": "UMAS", "institution_name": "University of Massachusetts Amherst", "institution_logo": "https://phagesdb.org/media/institutions/UMassAmherst.png", "institution_url": "", "institution_city": "Amherst", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "This sample was collected from a very dry, rocky area surrounded by snow. Near dorm halls, James and Emerson Hall.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaque sizes ranged from around 1 mm to 3 mm. Plaques had a bullseye, regular edges, and were circular.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2025-03-31T12:50:49-04:00", "date_modified": "2025-03-31T12:50:49-04:00" }, { "phage_name": "Asapag", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Annie Anderson and Griffey March", "found_city": "Caldwell", "found_state": "ID", "found_country": "USA", "found_GPS_lat": "43.653597 N", "found_GPS_long": "116.676876 W", "found_year": 2016, "p_institution": { "institution_code": "CIDA", "institution_name": "College of Idaho", "institution_logo": "https://phagesdb.org/media/institutions/the-college-of-idaho.gif", "institution_url": "http://www.collegeofidaho.edu/", "institution_city": "Caldwell", "institution_state": "ID", "institution_country": "USA", "institution_latitude": "43.653834", "institution_longitude": "-116.6768" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "DN", "temperate": true }, "psubcluster": { "subcluster": "DN1" }, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2016-12-19", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": null, "finishing_reactions": null, "genome_length": 55119, "gcpercent": "63.1", "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "CTCGGGGCAT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 99, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Asapag_CompleteNotes_NBr7wDB.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Asapag_Minimal_Final_cWekoBN.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Asapag_Authors_EHNFSGF.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Asapag_CoverSheet.pdf", "submitted_annotation_date": "2019-01-04T14:44:30-05:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Asapag_final_flat.txt", "qced_genbank_file_date": "2019-01-04T14:44:30-05:00", "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MK376961", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Asapag.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2016-12-01T22:58:04-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Asapben", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Ben Arata and Gaby ", "found_city": "Pullman", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "46.7 N", "found_GPS_long": "117.0 W", "found_year": 2018, "p_institution": { "institution_code": "WSHS", "institution_name": "Washington State University", "institution_logo": "https://phagesdb.org/media/institutions/logo-washington-state.jpg", "institution_url": "http://www.wsu.edu/", "institution_city": "Pullman", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "46.732132", "institution_longitude": "-117.1544" }, "enriched_sample": false, "discovery_notes": "The soil sample was obtained near a large garbage can left outside in a wet area. ", "isolation_temperature": 8, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques produced were small with cloudy halos around them. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2018-12-11T19:21:14-05:00", "date_modified": "2018-12-11T19:21:14-05:00" }, { "phage_name": "Asaurus", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": " ", "finder_name": "Grace Goodrich, Elissa Rankin", "found_city": "Spokane", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "47.666 N", "found_GPS_long": "117.403 W", "found_year": 2017, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "Soil collected near corner of Hughes, closest to Spokane river, while snow was on the ground.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "There are two morphologies present. Both are clear with well defined edges, however there is great variation in size. One morphology is 1-2mm in diameter while the other is 4-5mm in diameter. Several rounds of purification have been completed so we are confident that the phage is in fact isolated. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2017-04-13T11:10:03-04:00", "date_modified": "2020-09-17T14:08:59-04:00" }, { "phage_name": "Asayake", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Asayke means red glow in the morning in Japanese. It is also the name of a song that I listen to whenever I work on my phage lab stuff.", "finder_name": "Yong Chul Yoon", "found_city": "HOLLAND", "found_state": "MI", "found_country": "USA", "found_GPS_lat": "42.788333 N", "found_GPS_long": "86.100278 W", "found_year": 2014, "p_institution": { "institution_code": "HOPE", "institution_name": "Hope College", "institution_logo": "https://phagesdb.org/media/institutions/Hope.jpg", "institution_url": "http://www.hope.edu/", "institution_city": "Holland", "institution_state": "MI", "institution_country": "USA", "institution_latitude": "42.788980", "institution_longitude": "-86.10404" }, "enriched_sample": true, "discovery_notes": "Asayake was discovered from a soil collected from the pavement near Martha Miller Multicultural and Communication Center at Hope College. The temperature was about 82°F at the time of discovery and the soil was humid.", "isolation_temperature": 32, "growth_notes": "", "pcluster": { "cluster": "K", "temperate": true }, "psubcluster": { "subcluster": "K1" }, "morphotype": "SIPHO", "plaque_notes": "Asayke is a temperate phage that grows to about 0.25cm in 24hrs and 0.41cm in 48 hours. Its plaques are circular and have slightly bull's eye-like morphology.", "lysogeny_notes": "Asayke does not grow at 42°C. From the observations made in the previous papers, it is likely that the Asayake grows at a temperature above 42°C. \r\n\r\nAlso, from the bacteria collected from the mesa, it was confirmed that Asayake produces stable lysoges, meaning Asayke is temperate.", "seq_finished": true, "date_finished": "2020-05-01", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 269, "finishing_reactions": 0, "genome_length": 59905, "gcpercent": "66.6", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 11, "overhang_sequence": "CTCGTAGGCAT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 96, "num_tRNAs": 1, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Asayake_CompleteNotes.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Asayake_Minimal_Final_HhJZkQc.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Asayake_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Asayake_CoverSheet.pdf", "submitted_annotation_date": "2021-02-26T22:19:34-05:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Asayake.gbf", "qced_genbank_file_date": "2021-02-26T22:19:34-05:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MW712723", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asayake_Plaque.JPG", "em_file": null, "digest_file": null, "vdigest_file": "https://phagesdb.org/media/vDigestPics/Asayake_VirtualDigest.jpg", "fasta_file": "https://phagesdb.org/media/fastas/Asayake.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Asayake_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2014-11-18T11:25:07-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Ascela", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named after a star", "finder_name": "Audrey Nesbit", "found_city": "Dahlonega", "found_state": "GA", "found_country": "USA", "found_GPS_lat": "34.551799 N", "found_GPS_long": "83.966918 W", "found_year": 2021, "p_institution": { "institution_code": "UNGA", "institution_name": "University of North Georgia", "institution_logo": "https://phagesdb.org/media/institutions/UniversityOfNorthGeorgia.jpg", "institution_url": "http://www.ung.edu/", "institution_city": "Dahlonega", "institution_state": "GA", "institution_country": "USA", "institution_latitude": "34.527800", "institution_longitude": "-83.98442" }, "enriched_sample": true, "discovery_notes": "Soil was sludgy, wet mud right at the water’s edge of the lake, small plants\r\naround the site, freshwater lake", "isolation_temperature": 34, "growth_notes": "", "pcluster": { "cluster": "AZ", "temperate": true }, "psubcluster": { "subcluster": "AZ1" }, "morphotype": "SIPHO", "plaque_notes": "3mm x 3mm (at its largest, there are some smaller plaques sometimes that I\r\ndidn’t pick from), clear border, clear plaques", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2022-06-21", "seq_facility": { "short_name": "NCSTATE", "facility_name": "NC State Genomic Sciences Laboratory", "contact_person": "Jenn Schaff", "shipping_address": "", "facility_website": "http://research.ncsu.edu/gsl/" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 249, "finishing_reactions": 0, "genome_length": 44192, "gcpercent": "67.4", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 11, "overhang_sequence": "CGAAGGGGCAT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 71, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Ascela_CompleteNotes.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Ascela_Minimal_Final_acV8yWQ.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Ascela_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Ascela_CoverSheet.pdf", "submitted_annotation_date": "2023-03-05T22:46:33-05:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Ascela.gbf", "qced_genbank_file_date": "2023-03-05T22:46:33-05:00", "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "OQ709218", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Ascela_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Ascela.fasta", "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Ascela_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2021-12-16T12:36:48-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Ascension", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The word \"ascension\" is a powerful word. The definition being \"the act of rising to an important position or a higher level\" makes someone or something feel powerful when it is associated with the word. Naming this phage Ascension gives people the sense that it will rise to an important position and it could be used at a higher level someday.", "finder_name": "Brennan Miller", "found_city": "Holland", "found_state": "MI", "found_country": "United states", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2024, "p_institution": { "institution_code": "HOPE", "institution_name": "Hope College", "institution_logo": "https://phagesdb.org/media/institutions/Hope.jpg", "institution_url": "http://www.hope.edu/", "institution_city": "Holland", "institution_state": "MI", "institution_country": "USA", "institution_latitude": "42.788980", "institution_longitude": "-86.10404" }, "enriched_sample": null, "discovery_notes": "This sample was collected from a compost at 8:15am after the soil was turned over and mixed up. It was about 24 degrees Celsius when it was collected.", "isolation_temperature": 24, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "This phage produces small, clear plaques with a bit of turbidity around the edges.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-10-16T08:51:49-04:00", "date_modified": "2025-04-04T11:37:23-04:00" }, { "phage_name": "Ascisco", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The phage was named Ascisco, which means \"I receive\" in Latin. I was very glad the phage was discovered and felt like it was a gift. Because I was grateful to have found a phage, I decided to name it Ascisco. ", "finder_name": "Tucker Pavelek", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.265 N", "found_GPS_long": "79.5714 W", "found_year": 2016, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": true, "discovery_notes": "The phage was isolated from soil found in a flower bed near McCormick residence hall in Pittsburgh, PA. It was isolated via enriched isolation. The soil was fertile and supported flower growth. The area was well-irrigated. The soil was slightly clumpy and contained organic plant matter including roots and mulch.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques formed by Ascisco are round, about 1mm to 2.5mm in diameter, and are clear. They are \"haloed,\" containing dark spots in the middle of the plaque and a lighter ring around the edge. Because the phage produces two distinct types of plaques, it is said to have a mixed morphology. ", "lysogeny_notes": "The phage utilizes the lytic method of infection. ", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Ascisco_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/Ascisco_EMPic.png", "digest_file": "https://phagesdb.org/media/digestPics/Ascisco_Digest_5Cca2YX.gif", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Ascisco_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2016-10-19T23:10:44-04:00", "date_modified": "2020-09-17T14:07:42-04:00" }, { "phage_name": "Asclepius", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Asclepius is the Greek god of healing and medicine.", "finder_name": "Joseph Lucero", "found_city": "Pullman", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "46.731111 N", "found_GPS_long": "117.167778 W", "found_year": 2013, "p_institution": { "institution_code": "WSHS", "institution_name": "Washington State University", "institution_logo": "https://phagesdb.org/media/institutions/logo-washington-state.jpg", "institution_url": "http://www.wsu.edu/", "institution_city": "Pullman", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "46.732132", "institution_longitude": "-117.1544" }, "enriched_sample": true, "discovery_notes": "The sample was obtained beneath a tree in moist soil on Washington State University's campus.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Turbid, circular, and varies in size from 0.5 to 2.5 milliliters ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asclepius_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/Asclepius_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Asclepius_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Asclepius_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2013-12-03T09:45:36-05:00", "date_modified": "2020-09-17T14:05:26-04:00" }, { "phage_name": "ASegato", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "My mother's name is Aurea and our family last name is Segato", "finder_name": "Beatriz De Oliveira Segato", "found_city": "Quincy", "found_state": "MA", "found_country": "USA", "found_GPS_lat": "42.27307 N", "found_GPS_long": "71.01037 W", "found_year": 2022, "p_institution": { "institution_code": "ENZC", "institution_name": "Eastern Nazarene College", "institution_logo": "https://phagesdb.org/media/institutions/eastern_nazarene.png", "institution_url": "https://enc.edu/", "institution_city": "Quincy", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "Soil was dry but the grass was very green, alive and overgrown", "isolation_temperature": 23, "growth_notes": "", "pcluster": { "cluster": "ED", "temperate": false }, "psubcluster": { "subcluster": "ED2" }, "morphotype": "SIPHO", "plaque_notes": "Phages were medium size with a clear center and a cloudy ring around it and clear all around the ring.\r\n\r\nBulls eye phage", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2023-01-03", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 754, "finishing_reactions": 0, "genome_length": 63246, "gcpercent": "61.7", "end_type": "TREP", "repeat_length": 3797, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 121, "num_tRNAs": 3, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/ASegato_CompleteNotes.xlsx", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/ASegato_Minimal_Final_eEHjwyd.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/ASegato_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/ASegato_CoverSheet.docx", "submitted_annotation_date": "2023-08-09T09:47:06-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/ASegato_flat.txt", "qced_genbank_file_date": "2023-08-09T09:47:06-04:00", "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "OR521059", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/ASegato_Plaque.HEIC", "em_file": "https://phagesdb.org/media/emPics/ASegato_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/ASegato_Digest.jpg", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/ASegato.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/ASegato_Plaque.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/ASegato_EM.jpg", "dnam_file": null, "date_added": "2022-11-07T08:45:20-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Asegbola", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name is my last name, I thought it would be cool to name something after myself.", "finder_name": "Dashawn Asegbola", "found_city": "Lincoln Unversity", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2016, "p_institution": { "institution_code": "LINC", "institution_name": "Lincoln University", "institution_logo": "https://phagesdb.org/media/institutions/LincolnLogo.jpg", "institution_url": "http://homepage.lincoln.edu/", "institution_city": "Lincoln University", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "39.808339", "institution_longitude": "-75.92744" }, "enriched_sample": null, "discovery_notes": "Dark, moist soil. Found outside of the science building on campus.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques are clear and 1mm long. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2016-11-15T14:44:49-05:00", "date_modified": "2020-09-17T14:07:12-04:00" }, { "phage_name": "AsepTech", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "AsepTech is short for Aseptic Technique. ", "finder_name": "Vincent Song and Rishi Jaswaney ", "found_city": "St. Louis", "found_state": "MO", "found_country": "USA", "found_GPS_lat": "38.646944 N", "found_GPS_long": "90.301944 W", "found_year": 2013, "p_institution": { "institution_code": "WUSL", "institution_name": "Washington University in St. Louis", "institution_logo": "https://phagesdb.org/media/institutions/WashU2_.jpg", "institution_url": "http://www.wustl.edu/", "institution_city": "St. Louis", "institution_state": "MO", "institution_country": "USA", "institution_latitude": "38.649087", "institution_longitude": "-90.31083" }, "enriched_sample": true, "discovery_notes": "Our Phage was obtained from semi-moist soil on a golf course. Specifically, it was taken from a teebox on the golf course. ", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "A", "temperate": true }, "psubcluster": { "subcluster": "A2" }, "morphotype": "SIPHO", "plaque_notes": "Our plaques were small and circular with a cloudy ring surrounding a clear center. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": { "short_name": "WASHU", "facility_name": "The McDonnell Genome Institute at Washington University", "contact_person": "", "shipping_address": "", "facility_website": "http://genome.wustl.edu/" }, "seq_method": { "short_name": "PACBIO", "method_name": "Pacific Biosciences" }, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": 1, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AsepTech_Plaque.pdf", "em_file": "https://phagesdb.org/media/emPics/AsepTech_EMPic.TIF", "digest_file": "https://phagesdb.org/media/digestPics/AsepTech_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/AsepTech_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Aseptech_EMpic_Thumb.jpg", "dnam_file": null, "date_added": "2013-10-09T09:23:10-04:00", "date_modified": "2015-04-29T14:31:55-04:00" }, { "phage_name": "ASerpRocky", "old_names": "", "program": { "short_name": "PHIRE", "program_name": "Phage Hunters Integrating Research and Education", "program_blurb": "", "program_URL": "" }, "naming_notes": "This phage is named after/dedicated to Adam Serpa.", "finder_name": "Lexi Marx", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.444285 N", "found_GPS_long": "79.955213 W", "found_year": 2016, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": true, "discovery_notes": "This sample was found in the crevice of a sidewalk near a bench.", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "CS", "temperate": false }, "psubcluster": { "subcluster": "CS4" }, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2016-08-26", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 745, "finishing_reactions": 0, "genome_length": 74355, "gcpercent": "59.2", "end_type": "TREP", "repeat_length": 1189, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "Buildup of reads flanking region of increased coverage.", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 94, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/ASerpRocky_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2019-07-25T14:41:38-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/ASerpRocky.gbf", "qced_genbank_file_date": "2019-07-25T14:41:38-04:00", "isolation_host": { "genus": "Gordonia", "species": "westfalica", "strain_name": "NRRL B-24152", "strain_species": { "id": 52, "genus": "Gordonia", "species_name": "westfalica", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Gordonia_westfalica" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 52, "genus": "Gordonia", "species_name": "westfalica", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Gordonia_westfalica" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MN234166", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/AserpRocky_EMPic.tiff", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/ASerpRocky.fasta", "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/AserpRocky_EMPic_Thumb.jpg", "dnam_file": "https://phagesdb.org/media/dnam/ASerpRocky.dnam5", "date_added": "2016-05-16T08:05:26-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Asert12", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Theresa Schmidt", "found_city": "Columbus", "found_state": "OH", "found_country": "USA", "found_GPS_lat": "39.994405 N", "found_GPS_long": "83.014448 W", "found_year": 2012, "p_institution": { "institution_code": "TOSU", "institution_name": "The Ohio State University", "institution_logo": "https://phagesdb.org/media/institutions/ohiostate_logo.jpg", "institution_url": "http://www.osu.edu/", "institution_city": "Columbus", "institution_state": "OH", "institution_country": "USA", "institution_latitude": "40.014457", "institution_longitude": "-83.03091" }, "enriched_sample": false, "discovery_notes": "Was discovered in on 9/3/12 in a freshly mulched, high traffic area on campus. Sample was taken from the surface down to approximately 0.8cm into the mulch. Air temperature warm but not as humid as usual, as it was taken at 7:18pm. The sample was moist from rain earlier in the day but was dry for the most part.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Phage population is dilution-dependent and yields larger plaques at larger dilutions. Undiluted samples yielded plaques with a diameter of 1mm, and diluted plaque size increased up to 6mm.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asert12_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Asert12_EMPic.jpg", "digest_file": null, "vdigest_file": "https://phagesdb.org/media/vDigestPics/Asert12_VirtualDigest.jpg", "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Asert12_Plaque_Thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/Asert12_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2012-11-29T13:11:05-05:00", "date_modified": "2020-07-09T20:00:08-04:00" }, { "phage_name": "Asfaw", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I named my phages after my dad. I thought his name is unique so other people won't have that name and it's easier for me to remember.", "finder_name": "Betelehem Dejene", "found_city": "Denton", "found_state": "TX", "found_country": "United States", "found_GPS_lat": "33.2121 N", "found_GPS_long": "97.1552 W", "found_year": 2019, "p_institution": { "institution_code": "UNTD", "institution_name": "University of North Texas", "institution_logo": "https://phagesdb.org/media/institutions/UNT-01.jpg", "institution_url": "http://www.unt.edu/", "institution_city": "Denton", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "33.207825", "institution_longitude": "-97.15253" }, "enriched_sample": true, "discovery_notes": "The temperature was 57 degrees and it was mostly cloudy. The soil was a little bit dry and it was collected where there is a lot of plants.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "My plaques are cloudy and circular. The average size of my plaques is 1.22 m.", "lysogeny_notes": "I got a negative result from my lysogeny test, which means I have lytic phage not temperate.", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Streptomyces", "species": "sanglieri", "strain_name": "UNT16F27A", "strain_species": { "id": 73, "genus": "Streptomyces", "species_name": "sanglieri", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 73, "genus": "Streptomyces", "species_name": "sanglieri", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asfaw_Plaque.jpg", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/Asfaw_Digest_fA1o61m.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Asfaw_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2019-04-12T21:59:38-04:00", "date_modified": "2020-09-17T14:11:20-04:00" }, { "phage_name": "Asgard", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Kyle Gordon, Olivia Zeisloft", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "US", "found_GPS_lat": "40.43067 N", "found_GPS_long": "79.94538 W", "found_year": 2021, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asgard_Plaque.JPG", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-10-18T09:57:49-04:00", "date_modified": "2022-03-16T11:02:22-04:00" }, { "phage_name": "Asgardia", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Asgarida after the potential future space nation; https://asgardia.spac. Which one day I'd like to be a citizen of if it comes to fruition. Also to me the general phage space looks like a space ship, making the name even more appropriate. Asgardia was derived from the City of Asgard from Norse mythology it was a city in the skies, the country of the Gods. It is the realisation of man's eternal dream to leave his cradle on Earth and expand into the Universe.", "finder_name": "Holden Ohl", "found_city": "Philadelphia ", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "39.945085 N", "found_GPS_long": "75.206026 W", "found_year": 2016, "p_institution": { "institution_code": "USPH", "institution_name": "University of the Sciences (now St. Joseph's Univ)", "institution_logo": "https://phagesdb.org/media/institutions/USciences.png", "institution_url": "https://www.sju.edu/", "institution_city": "Philadelphia", "institution_state": "PA", "institution_country": "United States", "institution_latitude": "39.947118", "institution_longitude": "-75.20724" }, "enriched_sample": true, "discovery_notes": "Sample Name: #4 Ivy Bed Outside Goodman USP\t\r\n\r\nDate: 9/01/16\t\t\t\t\tTime: 1:55\r\n\r\nTemperature: 79⁰F\r\n\r\nLocation: 39.945343, -75. 205993\r\n\r\nLocation (City, State): 600 University Ave. Philadelphia, PA 19104\t\t\r\n\r\nDepth:\t 4cm\r\n\r\nDry Soil\r\n\r\nRight against building of Goodman. \r\nUrban\r\nDecomposing leaves, pill bugs, close to tree dedicated to National Service paid by Alpha Phi Omega", "isolation_temperature": 26, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaque are density dependent shrinking in size as concentration increases.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asgardia_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Asgardia_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Asgardia_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Asgardia_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2016-11-08T11:59:30-05:00", "date_modified": "2020-09-17T14:07:14-04:00" }, { "phage_name": "Ash1", "old_names": "", "program": { "short_name": "MCG_Durban", "program_name": "Mycobacterial Genetics Course, Durban, South Africa", "program_blurb": "", "program_URL": "" }, "naming_notes": "", "finder_name": "Ashmita Arjoon", "found_city": "Durban", "found_state": "", "found_country": "South Africa", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2011, "p_institution": { "institution_code": "KRIT", "institution_name": "University of Kwazulu-Natal", "institution_logo": "https://phagesdb.org/media/institutions/KwazNat-01.jpg", "institution_url": "http://www.ukzn.ac.za/Homepage.aspx", "institution_city": "", "institution_state": "", "institution_country": "", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2011-07-28T10:32:56-04:00", "date_modified": "2017-09-24T10:16:47-04:00" }, { "phage_name": "Asha", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Brett Heyder", "found_city": "Hampden Sydney", "found_state": "VA", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2012, "p_institution": { "institution_code": "HMSD", "institution_name": "Hampden-Sydney College", "institution_logo": "https://phagesdb.org/media/institutions/hsc_seal.jpg", "institution_url": "http://www.hsc.edu/", "institution_city": "Hampden-Sydney", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "37.241291", "institution_longitude": "-78.46095" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2012-10-25T13:25:50-04:00", "date_modified": "2017-09-12T10:27:24-04:00" }, { "phage_name": "Ashab96", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name of the phage came from the owner.", "finder_name": "Asha Burns", "found_city": "Tampa", "found_state": "FL", "found_country": "USA", "found_GPS_lat": "28.33 N", "found_GPS_long": "82.26 W", "found_year": 2019, "p_institution": { "institution_code": "SLEO", "institution_name": "Saint Leo University", "institution_logo": "https://phagesdb.org/media/institutions/SLEO.png", "institution_url": "http://www.saintleo.edu/", "institution_city": "Saint Leo", "institution_state": "FL", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "The soil was wet and around grass.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques are small in size 1mm and are turbid,The line around it is thin.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2019-11-22T12:49:11-05:00", "date_modified": "2020-09-17T14:11:35-04:00" }, { "phage_name": "Ashalina", "old_names": "Damon", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Ashlyn Beal and Lila Faber", "found_city": "Pullman", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "46.72932 N", "found_GPS_long": "117.16574 W", "found_year": 2024, "p_institution": { "institution_code": "WSHS", "institution_name": "Washington State University", "institution_logo": "https://phagesdb.org/media/institutions/logo-washington-state.jpg", "institution_url": "http://www.wsu.edu/", "institution_city": "Pullman", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "46.732132", "institution_longitude": "-117.1544" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-04-26T10:39:46-04:00", "date_modified": "2024-04-26T10:40:03-04:00" }, { "phage_name": "Ashally", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Combination of the findee's first names. Ashley and Sally...Ashally", "finder_name": "Sally Allaire & Ashley Mund", "found_city": "Spokane", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "47.66651 N", "found_GPS_long": "117.39767 W", "found_year": 2023, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "Taken from soil near tree roots outside of Madonna Hall at Gonzaga University", "isolation_temperature": 22, "growth_notes": "", "pcluster": { "cluster": "EE", "temperate": false }, "psubcluster": null, "morphotype": "", "plaque_notes": "Clear plaques with fuzzy edges indicate a lytic lifecycle. Average plaque size of 0.7cm and a median plaque size of 0.8cm. Generally speaking plaques are larger than usual.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Ashally_Plaque.JPG", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Ashally.Thumb.png.2.png", "em_thumb_file": null, "dnam_file": null, "date_added": "2023-04-10T12:01:13-04:00", "date_modified": "2024-10-08T10:20:05-04:00" }, { "phage_name": "Ashanti", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Yanisha Patel", "found_city": "Fairfax", "found_state": "VA", "found_country": "USA", "found_GPS_lat": "38.828913 N", "found_GPS_long": "77.30677 E", "found_year": 2016, "p_institution": { "institution_code": "GEMA", "institution_name": "George Mason University", "institution_logo": "https://phagesdb.org/media/institutions/GeorgeMason_YjNctcY.jpg", "institution_url": "https://www.gmu.edu/", "institution_city": "Fairfax", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2016-07-26T19:40:47-04:00", "date_modified": "2020-09-17T14:07:58-04:00" }, { "phage_name": "AshaTheDog", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named after pet dog", "finder_name": "Ta B.", "found_city": "Wingate", "found_state": "NC", "found_country": "United States", "found_GPS_lat": "34.986928 N", "found_GPS_long": "80.445315 W", "found_year": 2023, "p_institution": { "institution_code": "WGTU", "institution_name": "Wingate University", "institution_logo": "https://phagesdb.org/media/institutions/wingate.png", "institution_url": "https://www.wingate.edu/", "institution_city": "Wingate", "institution_state": "NC", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "very muddy, tiny branches, plant matter, top layer, small rocks, very wet", "isolation_temperature": 16, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "clear, scattered, clustered", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-03-30T07:57:50-04:00", "date_modified": "2024-02-25T15:28:19-05:00" }, { "phage_name": "Ashaug", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "We combined our names, Ash from Ashlynn and Aug from Augur.", "finder_name": "Ashlynn Nowlin, Augur Buchholz", "found_city": "Stephenville", "found_state": "TX", "found_country": "United States", "found_GPS_lat": "32.229704 N", "found_GPS_long": "98.201283 W", "found_year": 2023, "p_institution": { "institution_code": "TARL", "institution_name": "Tarleton State University", "institution_logo": "https://phagesdb.org/media/institutions/TarletonStateUniversity.png", "institution_url": "http://www.tarleton.edu", "institution_city": "Stephensville", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "32.216025", "institution_longitude": "-98.21594" }, "enriched_sample": true, "discovery_notes": "Found at surface level under a tree in a house's backyard, frequented by dogs and other animals.", "isolation_temperature": 29, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Ashaug_Plaque_NPnhq8u.jpg", "em_file": "https://phagesdb.org/media/emPics/Ashaug_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Ashaug_Digest_miyU3LH.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/IMG_20231006_160925.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Ashaug_3200pix.jpg", "dnam_file": null, "date_added": "2023-11-07T08:52:01-05:00", "date_modified": "2024-02-25T15:28:13-05:00" }, { "phage_name": "Ashballer", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named \"Ashballer\" in honor of Mark Ashbaugh, the RUF campus minister at Winthrop University", "finder_name": "JC Ferebee", "found_city": "Rock Hill", "found_state": "SC", "found_country": "United States", "found_GPS_lat": "34.93722 N", "found_GPS_long": "81.03086 W", "found_year": 2022, "p_institution": { "institution_code": "WNTH", "institution_name": "Winthrop University", "institution_logo": "https://phagesdb.org/media/institutions/WinthropUniversity.jpg", "institution_url": "http://www.winthrop.edu/", "institution_city": "Rock Hill", "institution_state": "SC", "institution_country": "USA", "institution_latitude": "34.939523", "institution_longitude": "-81.03154" }, "enriched_sample": true, "discovery_notes": "Soil sample taken at 3 inches below soil surface, in the root zone of an ornamental cypress tree (Cryptomeria japonica) in Hardin Garden on the campus of Winthrop University 8/30/2022", "isolation_temperature": 37, "growth_notes": "", "pcluster": { "cluster": "A", "temperate": true }, "psubcluster": { "subcluster": "A1" }, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2022-12-14", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 1215, "finishing_reactions": 0, "genome_length": 52231, "gcpercent": "63.8", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "CGGATGGTAA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 95, "num_tRNAs": 1, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Ashballer_Minimal_Final_2XFpPKK.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2023-06-19T12:13:12-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Ashballer_flat_JBEndJs.txt", "qced_genbank_file_date": "2023-06-19T12:13:12-04:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "OR195043", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Ashballer_Plaque.jpeg", "em_file": "https://phagesdb.org/media/emPics/Ashballer_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Ashballer_Digest.jpg", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Ashballer.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Ashballer_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Ashballer_EM_Thumb.jpg", "dnam_file": null, "date_added": "2022-10-07T09:22:37-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Ashbee", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Julie Chenot", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "United States", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2022, "p_institution": { "institution_code": "CHAT", "institution_name": "Chatham University", "institution_logo": "https://phagesdb.org/media/institutions/chatham_logo_NB0QvGQ.png", "institution_url": "https://www.chatham.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.449259", "institution_longitude": "-79.925094" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Ashbee_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-11-21T10:46:29-05:00", "date_modified": "2022-12-05T14:51:48-05:00" }, { "phage_name": "AshbyBoongus", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "This phage, AshbyBoongus, was named after the discoverer's best friend, Ashby, and a common nonsense word that they and their friends would often say ('Boongus').", "finder_name": "Raistlin Bracey", "found_city": "Cullowhee", "found_state": "NC", "found_country": "United States", "found_GPS_lat": "35.311389 N", "found_GPS_long": "83.181389 W", "found_year": 2019, "p_institution": { "institution_code": "WCAR", "institution_name": "Western Carolina University", "institution_logo": "https://phagesdb.org/media/institutions/westerncarolina.jpg", "institution_url": "http://www.wcu.edu/", "institution_city": "Cullowhee", "institution_state": "NC", "institution_country": "United States", "institution_latitude": "35.308879", "institution_longitude": "-83.18506" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques that AshbyBoongus creates are small in size, with a very clear, sharp center and a fuzzy, turbid ring around it.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AshbyBoongus_Plaque.tif", "em_file": "https://phagesdb.org/media/emPics/AshbyBoongus_EMPic.TIF", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/AshbyBoongus_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2019-11-15T11:02:30-05:00", "date_modified": "2020-09-17T14:11:26-04:00" }, { "phage_name": "Ashe", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Marjorie Sapphire Bowen-Kauth", "found_city": "Washington D.C.", "found_state": "DC", "found_country": "USA", "found_GPS_lat": "38.921667 N", "found_GPS_long": "77.018056 W", "found_year": 2018, "p_institution": { "institution_code": "HWRD", "institution_name": "Howard University", "institution_logo": "https://phagesdb.org/media/institutions/howard_university_logo2.jpg", "institution_url": "http://www.howard.edu/", "institution_city": "Washington", "institution_state": "DC", "institution_country": "USA", "institution_latitude": "38.922905", "institution_longitude": "-77.01943" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2018-09-20T14:20:49-04:00", "date_modified": "2020-09-17T14:10:04-04:00" }, { "phage_name": "Ashem02", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Ashem02 is a combination of my two sisters' names and the year I was born.", "finder_name": "Erika McKenney", "found_city": "Hawarden", "found_state": "IA", "found_country": "United States", "found_GPS_lat": "43.00681 N", "found_GPS_long": "96.48255 W", "found_year": 2022, "p_institution": { "institution_code": "NWRC", "institution_name": "Northwestern College", "institution_logo": "https://phagesdb.org/media/institutions/NorthwesternCollege_WeS7TIe.jpg", "institution_url": "http://www.nwciowa.edu/", "institution_city": "Orange City", "institution_state": "IA", "institution_country": "USA", "institution_latitude": "42.997964", "institution_longitude": "-96.05829" }, "enriched_sample": false, "discovery_notes": "Soil was damp, full of organic matter and was collected 3 inches below the surface. Ambient temperature was 75°F", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Ashem02_Plaque.png", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-11-08T09:04:15-05:00", "date_modified": "2024-02-25T15:27:50-05:00" }, { "phage_name": "Ashen", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name of this Phage came from my love of video games and us not wanting to name a scientific discovery something ridiculous, we named our discovery Ashen after a classification in the game Dark Souls", "finder_name": "Jonathan Bauch, Caleb Lewis", "found_city": "Fort Kent", "found_state": "ME", "found_country": "USA", "found_GPS_lat": "47.250312 N", "found_GPS_long": "68.586886 W", "found_year": 2017, "p_institution": { "institution_code": "UMFK", "institution_name": "University of Maine, Fort Kent", "institution_logo": "https://phagesdb.org/media/institutions/umfk.jpg", "institution_url": "http://www.umfk.maine.edu/", "institution_city": "Fort Kent", "institution_state": "ME", "institution_country": "USA", "institution_latitude": "47.249851", "institution_longitude": "-68.59010" }, "enriched_sample": true, "discovery_notes": "This phage was found in the community garden of our college in the soil underneath a tomato plant.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques were very large and clear with cloudy white halos around them and changed very little through the discovery stages.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Ashen_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Ashen_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Ashen_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2017-11-28T20:50:25-05:00", "date_modified": "2020-09-17T14:08:47-04:00" }, { "phage_name": "Asher", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named after my dog, ARCHMX Asher", "finder_name": "Kim Pike", "found_city": "Slatington", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.7 N", "found_GPS_long": "75.61 W", "found_year": 2014, "p_institution": { "institution_code": "LEHI", "institution_name": "Lehigh University", "institution_logo": "https://phagesdb.org/media/institutions/LeHigh.jpg", "institution_url": "http://www.lehigh.edu/", "institution_city": "Bethlehem", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.607157", "institution_longitude": "-75.37829" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2016-05-16T08:21:05-04:00", "date_modified": "2020-09-17T14:08:15-04:00" }, { "phage_name": "Ashertheman", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "A biblical name, the name of my first crush, and a name in gossip girl.", "finder_name": "Haley Ommundsen", "found_city": "Nyack", "found_state": "NY", "found_country": "USA", "found_GPS_lat": "40.705600 N", "found_GPS_long": "74.015700 W", "found_year": 2016, "p_institution": { "institution_code": "NYAK", "institution_name": "Alliance University (formerly Nyack College)", "institution_logo": "https://phagesdb.org/media/institutions/AllianceUniversity.png", "institution_url": "https://allianceu.edu/", "institution_city": "New York", "institution_state": "NY", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "Haley Ommundsen collected the soil and initially isolated the phage. Emily Flynn then helped her afterwards with the rest of the project.\r\n\r\n9/10/16", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "DE", "temperate": false }, "psubcluster": { "subcluster": "DE1" }, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2017-01-09", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 453, "finishing_reactions": 0, "genome_length": 57555, "gcpercent": "68.0", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 85, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Ashertheman_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2018-07-18T19:46:11-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Ashertheman_flat.txt", "qced_genbank_file_date": "2018-07-18T19:46:11-04:00", "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MH651168", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Ashertheman.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2016-11-16T15:08:18-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Ashes", "old_names": "", "program": { "short_name": "PHIRE", "program_name": "Phage Hunters Integrating Research and Education", "program_blurb": "", "program_URL": "" }, "naming_notes": "Named after my cat.\r\n\r\nAnnotated by Tobi Onilari.", "finder_name": "Sophia Sliter-Hays", "found_city": "Dallas", "found_state": "TX", "found_country": "United States", "found_GPS_lat": "32.80436 N", "found_GPS_long": "96.707492 W", "found_year": 2024, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": true, "discovery_notes": "Dry soil under live oak.\r\nAnnotated by Tobi Onilari.", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "AZ", "temperate": true }, "psubcluster": { "subcluster": "AZ5" }, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2024-10-01", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 4496, "finishing_reactions": 0, "genome_length": 40173, "gcpercent": "71.0", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 11, "overhang_sequence": "CGAAACGGCAT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 62, "num_tRNAs": 1, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Ashes_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2025-01-08T00:06:44-05:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Ashes.gbf", "qced_genbank_file_date": "2025-01-08T00:06:44-05:00", 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"institution_logo": "https://phagesdb.org/media/institutions/chatham_logo_NB0QvGQ.png", "institution_url": "https://www.chatham.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.449259", "institution_longitude": "-79.925094" }, "enriched_sample": false, "discovery_notes": "In my house front yard.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-10-10T10:08:28-04:00", "date_modified": "2022-10-10T10:08:28-04:00" }, { "phage_name": "Ashleigh", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Carolina Ruiz", "found_city": "Williamsburg", "found_state": "VA", "found_country": "USA", "found_GPS_lat": "37.28272 N", "found_GPS_long": "76.6646 W", "found_year": 2008, "p_institution": { "institution_code": "CWAM", "institution_name": "College of William & Mary", "institution_logo": "https://phagesdb.org/media/institutions/william_and_mary-01.jpg", "institution_url": "http://www.wm.edu/", "institution_city": "Williamsburg", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "37.272588", "institution_longitude": "-76.71691" }, "enriched_sample": true, "discovery_notes": "Location: Queen's Lake subdivision. 2 year old wet compost, depth 8 inches, 32°C", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Enriched Culture Plaque", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Ashleigh_EM.png", "digest_file": "https://phagesdb.org/media/digestPics/Ashleigh_digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Ashleigh_EM_thumb.png", "dnam_file": null, "date_added": "2010-04-30T20:00:00-04:00", "date_modified": "2017-09-12T10:21:46-04:00" }, { "phage_name": "AshLeigh101", "old_names": "Ashley Fleming and Leighanne Virosco", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "", "found_city": "Montclair", "found_state": "NJ", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2017, "p_institution": { "institution_code": "MCSU", "institution_name": "Montclair State University", "institution_logo": "https://phagesdb.org/media/institutions/msu_.jpg", "institution_url": "http://www.montclair.edu/", "institution_city": "Montclair", "institution_state": "NJ", "institution_country": "USA", "institution_latitude": "40.861767", "institution_longitude": "-74.19856" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/AshLeigh101_EMPic.TIF", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/AshLeigh101_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2017-06-30T19:32:14-04:00", "date_modified": "2020-09-17T14:09:16-04:00" }, { "phage_name": "AshleyAve", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name of the street that I found it on. ", "finder_name": "Jessica Rutana", "found_city": "Charleston", "found_state": "SC", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2016, "p_institution": { "institution_code": "CCHA", "institution_name": "College of Charleston", "institution_logo": "https://phagesdb.org/media/institutions/cofc_logo_red.jpg", "institution_url": "http://www.cofc.edu/", "institution_city": "Charleston", "institution_state": "SC", "institution_country": "USA", "institution_latitude": "32.783974", "institution_longitude": "-79.93820" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2016-11-17T14:03:45-05:00", "date_modified": "2016-11-17T14:03:45-05:00" }, { "phage_name": "AshleyC", "old_names": "", "program": { "short_name": "KBRIN", "program_name": "Kentucky Biomedical Infrastructure Network Small Genomes Discovery Program", "program_blurb": "", "program_URL": "" }, "naming_notes": "It's my first name and the first letter of my middle name. AshleyC", "finder_name": "Ashley C Busher", "found_city": "Clarksville", "found_state": "TN", "found_country": "USA", "found_GPS_lat": "36.4567 N", "found_GPS_long": "87.4014 W", "found_year": 2017, "p_institution": { "institution_code": "EKEN", "institution_name": "Eastern Kentucky University", "institution_logo": "https://phagesdb.org/media/institutions/EasternKentucky_uni_logo.png", "institution_url": "http://www.eku.edu/", "institution_city": "", "institution_state": "", "institution_country": "", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "Soil sample\r\nNear a small creek, up away from clay soil beside creek bank\r\nFarm area\r\nApproximately 10 miles away from a larger river", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Small plaques\r\nclear plaques, not hazy or turbid\r\n", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AshleyC_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2017-12-07T22:51:02-05:00", "date_modified": "2018-07-02T14:19:40-04:00" }, { "phage_name": "AshleyJosh", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Joshua Riklan", "found_city": "Nutley", "found_state": "NJ", "found_country": "USA", "found_GPS_lat": "40.816375 N", "found_GPS_long": "74.14081 W", "found_year": 2018, "p_institution": { "institution_code": "MCSU", "institution_name": "Montclair State University", "institution_logo": "https://phagesdb.org/media/institutions/msu_.jpg", "institution_url": "http://www.montclair.edu/", "institution_city": "Montclair", "institution_state": "NJ", "institution_country": "USA", "institution_latitude": "40.861767", "institution_longitude": "-74.19856" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2018-07-11T09:00:38-04:00", "date_modified": "2020-09-17T14:09:41-04:00" }, { "phage_name": "AshlinaRanch6", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Miss AshlinaRanch6 was named after Nina Rivera and her lab partner, Ashly Sanchez", "finder_name": "Nina Rivera, Ashly Sanchez", "found_city": "Montclair", "found_state": "NJ", "found_country": "USA", "found_GPS_lat": "40.91422 N", "found_GPS_long": "74.18412 W", "found_year": 2024, "p_institution": { "institution_code": "MCSU", "institution_name": "Montclair State University", "institution_logo": "https://phagesdb.org/media/institutions/msu_.jpg", "institution_url": "http://www.montclair.edu/", "institution_city": "Montclair", "institution_state": "NJ", "institution_country": "USA", "institution_latitude": "40.861767", "institution_longitude": "-74.19856" }, "enriched_sample": null, "discovery_notes": "The initial reading of the DNA concentration was 519.8 ng/uL. More testing is being conducted to decide whether this is due to high purity or a mishap made during the purification process.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaques were of medium-sized morphology.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "sp. ", "strain_name": "ATCC 21022", "strain_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "21022", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-04-25T15:15:24-04:00", "date_modified": "2024-04-25T15:15:24-04:00" }, { "phage_name": "Ashlynn", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Torie Eggers", "found_city": "Nyack", "found_state": "NY", "found_country": "USA", "found_GPS_lat": "41.0 N", "found_GPS_long": "73.0 E", "found_year": 2017, "p_institution": { "institution_code": "NYAK", "institution_name": "Alliance University (formerly Nyack College)", "institution_logo": "https://phagesdb.org/media/institutions/AllianceUniversity.png", "institution_url": "https://allianceu.edu/", "institution_city": "New York", "institution_state": "NY", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Rhodococcus", "species": "erythropolis", "strain_name": "Rery29", "strain_species": { "id": 9, "genus": "Rhodococcus", "species_name": "erythropolis", "species_genus": { "id": 2, "genus_domain": "Bacteria", "genus_name": "Rhodococcus", "genus_wikipedia": "http://en.wikipedia.org/wiki/Rhodococcus", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 9, "genus": "Rhodococcus", "species_name": "erythropolis", "species_genus": { "id": 2, "genus_domain": "Bacteria", "genus_name": "Rhodococcus", "genus_wikipedia": "http://en.wikipedia.org/wiki/Rhodococcus", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 2, "genus_domain": "Bacteria", "genus_name": "Rhodococcus", "genus_wikipedia": "http://en.wikipedia.org/wiki/Rhodococcus", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2017-12-13T19:45:58-05:00", "date_modified": "2020-09-17T14:09:27-04:00" }, { "phage_name": "Ashlynx", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I named it after one of the characters in Akimi Yoshida's Banana Fish. The name represents transient beauty that is hard to conquer.", "finder_name": "Xiyuan Zhang", "found_city": "Blacksburg", "found_state": "VA", "found_country": "USA", "found_GPS_lat": "37.22583 N", "found_GPS_long": "80.42451 W", "found_year": 2021, "p_institution": { "institution_code": "VTEC", "institution_name": "Virginia Tech", "institution_logo": "https://phagesdb.org/media/institutions/VirginiaTech.png", "institution_url": "http://www.vt.edu/", "institution_city": "Blacksburg", "institution_state": "VA", "institution_country": "United States", "institution_latitude": "37.228453", "institution_longitude": "-80.42347" }, "enriched_sample": true, "discovery_notes": "I found this phage on the grass outside parking lot 12. There was a sycamore tree above the ground and I dug 3 cm down into the soil to get the sample.", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "The plaques are clear with halo around the edge, and the size is small.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Ashlynx_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Ashlynx_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-11-09T14:51:42-05:00", "date_modified": "2022-03-16T11:01:47-04:00" }, { "phage_name": "Ashogether", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I thought it would be cool to have a phage semi-named after me, as well as the compost it was isolated fro which was named \"Altogether now\".", "finder_name": "Ashlee Simms-Olsen", "found_city": "Santa Cruz", "found_state": "CA", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2019, "p_institution": { "institution_code": "UCSC", "institution_name": "University of California, Santa Cruz", "institution_logo": "https://phagesdb.org/media/institutions/UCSC.jpg", "institution_url": "http://www.ucsc.edu/", "institution_city": "Santa Cruz", "institution_state": "CA", "institution_country": "USA", "institution_latitude": "36.991665", "institution_longitude": "-122.0608" }, "enriched_sample": null, "discovery_notes": "Phage was initially isolated from a compost pile.", "isolation_temperature": 37, "growth_notes": "", "pcluster": { "cluster": "B", "temperate": false }, "psubcluster": { "subcluster": "B4" }, "morphotype": "", "plaque_notes": "The plaques, once passaged 5 times, were small and circular, approximately 1 mm in diameter. When incubated for almost three days, the plaques appeared to have halos. The halos were not seen at any other point.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2019-06-25T15:40:06-04:00", "date_modified": "2019-06-25T15:40:06-04:00" }, { "phage_name": "Ashori", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Asher + Dori, names of the students who isolated the phage.", "finder_name": "Dorjan Leka, Asher Gruver-Williams", "found_city": "Baltimore", "found_state": "MD", "found_country": "USA", "found_GPS_lat": "39.253328 N", "found_GPS_long": "76.703349 W", "found_year": 2018, "p_institution": { "institution_code": "UMBC", "institution_name": "University of Maryland, Baltimore County", "institution_logo": "https://phagesdb.org/media/institutions/UMBC_Logo.png", "institution_url": "http://www.umbc.edu/", "institution_city": "Baltimore", "institution_state": "MD", "institution_country": "USA", "institution_latitude": "39.256328", "institution_longitude": "-76.71072" }, "enriched_sample": true, "discovery_notes": "The phage was found on soil by the river. The soil was damp.", "isolation_temperature": 28, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Uniformly ~1mm in diameter, round, and clear.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": { "short_name": "UPitt GPCL", "facility_name": "University of Pittsburgh Genomics and Proteomics Core Laboratories", "contact_person": "", "shipping_address": "", "facility_website": "http://www.genetics.pitt.edu/" }, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Streptomyces", "species": "mirabilis", "strain_name": "NRRL B-2400", "strain_species": { "id": 71, "genus": "Streptomyces", "species_name": "mirabilis", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 71, "genus": "Streptomyces", "species_name": "mirabilis", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Ashori_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Ashori_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Ashori_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Ashori_Thumb.jpg", "dnam_file": null, "date_added": "2018-10-24T09:28:37-04:00", "date_modified": "2020-09-17T14:10:08-04:00" }, { "phage_name": "Ashraf", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name of the phage is kept by the student Imtiyaz Gulami, TATA CSIR-OSDD Fellow who worked and discovered the Mycobacteriophage from the soil samples as a part of PHAGE DISCOVERY RESEARCH PROJECT (PDRP). The name ‘Ashraf’ stands for the location (Ashraf Clinic) from where the soil was obtained.", "finder_name": "Imtiyaz Gulami (TATA CSIR OSDD Fellow)", "found_city": "Mumbai, Maharashtra", "found_state": "", "found_country": "India", "found_GPS_lat": "19.228149 N", "found_GPS_long": "72.845274 E", "found_year": 2016, "p_institution": { "institution_code": "DEHL", "institution_name": "Acharya Narendra Dev College", "institution_logo": "https://phagesdb.org/media/institutions/logo_du_QpufriF.png", "institution_url": "http://www.du.ac.in/du/index.php?page=acharya-narendra-dev-college", "institution_city": "", "institution_state": "", "institution_country": "", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "Isolated from a soil sample procured from Ashraf Clinic, Sewri, Mumbai in a state called Maharashtra, India. The protocol followed for isolation of the Mycobacteriophages was as described in the manual \"Phagehunting Teacher Workshop-2012\". The work was carried out in Dr.Urmi Bajpai's laboratary at Department of Biomedical Science, Acharya Narendra Dev College, University of Delhi under PHAGE DISCOVERY Research Project (PDRP).", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "B", "temperate": false }, "psubcluster": { "subcluster": "B1" }, "morphotype": "SIPHO", "plaque_notes": "The shape of the plaque which is circular ( 3 mm ) in diameter", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2016-05-03", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 957, "finishing_reactions": 0, "genome_length": 69082, "gcpercent": "66.3", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 103, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "KY385380", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Ashraf_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Ashraf.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Ashraf_Plaque_Thumb_UhDq5u8.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2016-05-02T13:33:58-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Ashton", "old_names": "Zander", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Hannah Grzech", "found_city": "Tampa", "found_state": "FL", "found_country": "USA", "found_GPS_lat": "28.06 N", "found_GPS_long": "82.41967 W", "found_year": 2017, "p_institution": { "institution_code": "USFL", "institution_name": "University of South Florida", "institution_logo": "https://phagesdb.org/media/institutions/UniversityofSouthFlorida.jpg", "institution_url": "http://www.usf.edu/", "institution_city": "Tampa", "institution_state": "FL", "institution_country": "USA", "institution_latitude": "28.058438", "institution_longitude": "-82.41395" }, "enriched_sample": false, "discovery_notes": "The soil sample was collected from an area that had been under construction and they had just flattened the up-rooted ground. Also, it was right next to a water drain, so it was black, moist soil with a grey layer underneath. This phage was found through direct isolation.", "isolation_temperature": 34, "growth_notes": "", "pcluster": { "cluster": "EK", "temperate": null }, "psubcluster": { "subcluster": "EK2" }, "morphotype": "PODO", "plaque_notes": "Pin-sized often turbid plaques that grow very slowly. They are not perfectly round, and are difficult to count on a plaque assay.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2019-08-21", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 46, "finishing_reactions": 0, "genome_length": 54519, "gcpercent": "60.1", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 56, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Ashton_CompleteNotes_2J21TeT.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Ashton_Minimal_Final_znTURbC.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Ashton_Authors_sMeKRsC.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Ashton_CoverSheet_E6qwtrB.pdf", "submitted_annotation_date": "2020-03-03T23:57:31-05:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Ashton.gbf", "qced_genbank_file_date": "2020-03-03T23:57:31-05:00", "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": { "title": "Genome Sequences of Akoni, Ashton, and Truong, Podoviridae Bacteriophages Isolated from Microbacterium foliorum", "abstract": "Cluster EK2 Akoni, Ashton, and Truong are lytic Podoviridae actinobacteriophages that were isolated from soil in Florida using Microbacterium foliorum NRRL B-24224 as the host. The genomes are 54,307 bp, 54,560 bp, and 54,309 bp, respectively, and are 60% GC rich. Each genome contains a novel 13,464-bp gene that encompasses 25% of the genome.", "full_author_list": "Fadia Fakhre, Raquel M Gonzalez, Elisabeth K Howells, Louis Otero, Kaili N Pegoraro, Kobe C Robichaux, Alexandra Rodier, Carter L Sadowski, Victoria P Carter, Amber D Gray, Grace C Klein, Catherine Lebosada, Chris M Miklaszewski, Sydnen, Michael A Chase, Caitlyn N Coleman, Brooke Corbett, Manoela O Cunha, Marshall Daffner, Caitlyn J Deam, Laura J Deloso, Anthony M DeSomma, Juan Pinera Gallardo, Mae E Horne, Olivia Kanahan, Victor Lam, Ryan T Morgan, Emilee M Mustor, Migdalia Ricardo-Iglesias, Chloe J Sartorio, Ava R Sciacchitano, Alex W Tvenstrup, Audrey R Wood, Richard S Pollenz", "short_author_list": "Fakhre et al", "article_url": "https://pubmed.ncbi.nlm.nih.gov/34264121/", "journal": "Microbiology Resource Announcements", "journal_volume": "10", "journal_issue": "28", "journal_pages": "", "pub_year": "2021", "pubmed_id": "34264121" }, "in_genbank": true, "genbank_accession": "MT310875", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Ashton_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Ashton_EMPic.png", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Ashton.fasta", "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Ashton_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2017-10-30T07:47:00-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "AshtonG", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "the phage was named after the reasearcher.", "finder_name": "Ashton Gabriel", "found_city": "Washington", "found_state": "DC", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2016, "p_institution": { "institution_code": "HWRD", "institution_name": "Howard University", "institution_logo": "https://phagesdb.org/media/institutions/howard_university_logo2.jpg", "institution_url": "http://www.howard.edu/", "institution_city": "Washington", "institution_state": "DC", "institution_country": "USA", "institution_latitude": "38.922905", "institution_longitude": "-77.01943" }, "enriched_sample": null, "discovery_notes": "This soil sample was picked from soil around a tree at Howard University. It was a hot, sunny day in the first week of September 2016. The dirt sample was collected asseptically from about 5cm deep into the ground.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques formed by my phage were clear and circular.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2016-12-04T14:13:13-05:00", "date_modified": "2020-09-17T14:08:03-04:00" }, { "phage_name": "Ashu", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I named this phage after my Korean friend Andrew.", "finder_name": "Autumn Bertch", "found_city": "Bismarck", "found_state": "ND", "found_country": "USA", "found_GPS_lat": "46.725278 N", "found_GPS_long": "100.753056 W", "found_year": 2019, "p_institution": { "institution_code": "UMRY", "institution_name": "University of Mary", "institution_logo": "https://phagesdb.org/media/institutions/UniversityOfMary.jpg", "institution_url": "http://www.umary.edu/", "institution_city": "Bismarck", "institution_state": "ND", "institution_country": "USA", "institution_latitude": "46.721954", "institution_longitude": "-100.7531" }, "enriched_sample": false, "discovery_notes": "I found this phage underneath a tree under wet leaves. It was a cool, cloudy day.", "isolation_temperature": 39, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2019-12-12T09:00:00-05:00", "date_modified": "2020-09-17T14:11:48-04:00" }, { "phage_name": "Ashuan", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name Ashuan is a combination of Ashley and Juan, the two discoverers of this phage.", "finder_name": "Ashley Fowler, Juan De La Cruz", "found_city": "Pullman", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "46.725495 N", "found_GPS_long": "117.159917 W", "found_year": 2019, "p_institution": { "institution_code": "WSHS", "institution_name": "Washington State University", "institution_logo": "https://phagesdb.org/media/institutions/logo-washington-state.jpg", "institution_url": "http://www.wsu.edu/", "institution_city": "Pullman", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "46.732132", "institution_longitude": "-117.1544" }, "enriched_sample": false, "discovery_notes": "The soil sample was collected on October 1st at 12:30 AM. It was collected at a depth of roughly four inches from Semi-moist soil at the edge of a large patch of grass. The temperature was 37°F.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "In the plaque assay, the phage was virulent with large round plaques with clearly-defined edges.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2019-11-20T16:37:06-05:00", "date_modified": "2019-11-20T16:37:06-05:00" }, { "phage_name": "Ashura", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "My cat's name is Ashura.\r\n\"Ah-shur-ah\"", "finder_name": "Taylor Guilford", "found_city": "Conway", "found_state": "SC", "found_country": "USA", "found_GPS_lat": "33.7997 N", "found_GPS_long": "79.02147 W", "found_year": 2024, "p_institution": { "institution_code": "COCA", "institution_name": "Coastal Carolina University", "institution_logo": "https://phagesdb.org/media/institutions/CoastalCarolinaUniversity.png", "institution_url": "http://www.coastal.edu/", "institution_city": "Conway", "institution_state": "SC", "institution_country": "USA", "institution_latitude": "33.795617", "institution_longitude": "-79.01207" }, "enriched_sample": true, "discovery_notes": "Environmental sample was obtained from the potted soil of a eucalyptus plant. Soil had been reused for the past three years with different plants.", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaques aren't perfect circles, but they are all a circular shape. Each plaque has a lighter halo surrounding the center of the plaque. A dark lining surrounds each halo.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-11-18T12:57:50-05:00", "date_modified": "2025-04-04T11:37:24-04:00" }, { "phage_name": "Ashwanth", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Ashwanth Kumar", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.44 N", "found_GPS_long": "79.95 W", "found_year": 2016, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Isolated plaque, suggesting possibly low concentration of phages in sample. Turns out, the isolation of this phage has proved to be essentially fruitless. This could be due to its instability in phage buffer, or the extremely low concentration of phages making it highly likely to yield minimal results. There was never an opportunity to move beyond serial dilutions as a stable phage sample could never be obtained. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Ashwanth_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Ashwanth_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2016-10-24T12:16:59-04:00", "date_modified": "2020-09-17T14:07:42-04:00" }, { "phage_name": "Ashwin", "old_names": "", "program": null, "naming_notes": "", "finder_name": "Bhavna Gordhan", "found_city": "Johannesburg", "found_state": "", "found_country": "South Africa", "found_GPS_lat": "26.1777 S", "found_GPS_long": "28.28386 E", "found_year": 2022, "p_institution": { "institution_code": "WITS", "institution_name": "University of the Witwatersrand", "institution_logo": "https://phagesdb.org/media/institutions/WITS.png", "institution_url": "https://www.wits.ac.za/", "institution_city": "Johannesburg", "institution_state": "", "institution_country": "South Africa", "institution_latitude": "26.193191 S", "institution_longitude": "28.031503 E" }, "enriched_sample": false, "discovery_notes": "The sample was taken from a moist, freshly dug up soil under a lavender bush", "isolation_temperature": 37, "growth_notes": "", "pcluster": { "cluster": "O", "temperate": false }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Small plaques (ca. 1mm) with halo", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2023-07-21", "seq_facility": null, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 764, "finishing_reactions": 0, "genome_length": 69731, "gcpercent": "65.5", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 4, "overhang_sequence": "GTCT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 122, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Ashwin_Minimal_Final_tFHHUFL.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2024-05-12T08:09:55-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Ashwin_minimal_2_flat.gbf.txt", "qced_genbank_file_date": "2024-05-12T08:09:55-04:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "PP763601", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Ashwin_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Ashwin_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Ashwin.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Ashwin_Plaque_thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Ashwin_EMpic_Thumb.jpg", "dnam_file": null, "date_added": "2023-07-21T11:07:22-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Ashy", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named after the discoverer.", "finder_name": "Ashlyn Walton", "found_city": "Harrisonburg", "found_state": "VA", "found_country": "United States", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2019, "p_institution": { "institution_code": "JAMU", "institution_name": "James Madison University", "institution_logo": "https://phagesdb.org/media/institutions/james_madisonp.png", "institution_url": "http://www.jmu.edu/", "institution_city": "Harrisonburg", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "38.435340", "institution_longitude": "-78.86975" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": { "short_name": "JMU", "facility_name": "James Madison University", "contact_person": "Steve Cresawn", "shipping_address": "", "facility_website": "" }, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2019-12-05T15:10:19-05:00", "date_modified": "2024-02-25T15:28:15-05:00" }, { "phage_name": "AsiagoBagel", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Claire Moran and Mariah Davila", "found_city": "Pullman", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "46.72941 N", "found_GPS_long": "117.16503 W", "found_year": 2022, "p_institution": { "institution_code": "WSHS", "institution_name": "Washington State University", "institution_logo": "https://phagesdb.org/media/institutions/logo-washington-state.jpg", "institution_url": "http://www.wsu.edu/", "institution_city": "Pullman", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "46.732132", "institution_longitude": "-117.1544" }, "enriched_sample": null, "discovery_notes": "Found in slightly damp soil near a highly trafficked walkway.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-04-21T13:02:28-04:00", "date_modified": "2022-04-21T13:02:28-04:00" }, { "phage_name": "AsianInvasion", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Ritesh Patel", "found_city": "Birmingham", "found_state": "AL", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2012, "p_institution": { "institution_code": "UALB", "institution_name": "University of Alabama at Birmingham", "institution_logo": "https://phagesdb.org/media/institutions/uab-01.jpg", "institution_url": "http://www.uab.edu/", "institution_city": "Birmingham", "institution_state": "AL", "institution_country": "USA", "institution_latitude": "33.496744", "institution_longitude": "-86.80949" }, "enriched_sample": true, "discovery_notes": "Sample was collected from a soil/mulch sample beside a tree from UAB minipark.\r\nThe soil was collected after digging 3 inches into the ground. Soil was kind of wet.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "plaque diameter was around 4mm long. However diameter changed to about 7mm long on one phage titer assay. Otherwise phage diameter was consistent. Also, plaques were always clear.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": { "short_name": "VCU", "facility_name": "Virginia Commonwealth University Nucleic Acids Research Facilities", "contact_person": "", "shipping_address": "", "facility_website": "http://www.narf.vcu.edu/" }, "seq_method": { "short_name": "454", "method_name": "454" }, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2012-11-28T16:16:11-05:00", "date_modified": "2017-09-12T10:27:27-04:00" }, { "phage_name": "Asiantix", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Phage Asiantix is isolated, purified by two Asian students.", "finder_name": "Jae Hwan Shin, Kim Vuong", "found_city": "Ellicott City", "found_state": "MD", "found_country": "United States", "found_GPS_lat": "39.296716 N", "found_GPS_long": "76.781845 W", "found_year": 2019, "p_institution": { "institution_code": "UMBC", "institution_name": "University of Maryland, Baltimore County", "institution_logo": "https://phagesdb.org/media/institutions/UMBC_Logo.png", "institution_url": "http://www.umbc.edu/", "institution_city": "Baltimore", "institution_state": "MD", "institution_country": "USA", "institution_latitude": "39.256328", "institution_longitude": "-76.71072" }, "enriched_sample": false, "discovery_notes": "Soil sample had been harvested from Patapsco Valley State Park,MD 21043 on a sunny day, temperature of 84F.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Cloudy plaques, a diameter of ~2mm", "lysogeny_notes": "After streak plates and patch assays of lysogeny only plates, and experimental plates, Asiantix is likely a virulent phage.", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Streptomyces", "species": "mirabilis", "strain_name": "NRRL B-2400", "strain_species": { "id": 71, "genus": "Streptomyces", "species_name": "mirabilis", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 71, "genus": "Streptomyces", "species_name": "mirabilis", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asiantix_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Asiantix_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Asiantix_Digest.jpg", "vdigest_file": "https://phagesdb.org/media/vDigestPics/Asiantix_VirtualDigest.jpg", "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Asiantix_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Asiantix_TEM.jpg", "dnam_file": null, "date_added": "2019-10-07T23:08:15-04:00", "date_modified": "2020-09-17T14:11:10-04:00" }, { "phage_name": "Asimov", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "We had to make sure that it wasn't a robot... It wasn't.", "finder_name": "Declan Mulcahy, John Fanning", "found_city": "Boulder", "found_state": "CO", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2018, "p_institution": { "institution_code": "UCBO", "institution_name": "University of Colorado Boulder", "institution_logo": "https://phagesdb.org/media/institutions/Colorado.jpg", "institution_url": "http://www.colorado.edu/", "institution_city": "Boulder", "institution_state": "CO", "institution_country": "USA", "institution_latitude": "40.007799", "institution_longitude": "-105.2659" }, "enriched_sample": false, "discovery_notes": "Underneath pine tree, backyard off off 44th and Table Mesa. Soil was in moist and shaded environment with much foliage nearby", "isolation_temperature": 13, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Small lytic plaques approximately 2-4mm in diameter", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asimov_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Asimov_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Asimov_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Asimov_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2018-12-11T19:18:42-05:00", "date_modified": "2020-09-17T14:10:39-04:00" }, { "phage_name": "Asis", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Asis is from the first initials of my name and my three children: Strummer, Ivy, and Steven.", "finder_name": "Analana Hays Stanley", "found_city": "Shady Shores", "found_state": "TX", "found_country": "Unites States of America", "found_GPS_lat": "33.151017 N", "found_GPS_long": "97.022097 W", "found_year": 2021, "p_institution": { "institution_code": "UNTD", "institution_name": "University of North Texas", "institution_logo": "https://phagesdb.org/media/institutions/UNT-01.jpg", "institution_url": "http://www.unt.edu/", "institution_city": "Denton", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "33.207825", "institution_longitude": "-97.15253" }, "enriched_sample": true, "discovery_notes": "The weather was sunny, the area was under dappled shade from the tree canopy, the sky was clear, and the ground was dry. The collection location is about 150 meters from Lake Lewisville. The area floods when the lake is very high. In recent years it has flooded in the spring, usually in March.", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "BG", "temperate": false }, "psubcluster": null, "morphotype": "", "plaque_notes": "Typical plaques are approximately .75 mm in diameter. Plaques are cloudy with a slight diffused clearing in the center of the larger plaques. The edges are not sharp but are diffused as well, shape is roughly circular.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2021-12-06", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 692, "finishing_reactions": 0, "genome_length": 57239, "gcpercent": "69.2", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 72, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Asis_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2022-05-12T17:08:41-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Asis_flat.txt", "qced_genbank_file_date": "2022-05-12T17:08:41-04:00", "isolation_host": { "genus": "Streptomyces", "species": "griseus", "strain_name": "ATCC 10137", "strain_species": { "id": 4, "genus": "Streptomyces", "species_name": "griseus", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "10137", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 4, "genus": "Streptomyces", "species_name": "griseus", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "ON526979", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asis_Plaque", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/Asis_Digest.pdf", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Asis.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-11-03T09:05:19-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Asiski", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Asiskî is an indigenous word for soil/dirt.", "finder_name": "Sydney Brown", "found_city": "Ottawa", "found_state": "", "found_country": "Canada", "found_GPS_lat": "45.4187 N", "found_GPS_long": "75.6695 W", "found_year": 2024, "p_institution": { "institution_code": "UOTT", "institution_name": "University of Ottawa", "institution_logo": "https://phagesdb.org/media/institutions/uottawa.png", "institution_url": "", "institution_city": "Ottawa", "institution_state": "", "institution_country": "Canada", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "The phage was found from a pile of garden soil on September 23rd, 2024.", "isolation_temperature": 17, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques are small and have a bullseye morphology.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asiski_Plaque.pdf", "em_file": "https://phagesdb.org/media/emPics/Asiski_EMPic.pdf", "digest_file": "https://phagesdb.org/media/digestPics/Asiski_Digest.pdf", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Asiski_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Asiski_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2024-10-14T15:20:30-04:00", "date_modified": "2025-07-29T11:35:31-04:00" }, { "phage_name": "Askeptic", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Rebecca Patterson, Ethan Fuller", "found_city": "Spokane", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "47.666271 N", "found_GPS_long": "117.406288 W", "found_year": 2019, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 22, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Capsid diameter was 45nm and tail length was 105 nm.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Askeptic_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Askeptic_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Askeptic_Digest_tOqLxCM", "vdigest_file": "https://phagesdb.org/media/vDigestPics/Askeptic_VirtualDigest", "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Askeptic_Plaque.png", "em_thumb_file": "https://phagesdb.org/media/emPics/Askeptic_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2019-04-12T22:02:51-04:00", "date_modified": "2020-09-17T14:11:48-04:00" }, { "phage_name": "Aslan", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I named it after one of the protagonists in C.S. Lewis' Chronicles of Narnia.", "finder_name": "James Seefeldt", "found_city": "West Fargo", "found_state": "ND", "found_country": "United States of America", "found_GPS_lat": "46.810149 N", "found_GPS_long": "96.895233 W", "found_year": 2021, "p_institution": { "institution_code": "MSUM", "institution_name": "Minnesota State University Moorhead", "institution_logo": "https://phagesdb.org/media/institutions/MSUM.png", "institution_url": "https://www.mnstate.edu/", "institution_city": "Moorhead", "institution_state": "MN", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "Found in a garden which had been fertilized with bone-meal fertilizer, and perlite. Extremely cold on the day of sample collection.", "isolation_temperature": -27, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-03-10T15:28:55-05:00", "date_modified": "2021-03-12T09:37:07-05:00" }, { "phage_name": "Asmart", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The phage was designated Asmart after the colleague who initially isolated it, Alexandria Smart.", "finder_name": "Zoe Wright", "found_city": "Santa Cruz", "found_state": "CA", "found_country": "USA", "found_GPS_lat": "36.969861 N", "found_GPS_long": "122.023 W", "found_year": 2016, "p_institution": { "institution_code": "UCSC", "institution_name": "University of California, Santa Cruz", "institution_logo": "https://phagesdb.org/media/institutions/UCSC.jpg", "institution_url": "http://www.ucsc.edu/", "institution_city": "Santa Cruz", "institution_state": "CA", "institution_country": "USA", "institution_latitude": "36.991665", "institution_longitude": "-122.0608" }, "enriched_sample": null, "discovery_notes": "soil sample was collected from the shore of the San Lorenzo River by the San Lorenzo St. overpass. ", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "F", "temperate": true }, "psubcluster": { "subcluster": "F1" }, "morphotype": "SIPHO", "plaque_notes": "Circular clear plaques approximately 1um in size when incubated on L-agar at 37C. Plaque had low turbidity, with no haloes or bull's-eye morphology. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2016-12-06T19:09:57-05:00", "date_modified": "2016-12-06T19:09:57-05:00" }, { "phage_name": "Asmi", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The reason I chose Asmi for the name of the phage is because I was told that naming the phage was like naming one's child in which the name Asmi is something I would use. In addition, this name has Nepali origins and since I am from Nepal, I would like the phage name to have some sort of connection. The name in Nepali means a strong person so I hope that this phage will be strong.", "finder_name": "Abhyarthana Maharjan", "found_city": "Fort Worth", "found_state": "TX", "found_country": "United States", "found_GPS_lat": "32.93139 N", "found_GPS_long": "97.30975 W", "found_year": 2023, "p_institution": { "institution_code": "UNTD", "institution_name": "University of North Texas", "institution_logo": "https://phagesdb.org/media/institutions/UNT-01.jpg", "institution_url": "http://www.unt.edu/", "institution_city": "Denton", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "33.207825", "institution_longitude": "-97.15253" }, "enriched_sample": true, "discovery_notes": "The soil was obtained at Texas Health Alliance Hospital at 4:27 pm on Sunday in Fort Worth, Texas. It was collected near the sidewalk. The temperature was 52 degrees Fahrenheit with a humidity of 37%. The texture of the soil was dry.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "1mm in diameter, round, and clear.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Streptomyces", "species": "baarnensis", "strain_name": "NRRL B-2842", "strain_species": { "id": 90, "genus": "Streptomyces", "species_name": "baarnensis", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 90, "genus": "Streptomyces", "species_name": "baarnensis", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asmi_Plaque.png", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/Asmi_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-03-09T08:18:59-05:00", "date_modified": "2024-02-25T15:28:20-05:00" }, { "phage_name": "Asmora", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Asmora is short for Asmoranomardicadaistinaculdacar which is a card name from Magic the Gathering", "finder_name": "Brandon Rider", "found_city": "Manhattan", "found_state": "KS", "found_country": "United States of America", "found_GPS_lat": "39.19268 N", "found_GPS_long": "96.584614 W", "found_year": 2021, "p_institution": { "institution_code": "KSSU", "institution_name": "Kansas State University", "institution_logo": "https://phagesdb.org/media/institutions/kstate.jpg", "institution_url": "http://www.k-state.edu/", "institution_city": "Manhattan", "institution_state": "KS", "institution_country": "United States", "institution_latitude": "39.197485", "institution_longitude": "-96.58606" }, "enriched_sample": true, "discovery_notes": "Found under the trees outside of Ackert Hall. Dug about 4cms down before collection.", "isolation_temperature": 24, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Rounded, 1mm in diameter, cloudy", "lysogeny_notes": "Further discoveries lead to the conclusion it is a Lytic virus", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "CAG3", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "Isoniazid-resistant mutant of G terrae 3612" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asmora_Plaque_t8PpjlP.jpg", "em_file": "https://phagesdb.org/media/emPics/Asmora_EMPic_rrYTVPi.jpeg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-10-29T14:43:13-04:00", "date_modified": "2022-03-16T11:02:15-04:00" }, { "phage_name": "Asparagoose", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Alison St. Peter, Emerson Salguero", "found_city": "Bangor", "found_state": "ME", "found_country": "United States", "found_GPS_lat": "44.8175 N", "found_GPS_long": "68.7781 W", "found_year": 2025, "p_institution": { "institution_code": "UMHC", "institution_name": "University of Maine, Honors College", "institution_logo": "https://phagesdb.org/media/institutions/crest-umaine-honors.jpg", "institution_url": "http://www.honors.umaine.edu/", "institution_city": "Orono", "institution_state": "ME", "institution_country": "USA", "institution_latitude": "44.897979", "institution_longitude": "-68.66874" }, "enriched_sample": true, "discovery_notes": "Garden top soil, 71 degrees, sunny, 52% humidity, soil in open sunlight underneath azalia bush", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "~3-6 mm; some are smaller some larger, but average about that size, thick turbid rings around ~ 1-3 mm clear center (depending on size of plaque)", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. 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", "strain_name": "ATCC 21022", "strain_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "21022", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. 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Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2012-10-25T13:28:57-04:00", "date_modified": "2017-09-12T10:27:27-04:00" }, { "phage_name": "Asraqak", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "This is the Inupiaq word for Cranberry. 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"morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asraqak_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Asraqak_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Asraqak_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-10-26T09:12:56-04:00", "date_modified": "2024-02-25T15:28:07-05:00" }, { "phage_name": "Asrat206", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named after one of my early usernames in video-games.", "finder_name": "Salah Hussein Aly", "found_city": "Ottawa", "found_state": "", "found_country": "Canada", "found_GPS_lat": "45.464945 N", "found_GPS_long": "75.603381 W", "found_year": 2024, "p_institution": { "institution_code": "UOTT", "institution_name": "University of Ottawa", "institution_logo": "https://phagesdb.org/media/institutions/uottawa.png", "institution_url": "", "institution_city": "Ottawa", "institution_state": "", "institution_country": "Canada", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "Near the border of the river of Ottawa in rocky sand.", "isolation_temperature": 28, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "NRRL B-4425", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asrat206_Plaque.PNG", "em_file": "https://phagesdb.org/media/emPics/Asrat206_EMPic.PNG", "digest_file": "https://phagesdb.org/media/digestPics/Asrat206_Digest.PNG", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-10-14T15:14:28-04:00", "date_modified": "2025-04-04T11:37:33-04:00" }, { "phage_name": "AsraZer", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Parents last names.", "finder_name": "Samy Asraoui", "found_city": "Ottawa", "found_state": "", "found_country": "Canada", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2019, "p_institution": { "institution_code": "UOTT", "institution_name": "University of Ottawa", "institution_logo": "https://phagesdb.org/media/institutions/uottawa.png", "institution_url": "", "institution_city": "Ottawa", "institution_state": "", "institution_country": "Canada", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "Collected from people", "isolation_temperature": 22, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Bulls eye plaque that is small-medium sized.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AsraZer_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/AsraZer_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/AsraZer_Digest.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/AsraZer_Plaque_Thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/AsraZer_EMPic_Thumb.png", "dnam_file": null, "date_added": "2019-11-29T10:47:15-05:00", "date_modified": "2020-09-17T14:11:29-04:00" }, { "phage_name": "Asriel", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The virus was named after a character from the video game Undertale.", "finder_name": "Sierra Davis", "found_city": "Rock Hill", "found_state": "SC", "found_country": "USA", "found_GPS_lat": "34.9401 N", "found_GPS_long": "81.0316 W", "found_year": 2016, "p_institution": { "institution_code": "WNTH", "institution_name": "Winthrop University", "institution_logo": "https://phagesdb.org/media/institutions/WinthropUniversity.jpg", "institution_url": "http://www.winthrop.edu/", "institution_city": "Rock Hill", "institution_state": "SC", "institution_country": "USA", "institution_latitude": "34.939523", "institution_longitude": "-81.03154" }, "enriched_sample": null, "discovery_notes": "Weather was humid (31.6 degrees Celsius) and soil was dry.", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "E", "temperate": true }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "-Round, clear plaques\r\n-About 2 mm in diameter\r\n-Phage heads were 74.146 nm in diameter on average\r\n-Phage tails were about 278.1762 nm in ln on average", "lysogeny_notes": "-Likely a lytic virus\r\n-TEM Photos reveal siphoviridae shape", "seq_finished": true, "date_finished": "2016-11-30", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 4165, "finishing_reactions": 0, "genome_length": 74594, "gcpercent": "62.8", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 9, "overhang_sequence": "CGCTTGTCA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 142, "num_tRNAs": 2, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Asriel_CompleteNotes.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Asriel_Minimal_Final_cJMEvwg.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Asriel_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Asriel_CoverSheet.pdf", "submitted_annotation_date": "2018-01-22T09:50:02-05:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Asriel_Flat_wtAml6H.txt", "qced_genbank_file_date": "2018-01-22T09:50:02-05:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MG872831", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asriel_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Asriel_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Asriel_Digest.jpg", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Asriel.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Asriel_Plaque_Thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/Asriel_EMPic_Thumb.png", "dnam_file": "https://phagesdb.org/media/dnam/Asriel.dnam5", "date_added": "2016-11-14T14:22:27-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Assassinator", "old_names": "Assassinator", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The phage produced many clear plaques when plated, so we named it Assassinator because it killed a lot of the bacteria. ", "finder_name": "Ashley Moineau and Taaniel Kiidi", "found_city": "Orono", "found_state": "ME", "found_country": "USA", "found_GPS_lat": "44.9 N", "found_GPS_long": "68.66 W", "found_year": 2014, "p_institution": { "institution_code": "UMHC", "institution_name": "University of Maine, Honors College", "institution_logo": "https://phagesdb.org/media/institutions/crest-umaine-honors.jpg", "institution_url": "http://www.honors.umaine.edu/", "institution_city": "Orono", "institution_state": "ME", "institution_country": "USA", "institution_latitude": "44.897979", "institution_longitude": "-68.66874" }, "enriched_sample": true, "discovery_notes": "Discovered in Littlefield Garden on the University of Maine campus in Orono. ", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "A", "temperate": true }, "psubcluster": { "subcluster": "A3" }, "morphotype": "SIPHO", "plaque_notes": "2 mm in diameter\r\nclear plaque formation\r\n", "lysogeny_notes": "84.5% lysogeny ", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Assassinator_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Assassinator_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Assassinator_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Assassinator_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2014-12-03T11:46:55-05:00", "date_modified": "2020-09-17T14:05:44-04:00" }, { "phage_name": "Asta", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I chose the name Asta, because he is my favorite anime character and I feel identified with him, because he is a boy who is despised and underestimated for not having magical powers in a place where magic is the most important thing, and in the end it turned out being one of the most powerful and managed to be admired and respected for fighting for his goals with great determination.", "finder_name": "Fernando J. Inchausty Velez", "found_city": "Caguas", "found_state": "PR", "found_country": "United States", "found_GPS_lat": "18.161667 N", "found_GPS_long": "66.088889 W", "found_year": 2022, "p_institution": { "institution_code": "UTRB", "institution_name": "Universidad Ana G. Mendez, Gurabo campus", "institution_logo": "https://phagesdb.org/media/institutions/uturabo.jpg", "institution_url": "", "institution_city": "Gurabo", "institution_state": "PR", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "The earth was moist and cool, with manure made from egg shells, potato peels, and horse feces. They were presented with moderate plant growth.", "isolation_temperature": 23, "growth_notes": "", "pcluster": { "cluster": "EA", "temperate": false }, "psubcluster": { "subcluster": "EA1" }, "morphotype": "", "plaque_notes": "In the morphology of the plaque it can be seen that they do not have a halo, they are small, quite turbid and there are a lot of them.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2023-01-19", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 1137, "finishing_reactions": 0, "genome_length": 41555, "gcpercent": "63.4", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 62, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Asta_CompleteNotes.xlsx", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Asta_Minimal_Final_SK3isHU.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Asta_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Asta_CoverSheet.docx", "submitted_annotation_date": "2024-06-20T17:15:22-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Asta_flat.txt", "qced_genbank_file_date": "2024-06-20T17:15:22-04:00", "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "PP978817", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asta_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Asta.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-12-20T07:54:45-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Astalavista", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name Astalavista is a play on the Spanish phrase “hasta la vista” which means “see you later.” We had a tumultuous start and encountered a lot of setbacks and disappointments during the process of isolating a phage. But despite the disappointments we continued on and said “see you later” to all of the negative things that occurred.", "finder_name": "Reagan Chastain, Olivia Clark, and Austin Jett", "found_city": "Longview", "found_state": "TX", "found_country": "United States", "found_GPS_lat": "32.463333 N", "found_GPS_long": "94.7275 W", "found_year": 2023, "p_institution": { "institution_code": "LETO", "institution_name": "LeTourneau University", "institution_logo": "https://phagesdb.org/media/institutions/LeTourneau.png", "institution_url": "http://www.letu.edu/", "institution_city": "Longview", "institution_state": "TX", "institution_country": "United States", "institution_latitude": "32.466083", "institution_longitude": "-94.72640" }, "enriched_sample": true, "discovery_notes": "At 4:35 pm CDT on August 22, 2023, the soil sample was collected from around the pond behind The Glaske Center for Engineering, Science, and Technology at LeTourneau University. The hole was approximately 2.54 cm deep, and the soil was dark, moist, and contained lots of roots. The weather was sunny with a clear sky and ambient temperature of 38.9℃.", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Astalavista_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/rsz_pic1_rea.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/rsz_astalavista_tem_thumbnail.jpg", "dnam_file": null, "date_added": "2023-09-19T09:08:12-04:00", "date_modified": "2024-02-25T15:28:12-05:00" }, { "phage_name": "AStar", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name is a combination of my name. ", "finder_name": "Albany P. Starman", "found_city": "Lincoln", "found_state": "NE", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2016, "p_institution": { "institution_code": "NEBW", "institution_name": "Nebraska Wesleyan University", "institution_logo": "https://phagesdb.org/media/institutions/nwu_logo2.jpg", "institution_url": "http://www.nebrwesleyan.edu/", "institution_city": "Lincoln", "institution_state": "NE", "institution_country": "USA", "institution_latitude": "40.839041", "institution_longitude": "-96.64760" }, "enriched_sample": null, "discovery_notes": "Sample taken from a thin patch of grass. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "paraoxydans", "strain_name": "NWU1", "strain_species": { "id": 45, "genus": "Microbacterium", "species_name": "paraoxydans", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "Isolated by Nebraska Wesleyan University" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 45, "genus": "Microbacterium", "species_name": "paraoxydans", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AStar_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/AStar_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/AStar_Plaque.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/AStar_EMPic.jpg", "dnam_file": null, "date_added": "2016-12-01T23:01:50-05:00", "date_modified": "2020-09-17T14:07:53-04:00" }, { "phage_name": "Astaroth", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "In mythology Ashtaroth is sometimes refered to the as the lord of rot. Since I collected it from a compost pile I thought it was a fitting name. I left out the \"H\" though.", "finder_name": "Travis Dunn", "found_city": "South Boston", "found_state": "VA", "found_country": "USA", "found_GPS_lat": "36.671767 N", "found_GPS_long": "78.814961 W", "found_year": 2012, "p_institution": { "institution_code": "VACU", "institution_name": "Virginia Commonwealth University", "institution_logo": "https://phagesdb.org/media/institutions/VCU.jpg", "institution_url": "http://www.vcu.edu/", "institution_city": "Richmond", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "37.549255", "institution_longitude": "-77.45341" }, "enriched_sample": false, "discovery_notes": "Discovered in a compost pile from a 9 inch depth.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Clear centers with turbid halos. 5mm diamater halo included.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Astaroth_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Astaroth_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Astaroth_Plaque_Thumbs.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Astaroth_EMPic_Thumbs.jpg", "dnam_file": null, "date_added": "2012-11-15T13:07:07-05:00", "date_modified": "2017-09-12T10:27:31-04:00" }, { "phage_name": "Astartes", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named after a character in Warhammer 40K", "finder_name": "Jack Guion & Abby McClellan", "found_city": "Oxford", "found_state": "OH", "found_country": "United States", "found_GPS_lat": "39.51674 N", "found_GPS_long": "84.72861 W", "found_year": 2023, "p_institution": { "institution_code": "MUOH", "institution_name": "Miami University", "institution_logo": "https://phagesdb.org/media/institutions/miami-university-logo.gif", "institution_url": "http://www.miami.muohio.edu/", "institution_city": "Oxford", "institution_state": "OH", "institution_country": "USA", "institution_latitude": "39.510802", "institution_longitude": "-84.73085" }, "enriched_sample": true, "discovery_notes": "see Abby McClellan notes (Jack used Abby's soil sample)", "isolation_temperature": 24, "growth_notes": "", "pcluster": { "cluster": "EK", "temperate": null }, "psubcluster": { "subcluster": "EK2" }, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2024-01-23", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 151, "finishing_reactions": 0, "genome_length": 54104, "gcpercent": "59.7", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 56, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Astartes_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2024-05-28T09:43:16-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Astartes_flat.txt", "qced_genbank_file_date": "2024-05-28T09:43:16-04:00", "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "PP978838", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Astartes_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Astartes_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Astartes.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-11-27T13:38:58-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Asten", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Kristen Masha, Ancel Mathew, Richard Hale", "found_city": "Las Vegas", "found_state": "NM", "found_country": "USA", "found_GPS_lat": "35.519565 N", "found_GPS_long": "105.248462 W", "found_year": 2013, "p_institution": { "institution_code": "UNTD", "institution_name": "University of North Texas", "institution_logo": "https://phagesdb.org/media/institutions/UNT-01.jpg", "institution_url": "http://www.unt.edu/", "institution_city": "Denton", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "33.207825", "institution_longitude": "-97.15253" }, "enriched_sample": true, "discovery_notes": "Discovered in the UNT-HHMI 2013 Summer Transitions Workshop", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "BD", "temperate": true }, "psubcluster": { "subcluster": "BD1" }, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2017-01-06", "seq_facility": { "short_name": "UNT", "facility_name": "University of North Texas", "contact_person": "Richard Hale/Lee Hughes", "shipping_address": "", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 305, "finishing_reactions": 0, "genome_length": 51571, "gcpercent": "65.7", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 11, "overhang_sequence": "CGGCCAGTGAT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 73, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Asten_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2019-01-15T21:23:49-05:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Asten_flat.txt", "qced_genbank_file_date": "2019-01-15T21:23:49-05:00", "isolation_host": { "genus": "Streptomyces", "species": "griseus", "strain_name": "ATCC 10137", "strain_species": { "id": 4, "genus": "Streptomyces", "species_name": "griseus", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "10137", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 4, "genus": "Streptomyces", "species_name": "griseus", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MK433276", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Asten_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Asten.fasta", "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Asten_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2013-10-05T11:52:14-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Asteria", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Asteria means star in Latin/Greek, but can also refer to the female Titan fo the nightime oracles and the stars. ", "finder_name": "Catherine Siu", "found_city": "Baltimore", "found_state": "MD", "found_country": "USA", "found_GPS_lat": "39.33135 N", "found_GPS_long": "76.619687 W", "found_year": 2018, "p_institution": { "institution_code": "JHOU", "institution_name": "Johns Hopkins University", "institution_logo": "https://phagesdb.org/media/institutions/johns_hopkins_university.png", "institution_url": "http://www.jhu.edu/", "institution_city": "Baltimore", "institution_state": "MD", "institution_country": "USA", "institution_latitude": "39.330171", "institution_longitude": "-76.62047" }, "enriched_sample": null, "discovery_notes": "Phage soil sample taken from in front of Fresh Food Cafe dining hall at JHU Homewood campus. Soil was located near a path, and there was evidence of footsteps on it. The soil was black and slightly wet, almost to the texture of clay. The surrounding mini garden had some shrubbery. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The phage in crowded conditions/high concentration will form many small completely cleared and distinct circular plaques. However in low concentrations, the small diameter of clear plaque will be surrounded by a large turbid ring. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asteria_Plaque.zip", "em_file": "https://phagesdb.org/media/emPics/Asteria_EMPic.zip", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Asteria_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2018-04-26T21:51:55-04:00", "date_modified": "2020-09-17T14:10:18-04:00" }, { "phage_name": "Asterin", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Morgan Britton", "found_city": "Oxford", "found_state": "OH", "found_country": "United States of America", "found_GPS_lat": "39.505 N", "found_GPS_long": "84.729 W", "found_year": 2025, "p_institution": { "institution_code": "MUOH", "institution_name": "Miami University", "institution_logo": "https://phagesdb.org/media/institutions/miami-university-logo.gif", "institution_url": "http://www.miami.muohio.edu/", "institution_city": "Oxford", "institution_state": "OH", "institution_country": "USA", "institution_latitude": "39.510802", "institution_longitude": "-84.73085" }, "enriched_sample": true, "discovery_notes": "Collected under a tree by a Creek beside Western Dining Common on Miami University's campus. Temperature outside was about 70 F and the soil was dry.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2025-10-17T09:34:22-04:00", "date_modified": "2025-10-17T09:34:22-04:00" }, { "phage_name": "Asterisk", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Eaden Chang", "found_city": "Sheperdsville", "found_state": "KY", "found_country": "United States", "found_GPS_lat": "37.922976 N", "found_GPS_long": "85.670048 W", "found_year": 2025, "p_institution": { "institution_code": "WEKU", "institution_name": "Western Kentucky University", "institution_logo": "https://phagesdb.org/media/institutions/wkucuptallrb.jpg", "institution_url": "http://www.wku.edu/", "institution_city": "Bowling Green", "institution_state": "KY", "institution_country": "USA", "institution_latitude": "36.985737", "institution_longitude": "-86.45552" }, "enriched_sample": true, "discovery_notes": "Collected on 8/30/25 19:35\r\n23° C\r\nClear weather conditions\r\nDry and dense soil\r\nUnderneath a tree", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Turbid plaques", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2025-09-26T09:17:32-04:00", "date_modified": "2025-09-26T09:17:32-04:00" }, { "phage_name": "AsteriskF", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I try to name this phage asteriskF because my last name's initial and my phage is from the sixth soil sample. \"F\" is the sixth letter. I think F is a cool letter. I wanted to use \"*F\" to name my phage. Since I could not use \"*\", I choose asteriskF as the name of this phage.", "finder_name": "Yichen Fu", "found_city": "blacksburg", "found_state": "VA", "found_country": "USA", "found_GPS_lat": "37.2262 N", "found_GPS_long": "80.4274 W", "found_year": 2015, "p_institution": { "institution_code": "VTEC", "institution_name": "Virginia Tech", "institution_logo": "https://phagesdb.org/media/institutions/VirginiaTech.png", "institution_url": "http://www.vt.edu/", "institution_city": "Blacksburg", "institution_state": "VA", "institution_country": "United States", "institution_latitude": "37.228453", "institution_longitude": "-80.42347" }, "enriched_sample": true, "discovery_notes": "I found it from tawny soil on the northern shore of duck pound. The temperature was 19.5℃.", "isolation_temperature": 19, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Size: 1.5mm\r\nAppearance: round,clear\r\nIncubation Time: 24 hr\r\nIncubation temp: 37C ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AsteriskF_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/AsteriskF_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/AsteriskF_Digest.bmp", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/234.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/1512010942.jpg", "dnam_file": null, "date_added": "2015-11-09T09:58:19-05:00", "date_modified": "2020-09-17T14:06:24-04:00" }, { "phage_name": "Asterius", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Asterius is the Minotaur of the Labyrinth in Greek mythology. He's quite an interesting character, and I thought that he should be represented in the phage database.", "finder_name": "Tobias Shaw", "found_city": "Columbus", "found_state": "OH", "found_country": "United States", "found_GPS_lat": "40.1 N", "found_GPS_long": "83.0 W", "found_year": 2023, "p_institution": { "institution_code": "HOPE", "institution_name": "Hope College", "institution_logo": "https://phagesdb.org/media/institutions/Hope.jpg", "institution_url": "http://www.hope.edu/", "institution_city": "Holland", "institution_state": "MI", "institution_country": "USA", "institution_latitude": "42.788980", "institution_longitude": "-86.10404" }, "enriched_sample": true, "discovery_notes": "Collected from soil underneath tomato plant roots in my backyard.", "isolation_temperature": 34, "growth_notes": "", "pcluster": { "cluster": "C", "temperate": false }, "psubcluster": { "subcluster": "C1" }, "morphotype": "MYO", "plaque_notes": "After 48 hours at 34 degrees Celcius, Asterius plaques show two distinct morphologies: one larger comet tail plaque type with a clear center and then increasingly turbid ring/tail, and a smaller pinprick plaque type with a clear center and turbid ring. The larger plaques have a diameter of about 1.5mm, and the smaller pinpricks have a diameter of about 0.3-0.5mm.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2024-01-02", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 525, "finishing_reactions": 0, "genome_length": 154871, "gcpercent": "64.7", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 235, "num_tRNAs": 32, "num_tmRNAs": 1, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Asterius_CompleteNotes.docx", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Asterius_Minimal_Final_R2w2V9c.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Asterius_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Asterius_CoverSheet.docx", "submitted_annotation_date": "2025-01-27T04:56:48-05:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Asterius_flat.txt", "qced_genbank_file_date": "2025-01-27T04:56:48-05:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "PV105552", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asterius_Plaque.jpeg", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/Asterius_Digest.png", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Asterius.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Asterius_Plaque_Thumb.png", "em_thumb_file": null, "dnam_file": null, "date_added": "2023-09-27T08:23:48-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Asterix", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "When I saw the small morphology of my plaques, I wanted a fun name which would represent the tiny but mighty nature of my phage. I named my phage after the cartoon character Asterix, from the sentimental comic Asterix and Obelix.", "finder_name": "Thea E Trosclair and Lia Y Schwartz", "found_city": "Somerville", "found_state": "MA", "found_country": "USA", "found_GPS_lat": "42.403688 N", "found_GPS_long": "71.12105 W", "found_year": 2022, "p_institution": { "institution_code": "TFTS", "institution_name": "Tufts University", "institution_logo": "https://phagesdb.org/media/institutions/Tufts_univ_blue_KocimAw.png", "institution_url": "https://www.tufts.edu/", "institution_city": "Medford", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "The soil was collected from the Tufts University Latin Way community garden. The soil was dark, fine, sandy and dense.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "The morphology of the plaque is very small and circular as well as clear.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "rubripertincta", "strain_name": "NRRL B-16540", "strain_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asterix_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/Asterix_EMPic.png", "digest_file": "https://phagesdb.org/media/digestPics/Asterix_Digest.pdf", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Asterix_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Asterix_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2022-12-06T14:40:40-05:00", "date_modified": "2025-04-04T11:37:34-04:00" }, { "phage_name": "Astero", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Aster comes from the word star in Greek and Latin.", "finder_name": "Baker, Lydia", "found_city": "West Lafayette", "found_state": "IN", "found_country": "United States", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2023, "p_institution": { "institution_code": "PURD", "institution_name": "Purdue University", "institution_logo": "https://phagesdb.org/media/institutions/PURDUE__.jpg", "institution_url": "http://www.purdue.edu/", "institution_city": "West Lafayette", "institution_state": "IN", "institution_country": "USA", "institution_latitude": "40.423954", "institution_longitude": "-86.92116" }, "enriched_sample": null, "discovery_notes": "The soil was collected from my friend’s yard in West Lafayette, Indiana. It was collected on 8/30/2023 at 8:30 pm. The GPS coordinates for this location are 40.46701 N and 86.95118 W. It was collected from 2-3 inches below the surface. It was sunny and around 18C, with 63% humidity. The soil was somewhat dry and crumbly at the time it was collected. There was 0” of rain in the last 24 hours.", "isolation_temperature": 28, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Small circular plauqes", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-09-22T08:22:41-04:00", "date_modified": "2024-02-25T15:28:36-05:00" }, { "phage_name": "Asteroid", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named after the New England Aster which was growing near the collection site.", "finder_name": "Natasha Strong", "found_city": "Ottawa", "found_state": "", "found_country": "Canada", "found_GPS_lat": "45.278492 N", "found_GPS_long": "75.702329 W", "found_year": 2021, "p_institution": { "institution_code": "UOTT", "institution_name": "University of Ottawa", "institution_logo": "https://phagesdb.org/media/institutions/uottawa.png", "institution_url": "", "institution_city": "Ottawa", "institution_state": "", "institution_country": "Canada", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "Found off of a trail in Chapman Mills Conservation Area on the banks of the Rideau river. The soil type from which the sample was collected was silty clay loam.", "isolation_temperature": 17, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Plaques resemble bullseyes. Most turbid area is in the centre and there are rings going outwards that get progressively less and less turbid. Halo around plaques and edges are fuzzy.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "NRRL B-2880", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Asteroid_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/Asteroid_EMPic_Zz9qelJ.png", "digest_file": "https://phagesdb.org/media/digestPics/Asteroid_Digest_2N0FBa8.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/asteroid_plaque_thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/asteroid_EMPic_thumb.png", "dnam_file": null, "date_added": "2021-10-11T11:52:02-04:00", "date_modified": "2022-11-30T18:25:10-05:00" }, { "phage_name": "AsterP", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name of the phage comes from the type of flower under which it was found.", "finder_name": "Rosalie Picard", "found_city": "Ottawa", "found_state": "", "found_country": "Canada", "found_GPS_lat": "45.43667 N", "found_GPS_long": "75.628806 W", "found_year": 2025, "p_institution": { "institution_code": "UOTT", "institution_name": "University of Ottawa", "institution_logo": "https://phagesdb.org/media/institutions/uottawa.png", "institution_url": "", "institution_city": "Ottawa", "institution_state": "", "institution_country": "Canada", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "The phage AsterP was found in a damp area with wildflowers at the edge of a forest, mostly in the sun. \r\nThe soil temperature was 19,6°C and the ambient temperature was 21,3°C. \r\nThe soil was collected approximately 2 cm below the surface.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaques are small, circular and clear. The plaque size is slightly variable.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "NRRL B-4425", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AsterP_Plaque_dXLLFIS.png", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Plaques_of_AsterP_BW.jpeg", "em_thumb_file": "https://phagesdb.org/media/emPics/TEM_avec_%C3%A9chelle.jpg", "dnam_file": null, "date_added": "2025-10-17T13:35:41-04:00", "date_modified": "2025-10-22T15:38:30-04:00" }, { "phage_name": "Astho", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name is the researchers initials combined", "finder_name": "Thomas Stilley and Aspen Crist", "found_city": "Boulder", "found_state": "CO", "found_country": "United States", "found_GPS_lat": "39.993572 N", "found_GPS_long": "105.248151 W", "found_year": 2023, "p_institution": { "institution_code": "UCBO", "institution_name": "University of Colorado Boulder", "institution_logo": "https://phagesdb.org/media/institutions/Colorado.jpg", "institution_url": "http://www.colorado.edu/", "institution_city": "Boulder", "institution_state": "CO", "institution_country": "USA", "institution_latitude": "40.007799", "institution_longitude": "-105.2659" }, "enriched_sample": true, "discovery_notes": "Found on 9/4/2023, 82 degrees, found in a shady spot near grass in the backyard of my house in South Boulder", "isolation_temperature": 28, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Icosahedral head ranging in diameter of 66-80 mm. Long non contractile tail ranging from 300-330 mm long. Fits within the siphoviridae morphology.", "lysogeny_notes": "Temperate phage", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Astho_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/Astho_EMPic.TIF", "digest_file": "https://phagesdb.org/media/digestPics/Astho_Digest.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-12-07T11:22:32-05:00", "date_modified": "2024-02-25T15:28:24-05:00" }, { "phage_name": "Astley", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "This phage is named after Rick Astley, because we never gave up on finding it and it never let us down.", "finder_name": "Cynthis Buss and Carly Zimmerman", "found_city": "Pullman", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "46.730144 N", "found_GPS_long": "117.161953 W", "found_year": 2016, "p_institution": { "institution_code": "WSHS", "institution_name": "Washington State University", "institution_logo": "https://phagesdb.org/media/institutions/logo-washington-state.jpg", "institution_url": "http://www.wsu.edu/", "institution_city": "Pullman", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "46.732132", "institution_longitude": "-117.1544" }, "enriched_sample": true, "discovery_notes": "The soil was collected from a flower bed outside of the Center for Undergraduate Education on the Washington State University Pullman campus.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2016-12-08T23:44:26-05:00", "date_modified": "2020-09-17T14:07:57-04:00" }, { "phage_name": "Aston", "old_names": "Anuisance", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Asia Sanders Sadia Alvi", "found_city": "Baltimore", "found_state": "MD", "found_country": "United States", "found_GPS_lat": "39.327628 N", "found_GPS_long": "76.669953 W", "found_year": 2023, "p_institution": { "institution_code": "UMBC", "institution_name": "University of Maryland, Baltimore County", "institution_logo": "https://phagesdb.org/media/institutions/UMBC_Logo.png", "institution_url": "http://www.umbc.edu/", "institution_city": "Baltimore", "institution_state": "MD", "institution_country": "USA", "institution_latitude": "39.256328", "institution_longitude": "-76.71072" }, "enriched_sample": false, "discovery_notes": "It is taking well to Streptomyces mirabilis during purification", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "BF", "temperate": false }, "psubcluster": null, "morphotype": "PODO", "plaque_notes": "Plaques are clear, round, symmetrical, and about 0.167 cm in diameter.", "lysogeny_notes": "Aston is likely virulent, as indicated by the absence of mesa growth.", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Streptomyces", "species": "scabiei", "strain_name": "RL-34", "strain_species": { "id": 54, "genus": "Streptomyces", "species_name": "scabiei", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "49173", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 54, "genus": "Streptomyces", "species_name": "scabiei", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aston_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/S5G3_02.tif", "digest_file": "https://phagesdb.org/media/digestPics/Aston_Digest_mj3cBWv.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aston_Plaque-thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/S5G3_02-thumb.png", "dnam_file": null, "date_added": "2023-10-06T12:46:28-04:00", "date_modified": "2024-02-25T15:28:16-05:00" }, { "phage_name": "Astoria", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Name was chosen randomly based on a shopping mall found in Istanbul, Turkey.", "finder_name": "Serena Birdinc, Rebecca Slaughter", "found_city": "West Lafayette", "found_state": "IN", "found_country": "United States", "found_GPS_lat": "40.447139 N", "found_GPS_long": "86.939083 W", "found_year": 2019, "p_institution": { "institution_code": "PURD", "institution_name": "Purdue University", "institution_logo": "https://phagesdb.org/media/institutions/PURDUE__.jpg", "institution_url": "http://www.purdue.edu/", "institution_city": "West Lafayette", "institution_state": "IN", "institution_country": "USA", "institution_latitude": "40.423954", "institution_longitude": "-86.92116" }, "enriched_sample": false, "discovery_notes": "Wet or dry: \r\nDry\r\nDistance from walkway: \r\n13cm\r\nDepth from surface:\r\n- 1.2 cm\r\nEnvironmental temperature: \r\n17ºC\r\nWeather conditions: \r\nCool, breezy\r\nOrganic matter nearby? \r\nGrass\r\n\r\nOther notable characteristics:\r\n- Urban environment\r\n- Soil was loose\r\n- Soil contained shrubs\r\n- Collected at 10:13 PM", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Consistent, circular and clear", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Astoria_EMPic_kAQ3Ajt.PNG", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2019-10-02T22:22:30-04:00", "date_modified": "2020-09-17T14:11:36-04:00" }, { "phage_name": "Astraea", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Ammu Vijay", "found_city": "Raleigh", "found_state": "NC", "found_country": "USA", "found_GPS_lat": "35.782178 N", "found_GPS_long": "78.666092 W", "found_year": 2011, "p_institution": { "institution_code": "NCSU", "institution_name": "North Carolina State University", "institution_logo": "https://phagesdb.org/media/institutions/ncstate-logo.png", "institution_url": "http://www.ncsu.edu/", "institution_city": "Raleigh", "institution_state": "NC", "institution_country": "USA", "institution_latitude": "35.784920", "institution_longitude": "-78.68212" }, "enriched_sample": true, "discovery_notes": "Soil from garden near Bagwell Hall. 74 degrees F. Collected on August 21, 2011 at 8:40pm. It was humid and drizzling outside.", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "C", "temperate": false }, "psubcluster": { "subcluster": "C1" }, "morphotype": "MYO", "plaque_notes": "Plaques get to be 2 mm if left in incubator for 48 hours, but are 0.5 mm if left in incubator for 24 hours. Plaques are always clear and circular. Host range only includes types of M. smegmatis bacteria. ", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2012-01-29", "seq_facility": { "short_name": "DHMRI", "facility_name": "David H. Murdock Research Institute", "contact_person": "Mike Wang", "shipping_address": "DHMRI\r\nGenomics Laboratory\r\n150 Research Campus Drive\r\nKannapolis, NC 28081", "facility_website": "http://www.dhmri.org/home.html" }, "seq_method": { "short_name": "454", "method_name": "454" }, "coverage": 150, "finishing_reactions": null, "genome_length": 154872, "gcpercent": "64.7", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": true, "is_phamerated": true, "num_ORFs": 232, "num_tRNAs": 31, "num_tmRNAs": 1, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": true, "paper_published_in": { "title": "Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity", "abstract": "The bacteriophage population is large, dynamic, ancient, and genetically diverse. Limited genomic information shows that phage genomes are mosaic, and the genetic architecture of phage populations remains ill-defined. To understand the population structure of phages infecting a single host strain, we isolated, sequenced, and compared 627 phages of Mycobacterium smegmatis. Their genetic diversity is considerable, and there are 28 distinct genomic types (clusters) with related nucleotide sequences. However, amino acid sequence comparisons show pervasive genomic mosaicism, and quantification of inter-cluster and intra-cluster relatedness reveals a continuum of genetic diversity, albeit with uneven representation of different phages. Furthermore, rarefaction analysis shows that the mycobacteriophage population is not closed, and there is a constant influx of genes from other sources. Phage isolation and analysis was performed by a large consortium of academic institutions, illustrating the substantial benefits of a disseminated, structured program involving large numbers of freshman undergraduates in scientific discovery. ", "full_author_list": "Pope WH, Bowman CA, Russell DA, Jacobs-Sera D, Asai DJ, Cresawn SG, Jacobs WR, Hendrix RW, Lawrence JG, Hatfull GF; Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science; Phage Hunters Integrating Research and Education; Mycobacterial Genetics Course", "short_author_list": "Pope, Bowman, Russell, et al", "article_url": "http://elifesciences.org/content/4/e06416", "journal": "eLIFE", "journal_volume": "4", "journal_issue": "", "journal_pages": "", "pub_year": "2015", "pubmed_id": "25919952" }, "in_genbank": true, "genbank_accession": "KC691257", "refseq_accession": "NC_021349", "plaque_file": "https://phagesdb.org/media/plaquePics/Astraea_Plaque.bmp", "em_file": "https://phagesdb.org/media/emPics/Astraea_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Astraea_Digest.jpg", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Astraea.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Astraea_Plaque_Thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/Astraea_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2011-11-21T13:08:39-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Astraeus", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named after Greek God of the dusk and the winds.", "finder_name": "Samantha Haggert", "found_city": "West Chester", "found_state": "PA", "found_country": "United States", "found_GPS_lat": "39.960698 N", "found_GPS_long": "75.61109 W", "found_year": 2021, "p_institution": { "institution_code": "LEHI", "institution_name": "Lehigh University", "institution_logo": "https://phagesdb.org/media/institutions/LeHigh.jpg", "institution_url": "http://www.lehigh.edu/", "institution_city": "Bethlehem", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.607157", "institution_longitude": "-75.37829" }, "enriched_sample": false, "discovery_notes": "Dry soil sample taken approximately 2 inches below the surface of the ground.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Plaques had clearer center surrounded by a cloudier ring and had a diameter ranging from 1 to 2 millimeters.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Astraeus_Plaque.jpeg", "em_file": "https://phagesdb.org/media/emPics/Astraeus_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Astraeus_Digest.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Astraeus_Plaque_thumb.jpeg", "em_thumb_file": "https://phagesdb.org/media/emPics/Astraeus_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2021-03-29T22:46:16-04:00", "date_modified": "2022-03-16T11:02:32-04:00" }, { "phage_name": "Astraios", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Astraios is the titan god of the stars and the planets – but I just really like the word. ", "finder_name": "Bethany Hung", "found_city": "Providence", "found_state": "RI", "found_country": "USA", "found_GPS_lat": "41.817432 N", "found_GPS_long": "71.391 W", "found_year": 2015, "p_institution": { "institution_code": "BRWN", "institution_name": "Brown University", "institution_logo": "https://phagesdb.org/media/institutions/brown_logo2.jpg", "institution_url": "http://www.brown.edu/", "institution_city": "Providence", "institution_state": "RI", "institution_country": "USA", "institution_latitude": "41.827013", "institution_longitude": "-71.40255" }, "enriched_sample": true, "discovery_notes": "Isolated from soil adjacent to the Seekonk River in India Point Park, about half a meter off a cement footpath in a small patch of grass. The soil sample was about 2 cm deep. It was collected on 9/10/15, a rainy day about 65ºF; the soil was moist. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Plaques are of variable size, about 2 to 4 mm in diameter. They are translucent, indicating likely lysogenic phage type. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Astraios_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/Astraios_EMPic.png", "digest_file": "https://phagesdb.org/media/digestPics/Astraios_Digest.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Astraios_Plaque_Thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/Astraios_EMPic_Thumb.png", "dnam_file": null, "date_added": "2015-12-11T13:08:07-05:00", "date_modified": "2015-12-27T21:08:28-05:00" }, { "phage_name": "Astralis", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "This phage was discovered on my birthday and it means relating to the stars. My name also means light/star so I thought it was fitting.", "finder_name": "Jyothi Vivekananda", "found_city": "Davie", "found_state": "FL", "found_country": "United States of America", "found_GPS_lat": "26.07491 N", "found_GPS_long": "80.24088 W", "found_year": 2024, "p_institution": { "institution_code": "NOSE", "institution_name": "Nova Southeastern University", "institution_logo": "https://phagesdb.org/media/institutions/NSUFlorida-Primary-Stacked-Blue.jpg", "institution_url": "https://www.nova.edu/", "institution_city": "Fort Lauderdale", "institution_state": "FL", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "This phage was found in a soil sample collected in Davie, Florida outside of Mako Hall near a huge water puddle that had formed from the rain the night before. The soil sample was collected at 2cm deep and it was moist and appeared to have other particles (possibly sand) in the sample. It was collected at 8:44 A.M.", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "DV", "temperate": null }, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaque is clear and about 0.1cm in diameter. It is circular in shape and has clear boundaries.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2024-12-17", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 3353, "finishing_reactions": 0, "genome_length": 65052, "gcpercent": "57.7", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 94, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Astralis_CompleteNotes.xlsx", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Astralis_Minimal_Final_S4ZEwOZ.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Astralis_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Astralis_CoverSheet.docx", "submitted_annotation_date": "2025-07-14T14:34:35-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Astralis_flat.txt", "qced_genbank_file_date": "2025-07-14T14:34:35-04:00", "isolation_host": { "genus": "Gordonia", "species": "rubripertincta", "strain_name": "NRRL B-16540", "strain_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 21, "genus": "Gordonia", "species_name": "rubripertincta", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "PV940990", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Astralis.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-10-21T07:35:24-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Astreus", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Luke", "found_city": "Orem", "found_state": "UT", "found_country": "United States of America", "found_GPS_lat": "40.310672 N", "found_GPS_long": "111.708419 W", "found_year": 2024, "p_institution": { "institution_code": "BRYO", "institution_name": "Brigham Young University", "institution_logo": "https://phagesdb.org/media/institutions/BYU_seal_copy.gif", "institution_url": "http://home.byu.edu/home/", "institution_city": "Provo", "institution_state": "UT", "institution_country": "USA", "institution_latitude": "40.252020", "institution_longitude": "-111.6492" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": 28, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "Upon sequencing, this phage turned out to be 100% identical to LunarLander.", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-12-04T11:54:10-05:00", "date_modified": "2025-04-04T11:37:40-04:00" }, { "phage_name": "Astrid", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Alyssa Ann Rogers-Armstrong", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.445798 N", "found_GPS_long": "79.953334 W", "found_year": 2018, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Astrid_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Astrid_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2018-10-09T11:38:31-04:00", "date_modified": "2020-09-17T14:10:30-04:00" }, { "phage_name": "Astro", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Brad Long", "found_city": "Charleston", "found_state": "SC", "found_country": "USA", "found_GPS_lat": "32.769528 N", "found_GPS_long": "79.929511 W", "found_year": 2011, "p_institution": { "institution_code": "CCHA", "institution_name": "College of Charleston", "institution_logo": "https://phagesdb.org/media/institutions/cofc_logo_red.jpg", "institution_url": "http://www.cofc.edu/", "institution_city": "Charleston", "institution_state": "SC", "institution_country": "USA", "institution_latitude": "32.783974", "institution_longitude": "-79.93820" }, "enriched_sample": true, "discovery_notes": "The sample was located under a palm tree in the battery of Charleston, SC. It was very black in color and moist. ", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "A", "temperate": true }, "psubcluster": { "subcluster": "A8" }, "morphotype": "SIPHO", "plaque_notes": "2.5mm clear plaques.\r\n24 hour incubation period in 37°C conditions\r\n", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2012-01-28", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "IONTORRENT", "method_name": "Ion Torrent" }, "coverage": 150, "finishing_reactions": null, "genome_length": 52494, "gcpercent": "61.4", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "CGGGATGTAA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": true, "is_phamerated": true, "num_ORFs": 99, "num_tRNAs": 1, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": true, "paper_published_in": { "title": "Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity", "abstract": "The bacteriophage population is large, dynamic, ancient, and genetically diverse. Limited genomic information shows that phage genomes are mosaic, and the genetic architecture of phage populations remains ill-defined. To understand the population structure of phages infecting a single host strain, we isolated, sequenced, and compared 627 phages of Mycobacterium smegmatis. Their genetic diversity is considerable, and there are 28 distinct genomic types (clusters) with related nucleotide sequences. However, amino acid sequence comparisons show pervasive genomic mosaicism, and quantification of inter-cluster and intra-cluster relatedness reveals a continuum of genetic diversity, albeit with uneven representation of different phages. Furthermore, rarefaction analysis shows that the mycobacteriophage population is not closed, and there is a constant influx of genes from other sources. Phage isolation and analysis was performed by a large consortium of academic institutions, illustrating the substantial benefits of a disseminated, structured program involving large numbers of freshman undergraduates in scientific discovery. ", "full_author_list": "Pope WH, Bowman CA, Russell DA, Jacobs-Sera D, Asai DJ, Cresawn SG, Jacobs WR, Hendrix RW, Lawrence JG, Hatfull GF; Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science; Phage Hunters Integrating Research and Education; Mycobacterial Genetics Course", "short_author_list": "Pope, Bowman, Russell, et al", "article_url": "http://elifesciences.org/content/4/e06416", "journal": "eLIFE", "journal_volume": "4", "journal_issue": "", "journal_pages": "", "pub_year": "2015", "pubmed_id": "25919952" }, "in_genbank": true, "genbank_accession": "JX015524", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Astro_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Astro.fasta", "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Astro_EMPic_Thumb.png", "dnam_file": null, "date_added": "2011-11-29T04:07:45-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Astro16", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I chose this as Astronomy was the first field of science I was interested in and got me into liking science. 16 stands for 2016 as that was the year I go really interested in Astronomy/science.", "finder_name": "Isabella Foster", "found_city": "Charlotte", "found_state": "NC", "found_country": "USA", "found_GPS_lat": "35.190238 N", "found_GPS_long": "80.833181 W", "found_year": 2022, "p_institution": { "institution_code": "QUCH", "institution_name": "Queens University of Charlotte", "institution_logo": "https://phagesdb.org/media/institutions/QueensUniversityOfCharlotte.jpg", "institution_url": "http://www.queens.edu/", "institution_city": "Charlotte", "institution_state": "NC", "institution_country": "USA", "institution_latitude": "35.188490", "institution_longitude": "-80.83339" }, "enriched_sample": null, "discovery_notes": "Soil sample was collected under the magnolia tree behind Belk hall on the campus of Queens University of Charlotte. The soil was dry, kind of sandy, but also clumpy. It was a warm, humid day.", "isolation_temperature": 32, "growth_notes": "", "pcluster": { "cluster": "EE", "temperate": false }, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2023-01-16", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 1987, "finishing_reactions": 0, "genome_length": 17445, "gcpercent": "68.8", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 9, "overhang_sequence": "CCCGCCCCA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 25, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Astro16_CompleteNotes.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Astro16_Minimal_Final_4zmHUOL.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Astro16_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Astro16_CoverSheet.pdf", "submitted_annotation_date": "2023-08-01T11:42:22-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Astro16_flat.txt", "qced_genbank_file_date": "2023-08-01T11:42:22-04:00", "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "OR475264", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Astro16.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-11-22T14:13:32-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Astronex", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "We used a phage name generator until we found a name that we liked.", "finder_name": "S. Ferguson, A. Pettiquoi, G. Graneys, K. Lam", "found_city": "Amherst", "found_state": "MA", "found_country": "United States", "found_GPS_lat": "42.391577 N", "found_GPS_long": "72.519098 W", "found_year": 2024, "p_institution": { "institution_code": "UMAS", "institution_name": "University of Massachusetts Amherst", "institution_logo": "https://phagesdb.org/media/institutions/UMassAmherst.png", "institution_url": "", "institution_city": "Amherst", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "Our sample was collected from the soil near Knowlton Hall at Umass Amherst.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques that are made by our phage are about 1mm*1mm to 1.5mm*1.5mm. The plaques are very clear and retain a constant circular shape.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-10-28T15:21:20-04:00", "date_modified": "2025-04-04T11:37:36-04:00" }, { "phage_name": "Astrophod", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Greisy C. De Jesus, Sanaa Ann Hill", "found_city": "Clifton", "found_state": "NJ", "found_country": "United States", "found_GPS_lat": "40.86745 N", "found_GPS_long": "74.17596 W", "found_year": 2022, "p_institution": { "institution_code": "MCSU", "institution_name": "Montclair State University", "institution_logo": "https://phagesdb.org/media/institutions/msu_.jpg", "institution_url": "http://www.montclair.edu/", "institution_city": "Montclair", "institution_state": "NJ", "institution_country": "USA", "institution_latitude": "40.861767", "institution_longitude": "-74.19856" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 26, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "sp. ", "strain_name": "ATCC 21022", "strain_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "21022", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-12-07T10:27:40-05:00", "date_modified": "2024-02-25T15:28:08-05:00" }, { "phage_name": "AstroWave", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "i picked a name I like a lot", "finder_name": "Alicia mansaray", "found_city": "frostburg", "found_state": "MD", "found_country": "frostburg", "found_GPS_lat": "39.6 N", "found_GPS_long": "78.9 W", "found_year": 2023, "p_institution": { "institution_code": "FRST", "institution_name": "Frostburg State University", "institution_logo": "https://phagesdb.org/media/institutions/fsulogored.jpg", "institution_url": "https://www.frostburg.edu/", "institution_city": "Frostburg", "institution_state": "MD", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "I got dirt from the bobcat stadium and then the pond near by.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-11-17T13:15:21-05:00", "date_modified": "2024-02-25T15:28:33-05:00" }, { "phage_name": "AstrumP28", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Astrum-Star in latin, Texas is the lone star state.\r\nP-Found in a pumpkin planter.\r\n28-Date of soil sample collection. ", "finder_name": "Taylore King", "found_city": "Dallas", "found_state": "TX", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2012, "p_institution": { "institution_code": "JHOU", "institution_name": "Johns Hopkins University", "institution_logo": "https://phagesdb.org/media/institutions/johns_hopkins_university.png", "institution_url": "http://www.jhu.edu/", "institution_city": "Baltimore", "institution_state": "MD", "institution_country": "USA", "institution_latitude": "39.330171", "institution_longitude": "-76.62047" }, "enriched_sample": true, "discovery_notes": "AstrumP28 was isolated from a soil sample collected from a pumpkin planter in Dallas, TX. ", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "B", "temperate": false }, "psubcluster": { "subcluster": "B1" }, "morphotype": "SIPHO", "plaque_notes": "The size of the plaques ranges from 0.1cm-0.6cm in diameter. The plaques are circular and completely cleared. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/AstrumP28_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/AstrumP28_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/AstrumP28_EMPic_Thumbs.jpg", "dnam_file": null, "date_added": "2012-11-28T16:22:53-05:00", "date_modified": "2020-09-17T14:05:56-04:00" }, { "phage_name": "Asuzu", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Kareen Taha", "found_city": "Charleston", "found_state": "SC", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2011, "p_institution": { "institution_code": "CCHA", "institution_name": "College of Charleston", "institution_logo": "https://phagesdb.org/media/institutions/cofc_logo_red.jpg", "institution_url": "http://www.cofc.edu/", "institution_city": "Charleston", "institution_state": "SC", "institution_country": "USA", "institution_latitude": "32.783974", "institution_longitude": "-79.93820" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "A", "temperate": true }, "psubcluster": { "subcluster": "A2" }, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Asuzu_EMPic_1.tiff", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Asuzu_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2011-11-29T04:47:38-05:00", "date_modified": "2017-09-12T10:21:46-04:00" }, { "phage_name": "AtackTitan", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "\"Attack Titan\" came from an anime show where Titans attack innocent bystanders, but they must break through the walls to get to these people. Just like viruses, they have to travel along the surface of the cells until the protein can bind the receptors of the cells. Just like Titans breaking through the walls, viruses also have to go through a process.", "finder_name": "Ashley Lucio", "found_city": "Corpus Christi", "found_state": "TX", "found_country": "Nueces", "found_GPS_lat": "27.686873 N", "found_GPS_long": "97.401158 W", "found_year": 2023, "p_institution": { "institution_code": "DLMR", "institution_name": "Del Mar College", "institution_logo": "https://phagesdb.org/media/institutions/DelMarLogo_.jpg", "institution_url": "http://www.delmar.edu/", "institution_city": "Corpus Christi", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "27.764369", "institution_longitude": "-97.40711" }, "enriched_sample": true, "discovery_notes": "The soil sample was collected the 31st of May 2023 at 5:33pm. It was collected with the temperature of 81 degrees Fahrenheit. The conditions of the soil were overall really dry. Texas has been dry lately, so it was hard to get a sample that was moist. The sample was taken at the Vahalla apartments underneath a staircase where many cats, dogs, toads and insects lay near by.", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "MYO", "plaque_notes": "Display more Lytic morology\r\nsize: 4 mm in diameter", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AtackTitan_Plaque.jpg", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/AtackTitan_Digest.jpeg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/AtackTitan_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2023-08-07T10:43:18-04:00", "date_modified": "2025-09-25T09:30:58-04:00" }, { "phage_name": "Atalanta", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "named Atalanta after the only female argonaut on the hunt for the golden fleece in Greek mythology", "finder_name": "Bianca Ballinas", "found_city": "Boulder", "found_state": "CO", "found_country": "United States", "found_GPS_lat": "40.00888 N", "found_GPS_long": "105.26952 W", "found_year": 2023, "p_institution": { "institution_code": "UCBO", "institution_name": "University of Colorado Boulder", "institution_logo": "https://phagesdb.org/media/institutions/Colorado.jpg", "institution_url": "http://www.colorado.edu/", "institution_city": "Boulder", "institution_state": "CO", "institution_country": "USA", "institution_latitude": "40.007799", "institution_longitude": "-105.2659" }, "enriched_sample": true, "discovery_notes": "sample taken from soil surrounding a storm drain", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "assumed to be a temperate phage possibly belonging to clusters F or P", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Atalanta_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Atalanta_EMPic.TIF", "digest_file": "https://phagesdb.org/media/digestPics/Atalanta_Digest.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-12-07T09:16:01-05:00", "date_modified": "2024-02-25T15:28:24-05:00" }, { "phage_name": "Atari", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Danny Morrison", "found_city": "Boulder", "found_state": "CO", "found_country": "United States", "found_GPS_lat": "40.009167 N", "found_GPS_long": "105.268889 W", "found_year": 2023, "p_institution": { "institution_code": "UCBO", "institution_name": "University of Colorado Boulder", "institution_logo": "https://phagesdb.org/media/institutions/Colorado.jpg", "institution_url": "http://www.colorado.edu/", "institution_city": "Boulder", "institution_state": "CO", "institution_country": "USA", "institution_latitude": "40.007799", "institution_longitude": "-105.2659" }, "enriched_sample": true, "discovery_notes": "The soil sample was collected next to a well trafficked pedestrian and bike path outside of Porter Biosciences.", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Atari_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Atari_EMPic.TIF", "digest_file": "https://phagesdb.org/media/digestPics/Atari_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Atari_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2023-12-07T14:00:56-05:00", "date_modified": "2025-09-22T10:07:13-04:00" }, { "phage_name": "Atazar", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Victoria Lisson", "found_city": "St. Louis", "found_state": "MO", "found_country": "United States", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2024, "p_institution": { "institution_code": "MVLU", "institution_name": "Maryville University of Saint Louis", "institution_logo": "https://phagesdb.org/media/institutions/MVLU.jpeg", "institution_url": "https://www.maryville.edu/", "institution_city": "St. Louis", "institution_state": "MO", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-11-07T12:10:11-05:00", "date_modified": "2025-04-04T11:37:23-04:00" }, { "phage_name": "ATCC29399BC", "old_names": "", "program": null, "naming_notes": "", "finder_name": "", "found_city": "", "found_state": "", "found_country": "", "found_GPS_lat": "34.068900 N", "found_GPS_long": "118.445200 W", "found_year": 1978, "p_institution": { "institution_code": "UCLA", "institution_name": "University of California, Los Angeles", "institution_logo": "https://phagesdb.org/media/institutions/UCLA.jpg", "institution_url": "http://www.ucla.edu/", "institution_city": "Los Angeles", "institution_state": "CA", "institution_country": "United States", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "BU", "temperate": false }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2012-09-25", "seq_facility": { "short_name": "UCDAVIS", "facility_name": "UC Davis Genome Center", "contact_person": "", "shipping_address": "", "facility_website": "http://genomecenter.ucdavis.edu/" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 30000, "finishing_reactions": 0, "genome_length": 29516, "gcpercent": "54.0", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 11, "overhang_sequence": "TCGTACGGCTT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 46, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Propionibacterium", "species": "acnes", "strain_name": "ATCC 29399", "strain_species": { "id": 18, "genus": "Propionibacterium", "species_name": "acnes", "species_genus": { "id": 8, "genus_domain": "Bacteria", "genus_name": "Propionibacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "29399", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 18, "genus": "Propionibacterium", "species_name": "acnes", "species_genus": { "id": 8, "genus_domain": "Bacteria", "genus_name": "Propionibacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 8, "genus_domain": "Bacteria", "genus_name": "Propionibacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "JX262225", "refseq_accession": "NC_018851", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/ATCC29399BC.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2015-05-18T15:36:10-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "ATCC29399BT", "old_names": "", "program": null, "naming_notes": "", "finder_name": "", "found_city": "", "found_state": "", "found_country": "", "found_GPS_lat": "34.068900 N", "found_GPS_long": "118.445200 W", "found_year": 1978, "p_institution": { "institution_code": "UCLA", "institution_name": "University of California, Los Angeles", "institution_logo": "https://phagesdb.org/media/institutions/UCLA.jpg", "institution_url": "http://www.ucla.edu/", "institution_city": "Los Angeles", "institution_state": "CA", "institution_country": "United States", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "BU", "temperate": false }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2012-09-25", "seq_facility": { "short_name": "UCDAVIS", "facility_name": "UC Davis Genome Center", "contact_person": "", "shipping_address": "", "facility_website": "http://genomecenter.ucdavis.edu/" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 30000, "finishing_reactions": 0, "genome_length": 29516, "gcpercent": "54.0", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 11, "overhang_sequence": "TCGTACGGCTT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 46, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Propionibacterium", "species": "acnes", "strain_name": "ATCC 29399", "strain_species": { "id": 18, "genus": "Propionibacterium", "species_name": "acnes", "species_genus": { "id": 8, "genus_domain": "Bacteria", "genus_name": "Propionibacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "29399", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 18, "genus": "Propionibacterium", "species_name": "acnes", "species_genus": { "id": 8, "genus_domain": "Bacteria", "genus_name": "Propionibacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 8, "genus_domain": "Bacteria", "genus_name": "Propionibacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "JX262224", "refseq_accession": "NC_018847", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/ATCC29399BT.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2015-05-18T15:41:51-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Atcoo", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name is a combination of our last names, Cook and Athavale. It also sounds cute and like a sneeze!", "finder_name": "Mitali Athavale, Taylor Cook", "found_city": "Parker", "found_state": "CO", "found_country": "USA", "found_GPS_lat": "39.6095 N", "found_GPS_long": "104.8819 W", "found_year": 2017, "p_institution": { "institution_code": "UCBO", "institution_name": "University of Colorado Boulder", "institution_logo": "https://phagesdb.org/media/institutions/Colorado.jpg", "institution_url": "http://www.colorado.edu/", "institution_city": "Boulder", "institution_state": "CO", "institution_country": "USA", "institution_latitude": "40.007799", "institution_longitude": "-105.2659" }, "enriched_sample": null, "discovery_notes": "The phage was isolated from potting soil in a tomato plate garden. The temperature was 33 degrees Celsius at noon.", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "P", "temperate": true }, "psubcluster": { "subcluster": "P1" }, "morphotype": "SIPHO", "plaque_notes": "The diameter of our phages plaques was 0.3 cm. The plaques are clear with a definitive outline. The time it was incubated for was 48hrs and the temperature was 37 degrees Celsius.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2018-11-01", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 174, "finishing_reactions": 0, "genome_length": 49075, "gcpercent": "67.0", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 13, "overhang_sequence": "CCTGCCGCCCCGG", "sequencing_notes": "This phage was sequenced as part of a mixed DOGEMS sample. The sequence of this genome was confirmed to belong to this phage by PCR.", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 78, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Atcoo_CompleteNotes.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Atcoo_Minimal_Final_C0nqsWH.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Atcoo_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Atcoo_CoverSheet.pdf", "submitted_annotation_date": "2019-10-07T23:24:50-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Atcoo.gbf", "qced_genbank_file_date": "2019-10-07T23:24:50-04:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MN585977", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Atcoo.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": "https://phagesdb.org/media/dnam/Atcoo.dnam5", "date_added": "2017-11-16T17:03:36-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Athaliah", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Elizabeth Franco and Molly Kittson", "found_city": "Pullman", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2017, "p_institution": { "institution_code": "WSHS", "institution_name": "Washington State University", "institution_logo": "https://phagesdb.org/media/institutions/logo-washington-state.jpg", "institution_url": "http://www.wsu.edu/", "institution_city": "Pullman", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "46.732132", "institution_longitude": "-117.1544" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2017-11-10T10:47:31-05:00", "date_modified": "2020-09-17T14:08:54-04:00" }, { "phage_name": "Athanasius", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "It is the name of one of our group member's favorite saints.", "finder_name": "CD Aleman, JD Childs, AK Mumphrey, ME Fortune", "found_city": "Longview", "found_state": "TX", "found_country": "United States", "found_GPS_lat": "32.465077 N", "found_GPS_long": "94.727987 W", "found_year": 2024, "p_institution": { "institution_code": "LETO", "institution_name": "LeTourneau University", "institution_logo": "https://phagesdb.org/media/institutions/LeTourneau.png", "institution_url": "http://www.letu.edu/", "institution_city": "Longview", "institution_state": "TX", "institution_country": "United States", "institution_latitude": "32.466083", "institution_longitude": "-94.72640" }, "enriched_sample": true, "discovery_notes": "At 10:11 on August 27, 2024, the soil sample was collected near the back of Glaske Center for Engineering, Science, and Technology at LeTourneau University. We dug a hole next to a tree to ensure the soil was rich. The soil was damp, so we began digging a hole approximately 6.35 cm wide and 7.62 cm deep. The weather was clear with an ambient temperature of 29.44℃.", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaque was clear and circular. It was the only present plaque on the plate.", "lysogeny_notes": "The plaque was in the lytic cycle due to the circular and clear appearance.", "seq_finished": false, "date_finished": null, "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Athanasius_Plaque.jpeg", "em_file": "https://phagesdb.org/media/emPics/Athanasius_EMPic.jpeg", "digest_file": "https://phagesdb.org/media/digestPics/Athanasius_Digest.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/final-image_3.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2024-10-03T08:56:16-04:00", "date_modified": "2025-04-04T11:37:24-04:00" }, { "phage_name": "Athena", "old_names": "", "program": { "short_name": "PHIRE", "program_name": "Phage Hunters Integrating Research and Education", "program_blurb": "", "program_URL": "" }, "naming_notes": "", "finder_name": "Laura Marinelli", "found_city": "Washington", "found_state": "DC", "found_country": "USA", "found_GPS_lat": "38.907200 N", "found_GPS_long": "77.036800 W", "found_year": 2003, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "B", "temperate": false }, "psubcluster": { "subcluster": "B3" }, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2010-06-10", "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": 69409, "gcpercent": "67.5", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": true, "is_phamerated": true, "num_ORFs": 105, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": true, "paper_published_in": { "title": "Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity", "abstract": "The bacteriophage population is large, dynamic, ancient, and genetically diverse. Limited genomic information shows that phage genomes are mosaic, and the genetic architecture of phage populations remains ill-defined. To understand the population structure of phages infecting a single host strain, we isolated, sequenced, and compared 627 phages of Mycobacterium smegmatis. Their genetic diversity is considerable, and there are 28 distinct genomic types (clusters) with related nucleotide sequences. However, amino acid sequence comparisons show pervasive genomic mosaicism, and quantification of inter-cluster and intra-cluster relatedness reveals a continuum of genetic diversity, albeit with uneven representation of different phages. Furthermore, rarefaction analysis shows that the mycobacteriophage population is not closed, and there is a constant influx of genes from other sources. Phage isolation and analysis was performed by a large consortium of academic institutions, illustrating the substantial benefits of a disseminated, structured program involving large numbers of freshman undergraduates in scientific discovery. ", "full_author_list": "Pope WH, Bowman CA, Russell DA, Jacobs-Sera D, Asai DJ, Cresawn SG, Jacobs WR, Hendrix RW, Lawrence JG, Hatfull GF; Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science; Phage Hunters Integrating Research and Education; Mycobacterial Genetics Course", "short_author_list": "Pope, Bowman, Russell, et al", "article_url": "http://elifesciences.org/content/4/e06416", "journal": "eLIFE", "journal_volume": "4", "journal_issue": "", "journal_pages": "", "pub_year": "2015", "pubmed_id": "25919952" }, "in_genbank": true, "genbank_accession": "JN699003", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Athena_EMPic.tif", "digest_file": null, "vdigest_file": "https://phagesdb.org/media/vDigestPics/Athena_Restriction_Map.jpg", "fasta_file": "https://phagesdb.org/media/fastas/Athena.fasta", "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Athena_EMPic_Thumb.jpg", "dnam_file": "https://phagesdb.org/media/dnam/Athena.dnam5", "date_added": "2010-04-30T20:00:00-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Athena1", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Shruti Shetty", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.444772 N", "found_GPS_long": "79.952554 E", "found_year": 2018, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Very small plaques", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Athena1_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Athena1_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2018-10-29T10:25:07-04:00", "date_modified": "2020-09-17T14:10:30-04:00" }, { "phage_name": "Athene", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "This name is similar to Athena who is known as the Ancient Greek goddess of wisdom. She, also, is a warrior and a symbol of freedom.\r\n\r\nI believe that a warrior does not have to fight with their fists, they can use their knowledge to free others and work hard to fight ignorance.\r\n\r\nBoth phages found in the soil sample were therefore named after different genera of owl species. Hence Tyto and Athene.", "finder_name": "Tamara Sandouka", "found_city": "Ottawa", "found_state": "", "found_country": "Canada", "found_GPS_lat": "45.427134 N", "found_GPS_long": "75.697522 E", "found_year": 2019, "p_institution": { "institution_code": "UOTT", "institution_name": "University of Ottawa", "institution_logo": "https://phagesdb.org/media/institutions/uottawa.png", "institution_url": "", "institution_city": "Ottawa", "institution_state": "", "institution_country": "Canada", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "Sample was dry and collected one night before initiating direct isolation protocol. Soil sample was stored in a standard fridge overnight in a sealed double ziplock bag, no water was added to the sample. \r\n\r\nLocation of collection is rich with sunlight and wild-life. It is also close to a dog park.\r\n\r\nThis phage was found on a plate with another phage, each of which were separated by plaque picking and further purified individually.", "isolation_temperature": 18, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Bull's Eye morphology. Medium in size.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Athene_Plaque.tif", "em_file": "https://phagesdb.org/media/emPics/Athene_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Athene_Digest.jpeg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Athene_Plaque_Thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/Athene_EMPic_Thumb.png", "dnam_file": null, "date_added": "2019-11-29T22:49:24-05:00", "date_modified": "2020-09-17T14:11:29-04:00" }, { "phage_name": "Athenon", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The phage takes its name from the Greek goddess of wisdom. It seemed fitting as this is an academic activity.", "finder_name": "Brittany Kellner", "found_city": "Papillion", "found_state": "NE", "found_country": "USA", "found_GPS_lat": "41.16 N", "found_GPS_long": "96.1 E", "found_year": 2018, "p_institution": { "institution_code": "NEBW", "institution_name": "Nebraska Wesleyan University", "institution_logo": "https://phagesdb.org/media/institutions/nwu_logo2.jpg", "institution_url": "http://www.nebrwesleyan.edu/", "institution_city": "Lincoln", "institution_state": "NE", "institution_country": "USA", "institution_latitude": "40.839041", "institution_longitude": "-96.64760" }, "enriched_sample": false, "discovery_notes": "The soil from with the phage came from was retrieved in January, so the ground was still frozen. It was dug out of a flower bed at a depth ranging from 6 inches to 1 foot.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "The plaques formed in small/medium sized circles that were clear, indicating a lytic phage.", "lysogeny_notes": "The bacteriophage follows the lytic cycle due to clear plaques.", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "paraoxydans", "strain_name": "NWU1", "strain_species": { "id": 45, "genus": "Microbacterium", "species_name": "paraoxydans", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "Isolated by Nebraska Wesleyan University" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 45, "genus": "Microbacterium", "species_name": "paraoxydans", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Athenon_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/Athenon_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/bio_20_version_4.png", "em_thumb_file": "https://phagesdb.org/media/emPics/BrittanyKellner20KX_version_4.png", "dnam_file": null, "date_added": "2018-04-02T08:39:24-04:00", "date_modified": "2020-09-17T14:11:44-04:00" }, { "phage_name": "Athouriste", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "original last name before American modification.", "finder_name": "Lynsey Caba", "found_city": "Roca", "found_state": "NE", "found_country": "United States", "found_GPS_lat": "40.694648 N", "found_GPS_long": "96.646811 W", "found_year": 2023, "p_institution": { "institution_code": "NEBW", "institution_name": "Nebraska Wesleyan University", "institution_logo": "https://phagesdb.org/media/institutions/nwu_logo2.jpg", "institution_url": "http://www.nebrwesleyan.edu/", "institution_city": "Lincoln", "institution_state": "NE", "institution_country": "USA", "institution_latitude": "40.839041", "institution_longitude": "-96.64760" }, "enriched_sample": null, "discovery_notes": "The virus was donated by Lyndsey Caba.", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "paraoxydans", "strain_name": "NWU1", "strain_species": { "id": 45, "genus": "Microbacterium", "species_name": "paraoxydans", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "Isolated by Nebraska Wesleyan University" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 45, "genus": "Microbacterium", "species_name": "paraoxydans", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Athouriste_Plaque.jpeg", "em_file": "https://phagesdb.org/media/emPics/Athouriste_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-04-06T08:18:26-04:00", "date_modified": "2025-07-11T12:34:12-04:00" }, { "phage_name": "Atiba", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I named my phage Atiba after a horse that I used to ride at a summer camp I attended as a child. This horse was there every year and he was my favorite horse to ride. I like his color which reminds of cookies and cream. Also, I just like his name and think it is unique.", "finder_name": "Shelby Hartley", "found_city": "Hattiesburg", "found_state": "MS", "found_country": "USA", "found_GPS_lat": "31.32903 N", "found_GPS_long": "89.333516 W", "found_year": 2016, "p_institution": { "institution_code": "SOMS", "institution_name": "University of Southern Mississippi", "institution_logo": "https://phagesdb.org/media/institutions/Univ_v_123PC.png", "institution_url": "http://www.usm.edu/", "institution_city": "Hattiesburg", "institution_state": "MS", "institution_country": "United States", "institution_latitude": "31.329810", "institution_longitude": "-89.33332" }, "enriched_sample": null, "discovery_notes": "I found my phage underneath a patch of leaves which was shaded by trees. The soil was damp with lots of debris in it such as twigs and leaves. To collect my soil sample, I moved the leaves and collected the soil directly under the leaves.", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "K", "temperate": true }, "psubcluster": { "subcluster": "K1" }, "morphotype": "SIPHO", "plaque_notes": "My plaques were around 6mm in diameter, turbid and circular. Some had bullseyes in the center. All of my plaques were around the same size.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2017-02-10", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 599, "finishing_reactions": 0, "genome_length": 59556, "gcpercent": "66.5", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 11, "overhang_sequence": "CTCGTAGGCAT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 96, "num_tRNAs": 1, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Atiba_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2019-07-25T14:42:20-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Atiba.gbf", "qced_genbank_file_date": "2019-07-25T14:42:20-04:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MN234230", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Atiba_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/Atiba_EMPic.png", "digest_file": "https://phagesdb.org/media/digestPics/Atiba_Digest.png", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Atiba.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Atiba_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Atiba_EMPic_Thumb.jpg", "dnam_file": "https://phagesdb.org/media/dnam/Atiba.dnam5", "date_added": "2016-12-04T16:14:12-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Atina", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Sandy Soler", "found_city": "Richmond", "found_state": "VA", "found_country": "United States", "found_GPS_lat": "37.6294 N", "found_GPS_long": "77.6158 W", "found_year": 2022, "p_institution": { "institution_code": "VACU", "institution_name": "Virginia Commonwealth University", "institution_logo": "https://phagesdb.org/media/institutions/VCU.jpg", "institution_url": "http://www.vcu.edu/", "institution_city": "Richmond", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "37.549255", "institution_longitude": "-77.45341" }, "enriched_sample": true, "discovery_notes": "Physical: Dry, mixed with grass clippings\r\nTemp: 82ºF = 27.78ºC\r\nCollection Date: 9/6/2022", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Plaques are round, are surrounded by a faint thin halo, are mostly clear, and contain white dots in the center.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Atina_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Atina_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-11-03T10:31:32-04:00", "date_modified": "2024-02-25T15:27:57-05:00" }, { "phage_name": "Atki", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name Atki is the Greek word for Shore.", "finder_name": "Michaela Schoen", "found_city": "Arvada", "found_state": "CO", "found_country": "United States of America", "found_GPS_lat": "39.963284 N", "found_GPS_long": "105.19825 E", "found_year": 2023, "p_institution": { "institution_code": "UCBO", "institution_name": "University of Colorado Boulder", "institution_logo": "https://phagesdb.org/media/institutions/Colorado.jpg", "institution_url": "http://www.colorado.edu/", "institution_city": "Boulder", "institution_state": "CO", "institution_country": "USA", "institution_latitude": "40.007799", "institution_longitude": "-105.2659" }, "enriched_sample": true, "discovery_notes": "It had just rained. Just found in the porch area in a topsoil gardening bag. Collected on 9/05/2023 at 2:30 MST.", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The diameter of the average plaque is 3cm", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Atki_Plaque_fZ6rUfX.jpeg", "em_file": "https://phagesdb.org/media/emPics/Atki_EMPic.tiff", "digest_file": "https://phagesdb.org/media/digestPics/Atki_Digest_eUWZMyH.jpeg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-12-08T12:50:24-05:00", "date_modified": "2024-02-25T15:28:24-05:00" }, { "phage_name": "Atkinbua", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Daron Atkin", "found_city": "Orem", "found_state": "UT", "found_country": "USA", "found_GPS_lat": "40.325994 N", "found_GPS_long": "111.735727 W", "found_year": 2010, "p_institution": { "institution_code": "BRYO", "institution_name": "Brigham Young University", "institution_logo": "https://phagesdb.org/media/institutions/BYU_seal_copy.gif", "institution_url": "http://home.byu.edu/home/", "institution_city": "Provo", "institution_state": "UT", "institution_country": "USA", "institution_latitude": "40.252020", "institution_longitude": "-111.6492" }, "enriched_sample": true, "discovery_notes": "Found in a strawberry patch in a greenhouse. Warm temperature.\r\n30 feet to the right of the main entrance. I scraped the soil around the edge of the strawberry patch. The soil itself was very moist and had been watered regularly.", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "A", "temperate": true }, "psubcluster": { "subcluster": "A1" }, "morphotype": "SIPHO", "plaque_notes": "The size of bacteria cleared by this plaque was very large and clear. Each time that I did the dilutions the same results came out. The time it took the plaque to clear the bacteria was usually 24 hours.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2014-07-31", "seq_facility": { "short_name": "BYU", "facility_name": "BYU DNA Sequencing Center", "contact_person": "", "shipping_address": "", "facility_website": "" }, "seq_method": { "short_name": "454", "method_name": "454" }, "coverage": 90, "finishing_reactions": 0, "genome_length": 52955, "gcpercent": "63.3", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "CGGATGGTAA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 98, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Atkinbua_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2019-12-08T11:05:52-05:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Atkinbua.gbf", "qced_genbank_file_date": "2019-12-08T11:05:52-05:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MN813700", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Atkinbua_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Atkinbua_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Atkinbua.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Atkinbua_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Atkinbua_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2010-12-08T03:49:18-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Atkins", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Caroline Atkins", "found_city": "Charleston", "found_state": "SC", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2017, "p_institution": { "institution_code": "CCHA", "institution_name": "College of Charleston", "institution_logo": "https://phagesdb.org/media/institutions/cofc_logo_red.jpg", "institution_url": "http://www.cofc.edu/", "institution_city": "Charleston", "institution_state": "SC", "institution_country": "USA", "institution_latitude": "32.783974", "institution_longitude": "-79.93820" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2017-10-31T20:31:08-04:00", "date_modified": "2017-10-31T20:31:08-04:00" }, { "phage_name": "AtlantaHeat", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I am originally from Atlanta, GA, and the weather outside while finding the soil sample reminded me of Atlanta's heat index.", "finder_name": "Micaelah Thomas", "found_city": "Petersburg", "found_state": "VA", "found_country": "USA", "found_GPS_lat": "37.2391 N", "found_GPS_long": "77.4222 W", "found_year": 2019, "p_institution": { "institution_code": "VAST", "institution_name": "Virginia State University", "institution_logo": "https://phagesdb.org/media/institutions/VAST_M36kWvc.png", "institution_url": "http://www.vsu.edu/", "institution_city": "Petersburg", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": 21, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/AtlantaHeat_EMPic.png", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/AtlantaHeat_EMPic_Thumb.png", "dnam_file": null, "date_added": "2019-11-20T22:55:25-05:00", "date_modified": "2020-09-17T14:11:31-04:00" }, { "phage_name": "Atlantean", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "There was a struggle trying to isolate this wonderful phage that holds so much potential and power, just like the lost city of Atlantis.", "finder_name": "Desiree Butler", "found_city": "Washington", "found_state": "DC", "found_country": "USA", "found_GPS_lat": "38.920212 N", "found_GPS_long": "77.01897 W", "found_year": 2016, "p_institution": { "institution_code": "HWRD", "institution_name": "Howard University", "institution_logo": "https://phagesdb.org/media/institutions/howard_university_logo2.jpg", "institution_url": "http://www.howard.edu/", "institution_city": "Washington", "institution_state": "DC", "institution_country": "USA", "institution_latitude": "38.922905", "institution_longitude": "-77.01943" }, "enriched_sample": true, "discovery_notes": "Sunny, warm, and dry day. Sample was retrieved 2 inches into soil under mulch underneath a tree on the side of Louis Stokes Library at Howard University.", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "C", "temperate": false }, "psubcluster": { "subcluster": "C1" }, "morphotype": "MYO", "plaque_notes": "Bacteriophage Atlantean is small but powerful. It has a diameter of 1cm and is a lytic phage.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2017-01-17", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 358, "finishing_reactions": 0, "genome_length": 154553, "gcpercent": "64.7", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 232, "num_tRNAs": 33, "num_tmRNAs": 1, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Atlantean_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2018-12-21T15:28:10-05:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Atlantean.gbf", "qced_genbank_file_date": "2018-12-21T15:28:10-05:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MK359362", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Atlantean.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": "https://phagesdb.org/media/dnam/Atlantean.dnam5", "date_added": "2016-11-17T13:45:47-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Atlantic", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "This locations marks a memorable spot where I completed the Wim Hof challenge. As per the challenge, I played the Titanic theme song on the flute while submerged in the river during the winter. This phage was named in recollection of this challenge, where I learned patience and courage.", "finder_name": "Shaniah-Kirsten Chua", "found_city": "Ottawa", "found_state": "", "found_country": "Canada", "found_GPS_lat": "45.425674 N", "found_GPS_long": "75.670183 W", "found_year": 2022, "p_institution": { "institution_code": "UOTT", "institution_name": "University of Ottawa", "institution_logo": "https://phagesdb.org/media/institutions/uottawa.png", "institution_url": "", "institution_city": "Ottawa", "institution_state": "", "institution_country": "Canada", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "The sample was collected at a river bed along Rideau River, Ottawa ON. The soil was dark, damp, and loamy with small segments of grass.", "isolation_temperature": 14, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Atlantic demonstrates turbid center and is large-medium in size.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "NRRL B-2880", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Atlantic_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Atlantic_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Atlantic_Digest.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Atlantic_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/good_atlantic_cTisoXA.jpg", "dnam_file": null, "date_added": "2022-10-17T09:21:23-04:00", "date_modified": "2025-09-17T09:32:41-04:00" }, { "phage_name": "Atlantica", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "It's a username I've always used for games and websites.", "finder_name": "Valerie Jackson", "found_city": "Atlanta", "found_state": "GA", "found_country": "United States of America", "found_GPS_lat": "33.79672 N", "found_GPS_long": "84.32394 W", "found_year": 2024, "p_institution": { "institution_code": "EMRY", "institution_name": "Emory University", "institution_logo": "https://phagesdb.org/media/institutions/EMRY.jpg", "institution_url": "https://www.emory.edu/", "institution_city": "Atlanta", "institution_state": "GA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "Sample was collected at an educational garden on Michael Street. The soil was shady, sandy, fairly dry, highly organic, and had no plant growth.", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "AS", "temperate": true }, "psubcluster": { "subcluster": "AS3" }, "morphotype": "", "plaque_notes": "Plaques are about 1-2mm in diameter and are turbid, round with rough edges, and have a well-defined border.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2025-01-13", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 9184, "finishing_reactions": 0, "genome_length": 38468, "gcpercent": "66.1", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 12, "overhang_sequence": "GAGTTGCCGGCA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 70, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Atlantica_CompleteNotes.txt", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Atlantica_Minimal_Final_FvarSyS.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Atlantica_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Atlantica_CoverSheet.docx", "submitted_annotation_date": "2025-08-14T17:33:49-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Atlantica_flat.txt", "qced_genbank_file_date": "2025-08-14T17:33:49-04:00", "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "PX136956", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Atlantica_Plaque.jpeg", "em_file": "https://phagesdb.org/media/emPics/Atlantica_EMPic.png", "digest_file": "https://phagesdb.org/media/digestPics/Atlantica_Digest.jpg", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Atlantica.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Atlantica_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Atlantica_EMPic_Thumb.png", "dnam_file": null, "date_added": "2024-11-26T13:43:49-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Atlantis", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Amy Jamsa and Kara Geraci", "found_city": "Spokane", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "47.667014 N", "found_GPS_long": "117.402288 W", "found_year": 2012, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "Soil from flower bed on Gonzaga campus. 5 cm depth. Taken on 9/10/2012. ", "isolation_temperature": null, "growth_notes": "Enrichment culture and plates were incubated at room temperature.", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "turbid, separated plaques are ~3 mm in diameter", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/atlantis_plate.jpg", "em_file": "https://phagesdb.org/media/emPics/atlantis_em.jpg", "digest_file": "https://phagesdb.org/media/digestPics/atlantis_gel.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Atlantis_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Atlantis_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2014-11-20T20:57:06-05:00", "date_modified": "2020-06-26T11:29:17-04:00" }, { "phage_name": "Atlas", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Rochelle Lee Vollmerding", "found_city": "Lewisburg", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.956306 N", "found_GPS_long": "76.881747 W", "found_year": 2010, "p_institution": { "institution_code": "BUCK", "institution_name": "Bucknell University", "institution_logo": "https://phagesdb.org/media/institutions/Bucknell.jpg", "institution_url": "http://www.bucknell.edu/", "institution_city": "Lewisburg", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.955364", "institution_longitude": "-76.88495" }, "enriched_sample": true, "discovery_notes": "shady, under an evergreen bush. Soil was 3-4\" deep. Temperature was 76°F.", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "C", "temperate": false }, "psubcluster": { "subcluster": "C1" }, "morphotype": "MYO", "plaque_notes": "size: 1-2 mm, clear and small, faint haloes around plaques.\r\n\r\n48 hour incubation at 37°C.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Atlas_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Atlas_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Atlas_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Atlas_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Atlas_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2010-12-16T09:28:11-05:00", "date_modified": "2017-09-12T10:21:46-04:00" }, { "phage_name": "Atlas13", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name is a combination of the discoverer's favorite band, Atlas Genius, as well as the her lucky number, thirteen. ", "finder_name": "Cimrin Bhalla", "found_city": "Princeton", "found_state": "NJ", "found_country": "USA", "found_GPS_lat": "40.2525 N", "found_GPS_long": "74.3431 W", "found_year": 2014, "p_institution": { "institution_code": "LEHI", "institution_name": "Lehigh University", "institution_logo": "https://phagesdb.org/media/institutions/LeHigh.jpg", "institution_url": "http://www.lehigh.edu/", "institution_city": "Bethlehem", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.607157", "institution_longitude": "-75.37829" }, "enriched_sample": true, "discovery_notes": "The soil sample was extracted from the soil of a house plant. This plant was watered once a week and resides in a relatively shady part of the home. The soil was relatively grainy with a hint of moisture. 65°F.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Average diameter is 0.3 mm; plaques seem to grow at different rates but have been confirmed to be the same. Relatively turbid and circular. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Atlas13_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/Atlas13_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Atlas13_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Atlas13_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2014-04-14T10:37:38-04:00", "date_modified": "2020-09-17T14:05:36-04:00" }, { "phage_name": "Atlas16", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Elaine Luterstein", "found_city": "La Jolla", "found_state": "CA", "found_country": "USA", "found_GPS_lat": "32.877491 N", "found_GPS_long": "117.235277 W", "found_year": 2015, "p_institution": { "institution_code": "UCSD", "institution_name": "University of California, San Diego", "institution_logo": "https://phagesdb.org/media/institutions/UCSD.png", "institution_url": "http://www.ucsd.edu/", "institution_city": "San Diego", "institution_state": "CA", "institution_country": "USA", "institution_latitude": "32.880335", "institution_longitude": "-117.2340" }, "enriched_sample": true, "discovery_notes": "The soil sample was collected from a planter behind Mayer Hall on the UCSD campus. The soil was moist, gritty, and clumped and was collected at a depth of ~2cm.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Phage plaques exhibit a fairly uniform morphology: plaques are turbid with a clear outer ring, and are between 2 and 4 mm in diameter.\r\n", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Streptomyces", "species": "platensis", "strain_name": "MJ1A1", "strain_species": { "id": 41, "genus": "Streptomyces", "species_name": "platensis", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 41, "genus": "Streptomyces", "species_name": "platensis", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Atlas16_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Atlas16_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Atlas16_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Atlas16_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2016-02-02T15:16:02-05:00", "date_modified": "2020-07-29T13:44:55-04:00" }, { "phage_name": "Atlas24", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name comes from my nephew who was born in 2024 and Atlas in greek mythology carries the world on his back.", "finder_name": "Amber Sily", "found_city": "Corpus Christi", "found_state": "TX", "found_country": "United States of America", "found_GPS_lat": "27.739741 N", "found_GPS_long": "97.397971 W", "found_year": 2025, "p_institution": { "institution_code": "DLMR", "institution_name": "Del Mar College", "institution_logo": "https://phagesdb.org/media/institutions/DelMarLogo_.jpg", "institution_url": "http://www.delmar.edu/", "institution_city": "Corpus Christi", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "27.764369", "institution_longitude": "-97.40711" }, "enriched_sample": true, "discovery_notes": "Soil was damp when collected. Slight minty smell since it was collected in a garden bed next to herbs.\r\nSoil had signs of mushroom growth and small bugs\r\nHumidity was 88%", "isolation_temperature": 25, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "MYO", "plaque_notes": "Plaque size average ~ 1.3mm\r\nLytic plaques", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2025-07-28T10:13:45-04:00", "date_modified": "2025-07-28T10:13:45-04:00" }, { "phage_name": "Atlasburst", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "We chose the name because we love starbursts and there is a store near Abdullah Ahmad's house that named Atlas Mini Mart.", "finder_name": "AAhmad, BHaddad, ACullis,SLin", "found_city": "Amherst", "found_state": "MA", "found_country": "United States", "found_GPS_lat": "42.390363 N", "found_GPS_long": "72.523013 W", "found_year": 2024, "p_institution": { "institution_code": "UMAS", "institution_name": "University of Massachusetts Amherst", "institution_logo": "https://phagesdb.org/media/institutions/UMassAmherst.png", "institution_url": "", "institution_city": "Amherst", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "The phage was collected across from the public health building in UMass Amherst. It was a greenery area, and the soil was rock hard.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The plaques range from 1-4 millimeters, were mostly cloudy, and had both bullseye and halo morphologies.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Atlasburst_plaque_thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/Atlasburst_EMpic_Thumb.jpg", "dnam_file": null, "date_added": "2024-03-28T11:35:37-04:00", "date_modified": "2025-04-04T11:37:36-04:00" }, { "phage_name": "AtLast", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "After completing two direct samples and a total of fifteen enrichments, we finally found a phage to which we proclaimed, \"Hallelujah! At last!\"", "finder_name": "Nicholas Kowalkowski and Sam Wilson", "found_city": "Arkadelphia", "found_state": "AR", "found_country": "USA", "found_GPS_lat": "34.158 N", "found_GPS_long": "93.105 W", "found_year": 2014, "p_institution": { "institution_code": "OUBU", "institution_name": "Ouachita Baptist University", "institution_logo": "https://phagesdb.org/media/institutions/ouachita-baptist-university.jpg", "institution_url": "http://www.obu.edu/", "institution_city": "Arkadelphia", "institution_state": "AR", "institution_country": "USA", "institution_latitude": "34.125830", "institution_longitude": "-93.05277" }, "enriched_sample": true, "discovery_notes": "We dug 7.3 cm into moist soil on 11 September 2014 at 1:54 pm. The temperature was 25 C, and it had rained recently.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AtLast_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/AtLast_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/AtLast_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/AtLast_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2014-11-11T09:34:40-05:00", "date_modified": "2020-09-17T14:05:41-04:00" }, { "phage_name": "Atlasyo", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "My lizards name", "finder_name": "noah covey", "found_city": "Pullman", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "46.729402 N", "found_GPS_long": "117.165417 W", "found_year": 2016, "p_institution": { "institution_code": "WSHS", "institution_name": "Washington State University", "institution_logo": "https://phagesdb.org/media/institutions/logo-washington-state.jpg", "institution_url": "http://www.wsu.edu/", "institution_city": "Pullman", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "46.732132", "institution_longitude": "-117.1544" }, "enriched_sample": true, "discovery_notes": "Found 1 cm depth. Moist dirt.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2016-12-08T14:03:55-05:00", "date_modified": "2020-09-17T14:07:57-04:00" }, { "phage_name": "Atom", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The phage was named Atom , for it has been found in a Chemistry research based lab .", "finder_name": "Pragya A. and Atimbie Agba", "found_city": "Moorhead", "found_state": "MN", "found_country": "United States", "found_GPS_lat": "46.858194 N", "found_GPS_long": "96.762167 W", "found_year": 2020, "p_institution": { "institution_code": "MSUM", "institution_name": "Minnesota State University Moorhead", "institution_logo": "https://phagesdb.org/media/institutions/MSUM.png", "institution_url": "https://www.mnstate.edu/", "institution_city": "Moorhead", "institution_state": "MN", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "This phage was discovered by my lab partner Pragya , in a sample that the professor collected .", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": 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"https://phagesdb.org/media/institutions/UCSC.jpg", "institution_url": "http://www.ucsc.edu/", "institution_city": "Santa Cruz", "institution_state": "CA", "institution_country": "USA", "institution_latitude": "36.991665", "institution_longitude": "-122.0608" }, "enriched_sample": null, "discovery_notes": "Found outside the gate to the Merrill farm. There was a compost pile with used coffee grounds from the dining hall.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "1 mm round plaques with clean edges", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. 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"https://phagesdb.org/media/plaquePics/Atomi_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Atomi_EMPic_Thumbs.jpg", "dnam_file": null, "date_added": "2013-12-11T17:26:49-05:00", "date_modified": "2017-09-12T10:27:31-04:00" }, { "phage_name": "Atractoplas", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "It combines the names of two types of alligator gar.", "finder_name": "DillanBaker EricaTran GillianMarshall RaeganDavis", "found_city": "Guthrie", "found_state": "OK", "found_country": "USA", "found_GPS_lat": "35.769377 N", "found_GPS_long": "97.492381 W", "found_year": 2023, "p_institution": { "institution_code": "UCOK", "institution_name": "University of Central Oklahoma", "institution_logo": "https://phagesdb.org/media/institutions/UniversityofCentralOklahoma.JPG", "institution_url": "https://www.uco.edu/", "institution_city": "Edmond", "institution_state": "OK", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "Muddy topsoil from a creek bed area chosen for having minimal to no pesticide.", "isolation_temperature": 28, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Clear Plaques with small halo ~ 2 mm", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "paraoxydans", "strain_name": "NWU1", "strain_species": { "id": 45, "genus": "Microbacterium", "species_name": "paraoxydans", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "Isolated by Nebraska Wesleyan University" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 45, "genus": "Microbacterium", "species_name": "paraoxydans", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Atractoplas_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-10-05T11:33:12-04:00", "date_modified": "2023-10-05T11:33:12-04:00" }, { "phage_name": "Atraxa", "old_names": "", "program": { "short_name": "PHIRE", "program_name": "Phage Hunters Integrating Research and Education", "program_blurb": "", "program_URL": "" }, "naming_notes": "Atraxa is the name of an angel from a game I play", "finder_name": "Patrick Rimple", "found_city": "Saylorsburg", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.9046 N", "found_GPS_long": "75.3863 W", "found_year": 2017, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": true, "discovery_notes": "Found in the same sample as Sputnik, may actually just be Sputnik", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "AX", "temperate": false }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Halo plaques, 1 mm clear in the center, 4-6 mm in size counting the halo", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2017-09-01", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford 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"strain_name": "NRRL B-14730", "strain_species": { "id": 62, "genus": "Arthrobacter", "species_name": "sulfureus", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 62, "genus": "Arthrobacter", "species_name": "sulfureus", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MH834597", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Atraxa_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/Atraxa_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Atraxa.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Atraxa_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Atraxa_QNqPN0S.jpg", "dnam_file": "https://phagesdb.org/media/dnam/Atraxa.dnam5", "date_added": "2017-06-23T10:11:22-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Atraxi", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Atraxi is a Doctor Who alien that looks like a giant eyeball. Serendipidously, this is a perfect name, because the TEM indicates that this is podoviridae!", "finder_name": "Robyn Cashins", "found_city": "Salem", "found_state": "MA", "found_country": "United States", "found_GPS_lat": "42.50025 N", "found_GPS_long": "70.893889 W", "found_year": 2019, "p_institution": { "institution_code": "SALM", "institution_name": "Salem State University", "institution_logo": "https://phagesdb.org/media/institutions/SALM.png", "institution_url": "https://www.salemstate.edu/", "institution_city": "Salem", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "EK", "temperate": null }, "psubcluster": { "subcluster": "EK2" }, "morphotype": "PODO", "plaque_notes": "Cloudy, slow forming.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2020-01-14", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 448, "finishing_reactions": 0, "genome_length": 53904, "gcpercent": "59.1", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 53, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Atraxi_CompleteNotes.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Atraxi_Minimal_Final_lzimxMj.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Atraxi_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Atraxi_CoverSheet.pdf", "submitted_annotation_date": "2020-11-19T15:28:52-05:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Atraxi_flat.txt", "qced_genbank_file_date": "2020-11-19T15:28:52-05:00", "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": 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"seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, 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It was about 75 degrees outside, collected on June 7th, 2014. 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", "strain_name": "ATCC 21022", "strain_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "21022", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Atree_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Atree_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Atree_Digest.pdf", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Atree_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Atree_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2015-01-15T00:06:13-05:00", "date_modified": "2024-02-25T15:27:48-05:00" }, { "phage_name": "Atreides", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Logan Hellinger", "found_city": "Pittsburgh ", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2017, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Atreides_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Atreides_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Atreides_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Atreides_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2017-02-27T14:04:45-05:00", "date_modified": "2020-09-17T14:08:29-04:00" }, { "phage_name": "Atreus", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named it after watching a video game.", "finder_name": "Sai Hugh", "found_city": "Baltimore", "found_state": "MD", "found_country": "USA", "found_GPS_lat": "39.330556 N", "found_GPS_long": "76.620833 W", "found_year": 2018, "p_institution": { "institution_code": "JHOU", "institution_name": "Johns Hopkins University", "institution_logo": "https://phagesdb.org/media/institutions/johns_hopkins_university.png", "institution_url": "http://www.jhu.edu/", "institution_city": "Baltimore", "institution_state": "MD", "institution_country": "USA", "institution_latitude": "39.330171", "institution_longitude": "-76.62047" }, "enriched_sample": null, "discovery_notes": "Location: Bufano Sculpture Garden \r\n\r\nEnvironment:\r\n-Outside temperature: 33°F\r\n-Humidity: 43%\r\n-The soil is moist (most likely from the rain showers on 1/30/18\r\n\r\nWhy did I chose this location?\r\n-It was advised to find an area that would have bacterial growth so the garden was my initial thought.\r\n\r\nReasons:\r\n-Since it is close to the UTLs, I assumed that the area would have bacteria infected by phages due to the numerous biological and chemical experiments that take place.\r\n-gardens in general is the ideal environment for organisms to thrive (bacteria included).", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Atreus_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Atreus_EMPic.tiff", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Atreus_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2018-04-29T17:40:06-04:00", "date_modified": "2020-09-17T14:10:18-04:00" }, { "phage_name": "Atrisa", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science 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"date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-12-03T13:52:42-05:00", "date_modified": "2024-12-03T13:54:11-05:00" }, { "phage_name": "AttackDawg", "old_names": "CougsGoViral", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Name chosen from the viral properties of bacteriophages along with the school mascot property was found on.", "finder_name": "Katherine Enebo and Erica Fajardo", "found_city": "Pullman", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "46.728477 N", "found_GPS_long": "117.166325 W", "found_year": 2023, "p_institution": { "institution_code": "WSHS", "institution_name": "Washington State University", "institution_logo": "https://phagesdb.org/media/institutions/logo-washington-state.jpg", "institution_url": "http://www.wsu.edu/", "institution_city": "Pullman", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "46.732132", "institution_longitude": "-117.1544" }, "enriched_sample": false, "discovery_notes": "Found roughly 3 inches deep into the dirt.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-04-17T14:01:30-04:00", "date_modified": "2023-04-17T14:02:00-04:00" }, { "phage_name": "Attacne", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Fiona Bhondoekhan", "found_city": "Los Angeles", "found_state": "CA", "found_country": "USA", "found_GPS_lat": "34.068582 N", "found_GPS_long": "118.441285 W", "found_year": 2013, "p_institution": { "institution_code": "UCLA", "institution_name": "University of California, Los Angeles", "institution_logo": "https://phagesdb.org/media/institutions/UCLA.jpg", "institution_url": "http://www.ucla.edu/", "institution_city": "Los Angeles", "institution_state": "CA", "institution_country": "United States", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": null, "discovery_notes": "Phage isolation and genome annotation performed by Fiona Bhondoekhan, Joan Cheng, Anthony Hoang, Rohini Jain, and Rachelle Gonzales (UCLA). DNA preparation performed by Krisanavane Reddi (UCLA). Assembly performed by William Villella (UCLA) and confirmed by Charles Bowman (University of Pittsburgh). Quality control of annotation results performed by Jordan Moberg Parker and Dallas Mould (UCLA).", "isolation_temperature": 37, "growth_notes": "", "pcluster": { "cluster": "BU", "temperate": false }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "clear, small, round plaques", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2014-04-18", "seq_facility": { "short_name": "UCLA", "facility_name": "The UCLA Genotyping and Sequencing Core", "contact_person": "", "shipping_address": "", "facility_website": "http://www.genoseq.ucla.edu/" }, "seq_method": { "short_name": "454", "method_name": "454" }, "coverage": 393, "finishing_reactions": 0, "genome_length": 28876, "gcpercent": "54.7", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 11, "overhang_sequence": "TCGTACGGCTT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 45, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Propionibacterium", "species": "acnes", "strain_name": "ATCC 6919", "strain_species": { "id": 18, "genus": "Propionibacterium", "species_name": "acnes", "species_genus": { "id": 8, "genus_domain": "Bacteria", "genus_name": "Propionibacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "6919", "genbank_accession": "NZ_CP044255.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 18, "genus": "Propionibacterium", "species_name": "acnes", "species_genus": { "id": 8, "genus_domain": "Bacteria", "genus_name": "Propionibacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 8, "genus_domain": "Bacteria", "genus_name": "Propionibacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "KR337651", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Attacne_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Attacne_EMPic_GsmfCVY.tif", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Attacne.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Attacne_Plaques_thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/Attacne_EMPic_thumb.png", "dnam_file": "https://phagesdb.org/media/dnam/Attacne_081217.dnam5", "date_added": "2015-05-18T14:46:43-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "AttaMills", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Geena Armstrong & Christina Mastrangeli", "found_city": "Montclair", "found_state": "NJ", "found_country": "United States", "found_GPS_lat": "40.86181 N", "found_GPS_long": "74.19475 W", "found_year": 2024, "p_institution": { "institution_code": "MCSU", "institution_name": "Montclair State University", "institution_logo": "https://phagesdb.org/media/institutions/msu_.jpg", "institution_url": "http://www.montclair.edu/", "institution_city": "Montclair", "institution_state": "NJ", "institution_country": "USA", "institution_latitude": "40.861767", "institution_longitude": "-74.19856" }, "enriched_sample": null, "discovery_notes": "Last Known Concentration: 2 x 10^6 pfu/ml\r\n\r\nDNA Concentration: 12.65 ng/ul\r\n\r\n260/280 ratio: 2.92", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "sp. ", "strain_name": "ATCC 21022", "strain_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "21022", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-04-22T11:06:54-04:00", "date_modified": "2024-04-23T10:51:28-04:00" }, { "phage_name": "AttemptDos", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Our first name that we submitted was rejected so hence Attempt Dos (our second shot at naming our phage!).", "finder_name": "S. Taylor, E. Lee, J. Anderson, Z. Benlail", "found_city": "Amherst", "found_state": "MA", "found_country": "United States", "found_GPS_lat": "42.3876 N", "found_GPS_long": "72.52896 W", "found_year": 2025, "p_institution": { "institution_code": "UMAS", "institution_name": "University of Massachusetts Amherst", "institution_logo": "https://phagesdb.org/media/institutions/UMassAmherst.png", "institution_url": "", "institution_city": "Amherst", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "Near Tobin Hall at UMass Amherst, near a pathway, icy soil.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "0.1 mm, clear plaques.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2025-03-25T14:55:17-04:00", "date_modified": "2025-05-07T13:29:05-04:00" }, { "phage_name": "Atticus", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Daniel Barad and Alexandra Van Hook", "found_city": "Spokane", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "47.667198 N", "found_GPS_long": "117.401617 W", "found_year": 2014, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Atticus_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/Atticus_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Atticus_Digest.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Atticus_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Atticus_EMPic_Thumb.png", "dnam_file": null, "date_added": "2014-11-03T10:01:47-05:00", "date_modified": "2020-09-17T14:06:07-04:00" }, { "phage_name": "AtticusBane", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Came from a trip I took to Italy. ", "finder_name": "Sara Privatt", "found_city": "Pullman", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "46.731958 N", "found_GPS_long": "117.164019 W", "found_year": 2012, "p_institution": { "institution_code": "WSHS", "institution_name": "Washington State University", "institution_logo": "https://phagesdb.org/media/institutions/logo-washington-state.jpg", "institution_url": "http://www.wsu.edu/", "institution_city": "Pullman", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "46.732132", "institution_longitude": "-117.1544" }, "enriched_sample": true, "discovery_notes": "Was by a track, found in moist clay-like soil. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Clear, 3-4 mm slightly turbid plaques. No special or distinguishing features. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AtticusBane_Plaque.tif", "em_file": "https://phagesdb.org/media/emPics/AtticusBane_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/AtticusBane_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/AtticusBane_Plaque_Thumbs.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/AtticusBane_EMPic_Thumbs.jpg", "dnam_file": null, "date_added": "2012-11-15T12:38:13-05:00", "date_modified": "2017-09-12T10:27:30-04:00" }, { "phage_name": "AtticusFinch", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Kunaal Edekar", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2017, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2017-02-06T17:10:19-05:00", "date_modified": "2021-05-25T13:14:24-04:00" }, { "phage_name": "AtticusFinch2", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "This is the long lost brother of AtticusFinch.", "finder_name": "Carson", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.44348 N", "found_GPS_long": "79.95407 W", "found_year": 2017, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "Soil was damp and dark.\r\nInsects present on top of the soil.", "isolation_temperature": 20, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Siphovirdae morphology", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AtticusFinch2_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/AtticusFinch2_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/AtticusFinch2_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/AtticusFinch2_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2017-10-19T13:26:35-04:00", "date_modified": "2020-09-17T14:08:34-04:00" }, { "phage_name": "Attis", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name Attis comes from Greek mythology. Attis was the god of rebirth and resurrection. The terms \"rebirth\" and \"resurrection\" seemed to describe bacteriophage activity: infecting and inducing lysis in a host cell in order to produce new phage particles. ", "finder_name": "Melanie Umbaugh", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.443889 N", "found_GPS_long": "79.957222 W", "found_year": 2015, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "Soil was collected from a flower garden of marigolds outside of Thackeray Hall at the University of Pittsburgh. The marigolds that were near the soil collection site were wilting and decaying. The sample was collected 2 to 3 inches from the surface and the garden had been watered approximately an hour before collection. It was 87*F.", "isolation_temperature": 31, "growth_notes": "", "pcluster": { "cluster": "CZ", "temperate": true }, "psubcluster": { "subcluster": "CZ2" }, "morphotype": "", "plaque_notes": "Dual plaque morphology has been observed. Small, pinprick plaques are 1 mm and clear. Other larger plaques are 3 mm and are surrounded by a cloudy ring.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2015-11-12", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 949, "finishing_reactions": 0, "genome_length": 47881, "gcpercent": "66.8", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 11, "overhang_sequence": "TACCAGGGGGA", "sequencing_notes": "small amount of reads have deletion from 23,973 bp to 24059 bp, total deletion 87 bp inclusive", "duplicate_notes": "", "is_annotated": true, "is_phamerated": true, "num_ORFs": 74, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": true, "paper_published_in": null, "in_genbank": true, "genbank_accession": "KU963247", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Attis_Plaque.tif", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/Attis_Digest.tif", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Attis.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Attis_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": "https://phagesdb.org/media/dnam/Attis_gb.dnam5", "date_added": "2015-09-25T12:35:38-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Attoomi", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "It's a nickname for my wife that she likes the most.", "finder_name": "Ahmad Sulaiman", "found_city": "New Braunfels", "found_state": "TX", "found_country": "USA", "found_GPS_lat": "29.711028 N", "found_GPS_long": "98.133833 W", "found_year": 2016, "p_institution": { "institution_code": "UNTD", "institution_name": "University of North Texas", "institution_logo": "https://phagesdb.org/media/institutions/UNT-01.jpg", "institution_url": "http://www.unt.edu/", "institution_city": "Denton", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "33.207825", "institution_longitude": "-97.15253" }, "enriched_sample": true, "discovery_notes": "The soil sample was collected from Landa Park in New Braunfels, TX. The temperatures was 24°C, and the soil was wet. The sample was taken 2 cm under surface.\r\n", "isolation_temperature": 24, "growth_notes": "", "pcluster": { "cluster": "Singleton", "temperate": null }, "psubcluster": null, "morphotype": "", "plaque_notes": "The diameter is 1.5 mm . It makes clear zone in spot test ", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2017-06-27", "seq_facility": { "short_name": "UNT", "facility_name": "University of North Texas", "contact_person": "Richard Hale/Lee Hughes", "shipping_address": "", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": null, "finishing_reactions": null, "genome_length": 41872, "gcpercent": "69.7", "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": 11, "overhang_sequence": "CGAAACGTGAT", "sequencing_notes": "There was a bizarre coverage pattern for this genome. More than 17,000 of the ~70,000 reads in the assembly began at exactly base 1. Usually, we see a buildup of reads at base 1 of defined-end genomes, but this was orders of magnitude higher than normal. This resulted in coverage levels of ~18000 for the first couple kb, dropping to about 500 after ~3 kb, and level out around 100 thereafter. \r\n\r\nWe're not sure what caused this, but it does appear from other evidence that this genome has defined ends and a 3' overhang, so it is reported as such.", "duplicate_notes": "", "is_annotated": true, "is_phamerated": true, "num_ORFs": 53, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Attoomi_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2017-11-25T22:00:52-05:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Attoomi_flat.txt", "qced_genbank_file_date": "2017-11-25T22:00:52-05:00", "isolation_host": { "genus": "Streptomyces", "species": "azureus", "strain_name": "NRRL B-2655", "strain_species": { "id": 23, "genus": "Streptomyces", "species_name": "azureus", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "14921", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 23, "genus": "Streptomyces", "species_name": "azureus", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MG593801", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Attoomi_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Attoomi_EMPic_xqB1lx5.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Attoomi.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Attoomi_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Attoomi_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2016-05-25T07:11:46-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Atuin", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named after the world-carrying space turtle in the Discworld books by Sir Terry Pratchett.", "finder_name": "Lilianna Rolands", "found_city": "River Falls", "found_state": "WI", "found_country": "United States", "found_GPS_lat": "44.853056 N", "found_GPS_long": "92.627778 W", "found_year": 2019, "p_institution": { "institution_code": "UWRF", "institution_name": "University of Wisconsin-River Falls", "institution_logo": "https://phagesdb.org/media/institutions/university_of_wisconsin_river_falls.png", "institution_url": "http://www.uwrf.edu/", "institution_city": "River Falls", "institution_state": "WI", "institution_country": "USA", "institution_latitude": "44.853133", "institution_longitude": "-92.62258" }, "enriched_sample": true, "discovery_notes": "The soil was collected from a small forested area behind Stratton Hall on the UW-River Falls campus. It was cloudy, a little chilly, and had been raining.The soil was damp and packed.", "isolation_temperature": 28, "growth_notes": "", "pcluster": { "cluster": "FC", "temperate": false }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Plaques are small pinpoints, about 1mm in diameter, and are round, and clear. They have no halo and are uniform.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2020-01-27", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 575, "finishing_reactions": 0, "genome_length": 194200, "gcpercent": "54.2", "end_type": "TREP", "repeat_length": 17312, "end_notes": "At first, we thought Cluster FC phages had no defined ends and were circularly permuted, but as we sequenced more, it became clear that the genomes had a region of double coverage, which is characteristic of a direct terminal repeat. As with some other phages, the right end of the terminal repeat is well-defined, while the left end is less clear.", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 307, "num_tRNAs": 29, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Atuin_Minimal_Final_gBFTRYi.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2021-08-31T13:49:24-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Atuin_flat_XaVFRJZ.txt", "qced_genbank_file_date": "2024-02-18T17:50:35-05:00", "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "OK040794", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Atuin_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Atuin_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Atuin_Digest.jpg", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Atuin.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Atuin_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Atuin_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2019-11-06T14:10:45-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "ATurner", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named after my sister", "finder_name": "Hayden Turner", "found_city": "Quincy", "found_state": "MA", "found_country": "USA", "found_GPS_lat": "42.27307 N", "found_GPS_long": "71.01037 W", "found_year": 2022, "p_institution": { "institution_code": "ENZC", "institution_name": "Eastern Nazarene College", "institution_logo": "https://phagesdb.org/media/institutions/eastern_nazarene.png", "institution_url": "https://enc.edu/", "institution_city": "Quincy", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "Found in a vacant lot with tall dead grass", "isolation_temperature": 73, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Large and clear plaques", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-11-14T09:08:54-05:00", "date_modified": "2024-02-25T15:27:53-05:00" }, { "phage_name": "Aubergine", "old_names": "", "program": { "short_name": "PHIRE", "program_name": "Phage Hunters Integrating Research and Education", "program_blurb": "", "program_URL": "" }, "naming_notes": "", "finder_name": "Kira Zack", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.447237 N", "found_GPS_long": "79.953973 W", "found_year": 2017, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "EA", "temperate": false }, "psubcluster": { "subcluster": "EA1" }, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2017-08-22", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 2346, "finishing_reactions": 0, "genome_length": 41555, "gcpercent": "63.4", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": true, "is_phamerated": true, "num_ORFs": 62, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Aubergine_flat_file.txt", "qced_genbank_file_date": "2018-01-23T16:12:06-05:00", "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MG839015", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Aubergine.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aubergine_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": "https://phagesdb.org/media/dnam/Aubergine_79S7IAf.dnam5", "date_added": "2017-06-30T19:31:31-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "AubreyG", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Daja Miller", "found_city": "Washington", "found_state": "DC", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2014, "p_institution": { "institution_code": "HWRD", "institution_name": "Howard University", "institution_logo": "https://phagesdb.org/media/institutions/howard_university_logo2.jpg", "institution_url": "http://www.howard.edu/", "institution_city": "Washington", "institution_state": "DC", "institution_country": "USA", "institution_latitude": "38.922905", "institution_longitude": "-77.01943" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2014-11-28T16:29:22-05:00", "date_modified": "2015-04-29T14:31:55-04:00" }, { "phage_name": "AubreyJR", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Jala Renae Scott", "found_city": "Washington", "found_state": "DC", "found_country": "USA", "found_GPS_lat": "38.920556 N", "found_GPS_long": "77.018611 W", "found_year": 2018, "p_institution": { "institution_code": "HWRD", "institution_name": "Howard University", "institution_logo": "https://phagesdb.org/media/institutions/howard_university_logo2.jpg", "institution_url": "http://www.howard.edu/", "institution_city": "Washington", "institution_state": "DC", "institution_country": "USA", "institution_latitude": "38.922905", "institution_longitude": "-77.01943" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 24, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2018-09-24T14:09:31-04:00", "date_modified": "2020-09-17T14:10:04-04:00" }, { "phage_name": "Aubriella", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name was created by combining the names of the individuals who found the phage.", "finder_name": "Aubrey Swenson, Mariella Rigales", "found_city": "Spokane", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "47.66693 N", "found_GPS_long": "117.40264 W", "found_year": 2025, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "The soil sample was found in January. The conditions outside were extremely cold and the ground was frozen. The soil sample was extracted from the base of a dead plant.", "isolation_temperature": 22, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "The phage produced plaques that were small, round plaques with defined edges. The small size of the plaques indicates that the phage is slow growing. The plaques are more translucent than transparent but are identifiable.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aubriella_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Aubriella_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Aubriella_Digest.jpeg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aubriella_Plaque_Thumb.jpeg", "em_thumb_file": "https://phagesdb.org/media/emPics/Aubriella_EMPic_Thumb.jpeg", "dnam_file": null, "date_added": "2025-02-18T15:07:44-05:00", "date_modified": "2025-05-01T09:56:31-04:00" }, { "phage_name": "Aubs", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Nina Frasketi", "found_city": "Aldie", "found_state": "VA", "found_country": "USA", "found_GPS_lat": "38.921694 N", "found_GPS_long": "77.552694 W", "found_year": 2021, "p_institution": { "institution_code": "VACU", "institution_name": "Virginia Commonwealth University", "institution_logo": "https://phagesdb.org/media/institutions/VCU.jpg", "institution_url": "http://www.vcu.edu/", "institution_city": "Richmond", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "37.549255", "institution_longitude": "-77.45341" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 37, "growth_notes": "", "pcluster": { "cluster": "F", "temperate": true }, "psubcluster": { "subcluster": "F1" }, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2022-01-21", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 1169, "finishing_reactions": 0, "genome_length": 58937, "gcpercent": "61.4", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "CGGTAGGCGC", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 103, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Aubs_CompleteNotes.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Aubs_Minimal_Final_rfE9fGE.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Aubs_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Aubs_CoverSheet.docx", "submitted_annotation_date": "2022-08-12T16:31:56-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Aubs_flat.txt", "qced_genbank_file_date": "2022-08-12T16:31:56-04:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "OP297542", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AUBS_Plaque.heic", "em_file": "https://phagesdb.org/media/emPics/Aubs_EMPic.jpg", "digest_file": "https://phagesdb.org/media/digestPics/Aubs_Digest.png", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Aubs.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2021-11-16T11:49:45-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Auctoritas", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The Roman virtue auctoritas means \"authority\" when translated quite literally from Latin. However, it had much more significance to the Romans. It is a sense of one's social standing, built up through experience, pietas (faith) and industria (work, toil, productiveness). There's no better virtue to represent this phage.", "finder_name": "Bruno La Rosa", "found_city": "Tempe", "found_state": "AZ", "found_country": "United States", "found_GPS_lat": "33.420355 N", "found_GPS_long": "111.934666 W", "found_year": 2019, "p_institution": { "institution_code": "AZSU", "institution_name": "Arizona State University", "institution_logo": "https://phagesdb.org/media/institutions/asu.png", "institution_url": "", "institution_city": "Tempe", "institution_state": "AZ", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "Bamboo growing in Arizona State University is kept in a shady and waterlogged area. A sample was taken from the surface of the soil since a warm, wet and shaded environment might support bacterial growth.\r\n\r\nWe are no longer certain that this phage infects A. globiformis. We will update the entry once the bacteria species is known.", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "The plaques vary in size, but they are always very clear. There is a small dot in the center of the plaque that is far clearer than the surroundings.", "lysogeny_notes": "Since the plaques are very clear, this phage seems to be in a lytic cycle, unlike lysogenic phage that tend to have more opaque plaques.", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Auctoritas_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Auctoritas_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Auctoritas_Digest.PNG", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Auctoritas_Plaque_Thumb_Runpsno.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Auctoritas_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2019-11-20T23:24:34-05:00", "date_modified": "2020-09-17T14:11:30-04:00" }, { "phage_name": "Audell", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Audell was my late grandfather's middle name and traditionally means \"old friend.\"", "finder_name": "Erin Stanford", "found_city": "Tampa", "found_state": "FL", "found_country": "United States", "found_GPS_lat": "27.9275 N", "found_GPS_long": "82.165556 W", "found_year": 2024, "p_institution": { "institution_code": "USFL", "institution_name": "University of South Florida", "institution_logo": "https://phagesdb.org/media/institutions/UniversityofSouthFlorida.jpg", "institution_url": "http://www.usf.edu/", "institution_city": "Tampa", "institution_state": "FL", "institution_country": "USA", "institution_latitude": "28.058438", "institution_longitude": "-82.41395" }, "enriched_sample": false, "discovery_notes": "The area had pooled water sitting on top of the soil collected.", "isolation_temperature": 30, "growth_notes": "", "pcluster": { "cluster": "FR", "temperate": null }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Plaques are lytic and clear, with a variety of small and medium-sized plaques. They are clonal but can create large plaques when plated at high densities.", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2024-12-16", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 6667, "finishing_reactions": 0, "genome_length": 42187, "gcpercent": "58.6", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "TTTACGGCAT", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 67, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Audell_Minimal_Final.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2025-04-29T09:59:31-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Audell_flat_4IfNbsi.txt", "qced_genbank_file_date": "2025-04-29T09:59:31-04:00", "isolation_host": { "genus": "Arthrobacter", "species": "globiformis", "strain_name": "B-2979", "strain_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 59, "genus": "Arthrobacter", "species_name": "globiformis", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "https://en.wikipedia.org/wiki/Arthrobacter_globiformis" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "PV915817", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Audell_Plaque_ALIFFuP.jpg", "em_file": "https://phagesdb.org/media/emPics/Audell_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Audell.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/plauqe_thumbnail.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/EM_thumbnail_RB19Q6V.jpg", "dnam_file": null, "date_added": "2024-10-21T15:09:52-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Audemars", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I named the phage Audemars because it is the first name of my favorite watch brand (Audemars Piguet).", "finder_name": "Adam Hussaini", "found_city": "Lisle", "found_state": "IL", "found_country": "United States of America", "found_GPS_lat": "41.77533 N", "found_GPS_long": "88.09504 W", "found_year": 2024, "p_institution": { "institution_code": "BENU", "institution_name": "Benedictine University", "institution_logo": "https://phagesdb.org/media/institutions/PrimaryPNG-red-bl.png", "institution_url": "http://www.ben.edu/", "institution_city": "Lisle", "institution_state": "IL", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "Soil was in an area covered by mulch and\r\nwood chips so I had used a spoon to dig\r\nabout 2 inches down before I collected my\r\ndirt. The soil had a coarse texture and was dry enough to where it would crumble but soft enough to mold. Soil was very cold due to the outside temperature being 36°F. The sample could contain some wood\r\nchips and pieces of plant roots, however I\r\ntried my best to make sure the sample was\r\njust purely soil.", "isolation_temperature": 22, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Phage Diameter: 2.2mm\r\nPhage Radius: 1.1mm\r\n\r\nPhage Audemars formed clear lytic plaques with a diameter of 2.2mm and a radius of 1.1mm. The plaques typically had soft edges. Typically with a larger radius of 1.1mm the PFU/mL I required for a webbed plate was low. The temperature the phage grew the best at was 37C. This shows that warmer temperatures allow the phage to amplify better.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "atrocyaneus", "strain_name": "NRRL B-2883", "strain_species": { "id": 61, "genus": "Arthrobacter", "species_name": "atrocyaneus", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 61, "genus": "Arthrobacter", "species_name": "atrocyaneus", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Audemars_Plaque.png", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/Audemars_Digest.png", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-04-22T10:15:08-04:00", "date_modified": "2025-07-11T12:34:16-04:00" }, { "phage_name": "Audie", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The phage was named after my mom, whose nickname is Audie.", "finder_name": "Ansley Harmon", "found_city": "Bowling Green", "found_state": "KY", "found_country": "USA", "found_GPS_lat": "36.9236 N", "found_GPS_long": "86.411 W", "found_year": 2018, "p_institution": { "institution_code": "WEKU", "institution_name": "Western Kentucky University", "institution_logo": "https://phagesdb.org/media/institutions/wkucuptallrb.jpg", "institution_url": "http://www.wku.edu/", "institution_city": "Bowling Green", "institution_state": "KY", "institution_country": "USA", "institution_latitude": "36.985737", "institution_longitude": "-86.45552" }, "enriched_sample": true, "discovery_notes": "Dry soil was collected from behind a gas station dumpster, one inch into the ground.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Plaques varied in size from large to small. The average size was 1.53 mm and the plaques were clear. A test was performed to confirm that the large and small plaques belonged to the same phage. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Audie_Plaque_49LrUOn.jpg", "em_file": "https://phagesdb.org/media/emPics/Audie_EMPic_Ugmw6Ii.TIF", "digest_file": "https://phagesdb.org/media/digestPics/Audie_Digest_ebE23cZ.PNG", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Audie_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Audie_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2018-10-09T11:24:26-04:00", "date_modified": "2020-09-17T14:10:26-04:00" }, { "phage_name": "Audley", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Anna Audley", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.445771 N", "found_GPS_long": "79.962291 W", "found_year": 2018, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": true, "discovery_notes": "The soil sample was obtained from a flower garden in front of Sutherland Hall. The GPS coordinates are 40.4457715 (N); h0 degrees 26' 44.777\" latitude and -79.9622908 (W); 79 degrees 57' 44.246\" longitude. Location observations and conditions: 87 degress and sunny and in close proximinty to flowers. The soil collected was about a quarter of an inch under the surface and it was in close proximinty to street cars and pedestrians. The flower garden was in close proximinty to the dining hall so food and drinks may have been dropped on this soil sample. Physical characteristics of the soil sample: dark brown, soft, medium sized clumps with some mulch, minimal debris, slightly damp but not wet, and cooler than room temperature. The soil sample was transported directly to lab after it was collected so it was outside for approximately 2 minutes.", "isolation_temperature": 23, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Bacteriophage Audley produces plaques that are extremely tiny, lytic, and circular. The plaques are approximately 1mm in diameter.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Audley_Plaque.jpeg", "em_file": "https://phagesdb.org/media/emPics/Audley_EMPic.jpeg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Audley_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Audley_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2018-10-10T15:35:08-04:00", "date_modified": "2020-09-17T14:10:30-04:00" }, { "phage_name": "Audra", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Named after discoverer", "finder_name": "Audra Atkins", "found_city": "Pullman", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "46.73 N", "found_GPS_long": "117.15 W", "found_year": 2018, "p_institution": { "institution_code": "WSHS", "institution_name": "Washington State University", "institution_logo": "https://phagesdb.org/media/institutions/logo-washington-state.jpg", "institution_url": "http://www.wsu.edu/", "institution_city": "Pullman", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "46.732132", "institution_longitude": "-117.1544" }, "enriched_sample": false, "discovery_notes": "Washington State University; Gray Parking Lot 1 behind Beasley Coliseum in upper most row", "isolation_temperature": 80, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2018-12-12T14:33:17-05:00", "date_modified": "2018-12-12T14:33:17-05:00" }, { "phage_name": "Audrey", "old_names": "Yonose", "program": { "short_name": "PHIRE", "program_name": "Phage Hunters Integrating Research and Education", "program_blurb": "", "program_URL": "" }, "naming_notes": "", "finder_name": "Forrest Guilfoile", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.445394 N", "found_GPS_long": "79.963324 W", "found_year": 2011, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "Under pine tree, beneath wood shavings.", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "B", "temperate": false }, "psubcluster": { "subcluster": "B3" }, "morphotype": "SIPHO", "plaque_notes": "Very small plaques, both in depth and in radius. May generate a very small number of larger ones (mutant).", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2013-01-07", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "IONTORRENT", "method_name": "Ion Torrent" }, "coverage": 450, "finishing_reactions": 0, "genome_length": 68662, "gcpercent": "67.5", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": true, "is_phamerated": true, "num_ORFs": 103, "num_tRNAs": 0, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": true, "paper_published_in": { "title": "Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity", "abstract": "The bacteriophage population is large, dynamic, ancient, and genetically diverse. Limited genomic information shows that phage genomes are mosaic, and the genetic architecture of phage populations remains ill-defined. To understand the population structure of phages infecting a single host strain, we isolated, sequenced, and compared 627 phages of Mycobacterium smegmatis. Their genetic diversity is considerable, and there are 28 distinct genomic types (clusters) with related nucleotide sequences. However, amino acid sequence comparisons show pervasive genomic mosaicism, and quantification of inter-cluster and intra-cluster relatedness reveals a continuum of genetic diversity, albeit with uneven representation of different phages. Furthermore, rarefaction analysis shows that the mycobacteriophage population is not closed, and there is a constant influx of genes from other sources. Phage isolation and analysis was performed by a large consortium of academic institutions, illustrating the substantial benefits of a disseminated, structured program involving large numbers of freshman undergraduates in scientific discovery. ", "full_author_list": "Pope WH, Bowman CA, Russell DA, Jacobs-Sera D, Asai DJ, Cresawn SG, Jacobs WR, Hendrix RW, Lawrence JG, Hatfull GF; Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science; Phage Hunters Integrating Research and Education; Mycobacterial Genetics Course", "short_author_list": "Pope, Bowman, Russell, et al", "article_url": "http://elifesciences.org/content/4/e06416", "journal": "eLIFE", "journal_volume": "4", "journal_issue": "", "journal_pages": "", "pub_year": "2015", "pubmed_id": "25919952" }, "in_genbank": true, "genbank_accession": "KJ194581", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Audrey_Plaque_1.tif", "em_file": "https://phagesdb.org/media/emPics/Audrey_EMPic_1.tif", "digest_file": "https://phagesdb.org/media/digestPics/Audrey_Digest_1.tif", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Audrey.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Audrey_Plaque_Thumb_1.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Audrey_EMPic_Thumb_1.jpg", "dnam_file": "https://phagesdb.org/media/dnam/Audrey.dnam5", "date_added": "2011-05-02T04:34:12-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Audreylu", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I named it after myself, but specifically after the name my mom calls me. I named my phage after myself but I love my mom.", "finder_name": "Elizabeth Audrey Ulman", "found_city": "Pullman", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "46.72897 N", "found_GPS_long": "117.1648 W", "found_year": 2022, "p_institution": { "institution_code": "WSHS", "institution_name": "Washington State University", "institution_logo": "https://phagesdb.org/media/institutions/logo-washington-state.jpg", "institution_url": "http://www.wsu.edu/", "institution_city": "Pullman", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "46.732132", "institution_longitude": "-117.1544" }, "enriched_sample": false, "discovery_notes": "Found in a lovely little garden located on campus just outside of a greenhouse.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-12-09T09:07:42-05:00", "date_modified": "2022-12-09T09:07:42-05:00" }, { "phage_name": "Audrick", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I wanted to name it Leif Erikson because he was an awesome viking who is thought to be the first to discover the New World before Columbus. I couldn't use it because of it's negative connotation and slang meaning. I found the name Audrick in related names on a baby name generator. It is a German name that means \"noble ruler\" or \"noble friend\"", "finder_name": "Noelle Dayal", "found_city": "Potomac", "found_state": "MD", "found_country": "USA", "found_GPS_lat": "39.004361 N", "found_GPS_long": "77.21325 W", "found_year": 2015, "p_institution": { "institution_code": "USPH", "institution_name": "University of the Sciences (now St. Joseph's Univ)", "institution_logo": "https://phagesdb.org/media/institutions/USciences.png", "institution_url": "https://www.sju.edu/", "institution_city": "Philadelphia", "institution_state": "PA", "institution_country": "United States", "institution_latitude": "39.947118", "institution_longitude": "-75.20724" }, "enriched_sample": true, "discovery_notes": "Found in a rural area on my property, 300 ft from a main road. ", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "C", "temperate": false }, "psubcluster": { "subcluster": "C1" }, "morphotype": "MYO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2015-12-01", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 1507, "finishing_reactions": 0, "genome_length": 155205, "gcpercent": "64.7", "end_type": "CIRC", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 235, "num_tRNAs": 33, "num_tmRNAs": 1, "submitted_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Audrick_CompleteNotes.dnam5", "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/Audrick_Minimal_Final.dnam5", "submitted_author_list": "https://phagesdb.org/media/annotation_submission/AuthorLists/Audrick_Authors.csv", "submitted_cover_sheet": "https://phagesdb.org/media/annotation_submission/CoverSheets/Audrick_CoverSheet.pdf", "submitted_annotation_date": "2017-08-27T12:44:30-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/Audrick_flat_u7qXaeq.txt", "qced_genbank_file_date": "2017-08-27T12:48:52-04:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MF919493", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Audrick_Plaque.TIF", "em_file": "https://phagesdb.org/media/emPics/Audrick_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Audrick_Digest.jpg", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/Audrick.fasta", "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Audrick_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Audrick_EMPic_Thumb.jpg", "dnam_file": "https://phagesdb.org/media/dnam/Audrick.dnam5", "date_added": "2015-11-19T16:05:04-05:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "Audrizzle82", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Audrey Smith", "found_city": "Bloomington", "found_state": "IL", "found_country": "USA", "found_GPS_lat": "40.490007 N", "found_GPS_long": "88.993203 W", "found_year": 2014, "p_institution": { "institution_code": "ILWU", "institution_name": "Illinois Wesleyan University", "institution_logo": "https://phagesdb.org/media/institutions/logo-iwu_.jpg", "institution_url": "http://www.iwu.edu/", "institution_city": "Bloomington", "institution_state": "IL", "institution_country": "USA", "institution_latitude": "40.491190", "institution_longitude": "-88.99027" }, "enriched_sample": false, "discovery_notes": "Dry soil sample\r\n73 Degrees F.\r\n3 cm deep", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "small plaques", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2014-11-21T11:18:51-05:00", "date_modified": "2020-09-17T14:05:48-04:00" }, { "phage_name": "Auggie", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Makenna G and Sydney Campbell", "found_city": "Spokane", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "47.667 N", "found_GPS_long": "117.40282 W", "found_year": 2017, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2017-11-09T07:32:32-05:00", "date_modified": "2020-09-17T14:08:59-04:00" }, { "phage_name": "Auggie10", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": " Fabiola Nelson & Natalia Bello", "found_city": "Congers", "found_state": "NY", "found_country": "USA", "found_GPS_lat": "41.138483 N", "found_GPS_long": "73.936111 W", "found_year": 2018, "p_institution": { "institution_code": "NYAK", "institution_name": "Alliance University (formerly Nyack College)", "institution_logo": "https://phagesdb.org/media/institutions/AllianceUniversity.png", "institution_url": "https://allianceu.edu/", "institution_city": "New York", "institution_state": "NY", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "The soil from which this phage was derived was collected by Nissy Abraham. From this same soil sample, the G. terrae phage \"Lemonade\" was discovered.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2018-10-08T16:00:05-04:00", "date_modified": "2020-09-17T14:10:44-04:00" }, { "phage_name": "Aught", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name 'Aught' was given to this phage because the professor told us that we could name it pretty much anything at all. So that is exactly what happened. Aught means ‘anything at all’.", "finder_name": "Amanda Sirianni", "found_city": "Dahlonega", "found_state": "GA", "found_country": "USA", "found_GPS_lat": "34.532711 N", "found_GPS_long": "83.985391 W", "found_year": 2017, "p_institution": { "institution_code": "UNGA", "institution_name": "University of North Georgia", "institution_logo": "https://phagesdb.org/media/institutions/UniversityOfNorthGeorgia.jpg", "institution_url": "http://www.ung.edu/", "institution_city": "Dahlonega", "institution_state": "GA", "institution_country": "USA", "institution_latitude": "34.527800", "institution_longitude": "-83.98442" }, "enriched_sample": true, "discovery_notes": "Soil was collected outside a store in Downtown Dahlonega on September 9th at 2:37pm. It was 81° F and it had rained a few days prior. The weather presented patchy clouds but mostly consisted of sunny weather. The soil was very dark and was a host to many worms under the thin layer of mulch.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "The morphology stayed very inconsistent over the isolation processes. This gave the appearance of many different morphologies, which was diagnosed as a symptom of its instability.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aught_Plaque.jpeg", "em_file": "https://phagesdb.org/media/emPics/Aught_EMPic.jpeg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2023-09-26T14:59:42-04:00", "date_modified": "2023-09-26T15:01:46-04:00" }, { "phage_name": "AugPablito", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Jennifer Martinez", "found_city": "Richmond", "found_state": "VA", "found_country": "United States", "found_GPS_lat": "37.548688 N", "found_GPS_long": "77.460496 W", "found_year": 2024, "p_institution": { "institution_code": "VACU", "institution_name": "Virginia Commonwealth University", "institution_logo": "https://phagesdb.org/media/institutions/VCU.jpg", "institution_url": "http://www.vcu.edu/", "institution_city": "Richmond", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "37.549255", "institution_longitude": "-77.45341" }, "enriched_sample": true, "discovery_notes": "", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "consistently round 3mm clear plaques.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AugPablito_Plaque.PNG", "em_file": "https://phagesdb.org/media/emPics/AugPablito_EMPic.jpg", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-11-15T15:17:09-05:00", "date_modified": "2025-04-04T11:37:28-04:00" }, { "phage_name": "AugsMagnumOpus", "old_names": "", "program": { "short_name": "KBRIN", "program_name": "Kentucky Biomedical Infrastructure Network Small Genomes Discovery Program", "program_blurb": "", "program_URL": "" }, "naming_notes": "This may or may not be my Magnum Opus. ", "finder_name": "Audrey Schell", "found_city": "Morehead", "found_state": "KY", "found_country": "USA", "found_GPS_lat": "38.189528 N", "found_GPS_long": "83.431194 W", "found_year": 2015, "p_institution": { "institution_code": "MHDK", "institution_name": "Morehead State University", "institution_logo": "https://phagesdb.org/media/institutions/Morehead_State_University_Seal-01.png", "institution_url": "http://www.moreheadstate.edu/", "institution_city": "Morehead", "institution_state": "KY", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "In between Mays Hall and Butler Hall on Morehead State University campus. ", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "A", "temperate": true }, "psubcluster": { "subcluster": "A3" }, "morphotype": "SIPHO", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2015-09-18", "seq_facility": null, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 9095, "finishing_reactions": 0, "genome_length": 48545, "gcpercent": "64.2", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 10, "overhang_sequence": "CGGGTGGTAA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 87, "num_tRNAs": 3, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": "https://phagesdb.org/media/annotation_submission/DNAMasterFiles/AugsMagnumOpus_Minimal_Final_yMl6Riz.dnam5", "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": "2018-06-18T16:46:42-04:00", "qced_genbank_file": "https://phagesdb.org/media/annotation_submission/GenBankFiles/AugsMagnumOpus_flat.txt", "qced_genbank_file_date": "2018-06-18T16:46:42-04:00", "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": true, "genbank_accession": "MH536813", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/AugsMagnumOpus.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2015-05-21T10:37:48-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "August", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "August is a very pretty name for a phage and it means the great, the valuable, he had military skills and was very smart, in Latin it means to increase, and maybe in this way if we name it Augustus he will increase and by being very smart it will cure cancer maybe. ", "finder_name": "Alix Fogarty and Isaiah Whitehead", "found_city": "Kenosha", "found_state": "WI", "found_country": "USA", "found_GPS_lat": "42.621388 N", "found_GPS_long": "87.833333 W", "found_year": 2017, "p_institution": { "institution_code": "CRTH", "institution_name": "Carthage College", "institution_logo": "https://phagesdb.org/media/institutions/Carthage-vert-2c.png", "institution_url": "http://www.carthage.edu/", "institution_city": "Kenosha", "institution_state": "WI", "institution_country": "USA", "institution_latitude": "42.624596", "institution_longitude": "-87.81996" }, "enriched_sample": false, "discovery_notes": "It has taken a lot of time to isolate the phage we want to be able to make sure no other phage is present. We acheived it from regular soil outside of our campus by the lake. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2017-11-09T08:15:23-05:00", "date_modified": "2020-09-17T14:09:10-04:00" }, { "phage_name": "AuGUsta", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "This phage was named after a street near Gonzaga University. We payed homage to the school by including a capitalized \"GU\" in the named. Sko Zags!", "finder_name": "Fese Elango & Darius Mianji", "found_city": "Spokane", "found_state": "", "found_country": "USA", "found_GPS_lat": "47.665833 N", "found_GPS_long": "117.404444 W", "found_year": 2017, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "This sample was mud and debris taken near Lake Arthur at 47°39'57\"N 117°24'16\"W. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2017-11-20T16:36:48-05:00", "date_modified": "2020-09-17T14:08:59-04:00" }, { "phage_name": "Augustine", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Inspired by a Taylor Swift song.", "finder_name": "Abby Boden, Nina Pingel", "found_city": "Pullman", "found_state": "WA", "found_country": "United States", "found_GPS_lat": "46.72905 N", "found_GPS_long": "117.16274 W", "found_year": 2022, "p_institution": { "institution_code": "WSHS", "institution_name": "Washington State University", "institution_logo": "https://phagesdb.org/media/institutions/logo-washington-state.jpg", "institution_url": "http://www.wsu.edu/", "institution_city": "Pullman", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "46.732132", "institution_longitude": "-117.1544" }, "enriched_sample": false, "discovery_notes": "The air temperature when soil sample was collected at 12:44 on 02/10/22 was 7.78℃. The soil was collected from a depth of about 1.27cm deep and was relatively dry. The soil was collected underneath a grass patch and was in close proximity to foot traffic in an urban setting.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Augustine_Plaque.JPG", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-04-21T12:56:18-04:00", "date_modified": "2022-04-21T12:56:18-04:00" }, { "phage_name": "AugustRush", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The phage name augustrush came from Sophia Feist's favorite movie, \"August Rush.\" ", "finder_name": "Sophia Feist", "found_city": "Helena", "found_state": "MT", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2012, "p_institution": { "institution_code": "MTEC", "institution_name": "Montana Technological University", "institution_logo": "https://phagesdb.org/media/institutions/mtechlogo.png", "institution_url": "http://www.mtech.edu/", "institution_city": "Butte", "institution_state": "MT", "institution_country": "USA", "institution_latitude": "46.012558", "institution_longitude": "-112.5576" }, "enriched_sample": false, "discovery_notes": "Horse Manure", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Clear, lytic plaques at 24 hours\r\nboth small and medium plaques (5mm to 15mm) ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2012-12-06T22:18:23-05:00", "date_modified": "2017-09-12T10:27:25-04:00" }, { "phage_name": "Augustus", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "this name is the name of one of my favorite book characters.", "finder_name": "Katherine Greene", "found_city": "Holland", "found_state": "MI", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2013, "p_institution": { "institution_code": "HOPE", "institution_name": "Hope College", "institution_logo": "https://phagesdb.org/media/institutions/Hope.jpg", "institution_url": "http://www.hope.edu/", "institution_city": "Holland", "institution_state": "MI", "institution_country": "USA", "institution_latitude": "42.788980", "institution_longitude": "-86.10404" }, "enriched_sample": null, "discovery_notes": "This phage was extracted from a soil sample found off the sidewalk in front of a building on the campus of Hope College.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaque size averages at about 5mm in diameter after 48 hours, with turbidness around the edges.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2013-11-11T09:06:43-05:00", "date_modified": "2020-09-17T14:05:29-04:00" }, { "phage_name": "AuLait", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Phage obtained originally from a light brown sample. ", "finder_name": "Andrew Mattei", "found_city": "Williamsburg", "found_state": "VA", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2014, "p_institution": { "institution_code": "CWAM", "institution_name": "College of William & Mary", "institution_logo": "https://phagesdb.org/media/institutions/william_and_mary-01.jpg", "institution_url": "http://www.wm.edu/", "institution_city": "Williamsburg", "institution_state": "VA", "institution_country": "USA", "institution_latitude": "37.272588", "institution_longitude": "-76.71691" }, "enriched_sample": true, "discovery_notes": "From a kitchen compost heap. Capsid 60 nanometers and tail was 220 nanometers long. ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Plaques are moderately sized, some are symmetrical and others are ovular. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Rhodococcus", "species": "erythropolis", "strain_name": "RIA 643", "strain_species": { "id": 9, "genus": "Rhodococcus", "species_name": "erythropolis", "species_genus": { "id": 2, "genus_domain": "Bacteria", "genus_name": "Rhodococcus", "genus_wikipedia": "http://en.wikipedia.org/wiki/Rhodococcus", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "15903", "genbank_accession": "", "strain_information": "Originally listed on ATCC as Rhodococcus globerulus." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 9, "genus": "Rhodococcus", "species_name": "erythropolis", "species_genus": { "id": 2, "genus_domain": "Bacteria", "genus_name": "Rhodococcus", "genus_wikipedia": "http://en.wikipedia.org/wiki/Rhodococcus", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 2, "genus_domain": "Bacteria", "genus_name": "Rhodococcus", "genus_wikipedia": "http://en.wikipedia.org/wiki/Rhodococcus", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2014-11-18T21:50:10-05:00", "date_modified": "2020-09-17T14:05:45-04:00" }, { "phage_name": "Aulisio", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Aulisio- it is my last name.", "finder_name": "Courtney Aulisio", "found_city": "Spokane", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "47.686589 N", "found_GPS_long": "117.435432 E", "found_year": 2016, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "The phages were found at Drumhellar Springs near downtown Spokane.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "MYO", "plaque_notes": "Plaques are very small. ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "sp. ", "strain_name": "ATCC 21022", "strain_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "21022", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aulisio_Plaque.jpg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aulisio.png", "em_thumb_file": null, "dnam_file": null, "date_added": "2016-07-26T19:42:35-04:00", "date_modified": "2020-09-17T14:07:35-04:00" }, { "phage_name": "Aumarh", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Darieon", "found_city": "Atlanta", "found_state": "GA", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2018, "p_institution": { "institution_code": "MORE", "institution_name": "Morehouse College", "institution_logo": "https://phagesdb.org/media/institutions/Morehouse_Logo.jpg", "institution_url": "http://www.morehouse.edu/", "institution_city": "Atlanta", "institution_state": "GA", "institution_country": "USA", "institution_latitude": "33.746175", "institution_longitude": "-84.41438" }, "enriched_sample": null, "discovery_notes": "", "isolation_temperature": null, "growth_notes": "", "pcluster": { "cluster": "Q", "temperate": true }, "psubcluster": null, "morphotype": "", "plaque_notes": "My middle name", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2018-11-30T20:42:50-05:00", "date_modified": "2021-10-15T14:03:17-04:00" }, { "phage_name": "AuntGwenStacy", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name came from 3 chickens named Aunt May, Gwen, and Stacy where the sample came from.", "finder_name": "Kris, Christina, Kessler, Fatima, Mayra, Jonathon", "found_city": "Maxwell", "found_state": "TX", "found_country": "USA", "found_GPS_lat": "29.922176 N", "found_GPS_long": "97.85208 W", "found_year": 2024, "p_institution": { "institution_code": "ASTN", "institution_name": "Austin Community College Highland Campus", "institution_logo": "https://phagesdb.org/media/institutions/AustinCC.jpg", "institution_url": "https://www.austincc.edu/campuses/highland-campus/", "institution_city": "Austin", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "Found in chicken dust bath.\r\nUnable to put full names - Jonathon Nuzum, Kristen Smith, Christina Martinez, Kessler Pontin, Fatima Villagrana, Mayra Vazquez Martinez\r\nDirected by Kissaou Tchedre", "isolation_temperature": 37, "growth_notes": "", "pcluster": { "cluster": "Y", "temperate": true }, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Cloudy circular plaque 1/4 inch in diameter", "lysogeny_notes": "", "seq_finished": true, "date_finished": "2024-07-16", "seq_facility": { "short_name": "PBI", "facility_name": "Pittsburgh Bacteriophage Institute", "contact_person": "Dan Russell", "shipping_address": "344 Crawford Hall\r\n4249 5th Avenue\r\nPittsburgh, PA 15260", "facility_website": "" }, "seq_method": { "short_name": "ILLUMINA", "method_name": "Illumina" }, "coverage": 3380, "finishing_reactions": 0, "genome_length": 75686, "gcpercent": "66.0", "end_type": "3PRI", "repeat_length": null, "end_notes": "", "overhang_length": 12, "overhang_sequence": "TGCCGCCCGGTA", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": true, "num_ORFs": 130, "num_tRNAs": 2, "num_tmRNAs": 0, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AuntGwenStacy_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/AuntGwenStacy_EMPic.png", "digest_file": "https://phagesdb.org/media/digestPics/AuntGwenStacy_Digest.png", "vdigest_file": null, "fasta_file": "https://phagesdb.org/media/fastas/AuntGwenStacy.fasta", "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2024-05-08T15:03:16-04:00", "date_modified": "2025-11-01T06:41:04-04:00" }, { "phage_name": "AuntiePlymes", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "The name for this phage came from our professor, Dr. Plymale's nickname.", "finder_name": "Raegan Swindle and Kimber Mitcham", "found_city": "Haskell", "found_state": "AR", "found_country": "United States", "found_GPS_lat": "34.53661 N", "found_GPS_long": "92.63205 W", "found_year": 2022, "p_institution": { "institution_code": "OUBU", "institution_name": "Ouachita Baptist University", "institution_logo": "https://phagesdb.org/media/institutions/ouachita-baptist-university.jpg", "institution_url": "http://www.obu.edu/", "institution_city": "Arkadelphia", "institution_state": "AR", "institution_country": "USA", "institution_latitude": "34.125830", "institution_longitude": "-93.05277" }, "enriched_sample": true, "discovery_notes": "Found in a place with lots of sun. The dirt was freshly leveled and seeds had been dropped for a food plot meant for deer. It is surrounded by trees and a pond nearby. The soil was very moist.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Clear plaques with no tails. Plaques were around 1 centimeter in diameter.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "CAG3", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "Isoniazid-resistant mutant of G terrae 3612" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AuntiePlymes_Plaque.jpeg", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/AuntiePlymes_Plaque_thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/AuntiePlymes_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2022-10-07T08:25:32-04:00", "date_modified": "2024-02-25T15:27:53-05:00" }, { "phage_name": "AuntSally", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "In one of the early days of my class' phage discovery journey, we were working on our first serial dilution, which includes doing a \"Meet and Greet\" with host bacteria. I was having trouble getting the bacteria to move up the tube and hit the serial dilution sample on the wall of said tube and said \"Come on, go hug your dear Aunt Sally, she misses you.\" After asking what in the world I was talking about, one of my labmates said that I had to name my phage \"Aunt Sally\" if what I was plating that day turned out to be a viable phage. It was not, but I liked the name enough to use it for my next samples, and here we are. Funnily enough, I actually don't have an Aunt Sally.", "finder_name": "Mel Buzzanga", "found_city": "Manchester", "found_state": "NH", "found_country": "United States", "found_GPS_lat": "42.994319 N", "found_GPS_long": "71.467308 E", "found_year": 2022, "p_institution": { "institution_code": "UNHM", "institution_name": "University of New Hampshire at Manchester", "institution_logo": "https://phagesdb.org/media/institutions/unh_manchester.png", "institution_url": "", "institution_city": "Manchester", "institution_state": "NH", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "The soil was full of sticks and pebbles. The sample in question was collected from under some leaves at the base of a tree across the street from the UNH Manchester campus.", "isolation_temperature": 16, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "It appears to be cloudy and lytic, with no visible margin. The plaques are approximately 1mm in diameter.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AuntSally_Plaque.HEIC", "em_file": "https://phagesdb.org/media/emPics/AuntSally_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/AuntSally_Digest.HEIC", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2022-10-05T09:19:56-04:00", "date_modified": "2024-02-25T15:27:55-05:00" }, { "phage_name": "Aura", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Aura is another name for halo. Our original plaques had halos.", "finder_name": "Bailey Hyatt ", "found_city": "Racine ", "found_state": "WI", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2016, "p_institution": { "institution_code": "CRTH", "institution_name": "Carthage College", "institution_logo": "https://phagesdb.org/media/institutions/Carthage-vert-2c.png", "institution_url": "http://www.carthage.edu/", "institution_city": "Kenosha", "institution_state": "WI", "institution_country": "USA", "institution_latitude": "42.624596", "institution_longitude": "-87.81996" }, "enriched_sample": true, "discovery_notes": "Soil sample taken from under mulch, soil was very moist ", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Our plaques are large and have halos.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aura_Plaque.JPG", "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aura_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2016-12-08T14:03:05-05:00", "date_modified": "2020-09-17T14:07:08-04:00" }, { "phage_name": "Auralea", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "the name of my phage comes from my favorite song \"aura lea\". it is a famous song during the civil war.", "finder_name": "Tony su", "found_city": "columbus", "found_state": "OH", "found_country": "USA", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2013, "p_institution": { "institution_code": "TOSU", "institution_name": "The Ohio State University", "institution_logo": "https://phagesdb.org/media/institutions/ohiostate_logo.jpg", "institution_url": "http://www.osu.edu/", "institution_city": "Columbus", "institution_state": "OH", "institution_country": "USA", "institution_latitude": "40.014457", "institution_longitude": "-83.03091" }, "enriched_sample": true, "discovery_notes": "I dug half tube of soil from a tree in front of the Thompson library.And then I flood it with phage buffer and get my phage.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Auralea_Plaque.jpg", "em_file": null, "digest_file": "https://phagesdb.org/media/digestPics/Auralea_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Auralea_Plaque_Thumb_avyJiQx.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2013-11-25T14:13:13-05:00", "date_modified": "2020-09-17T14:05:24-04:00" }, { "phage_name": "AuraMarigold", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Auramarigold is named after how Arielle met her fiancé in a chemistry\r\nlab and Aura was their initials. The marigold part is for us having found it in a flower bed\r\nand it being Jessica’s mom’s favorite flower.", "finder_name": "Arielle Ulibarri and Jessica Moore", "found_city": "Edmond", "found_state": "OK", "found_country": "USA", "found_GPS_lat": "35.658589 N", "found_GPS_long": "97.513158 W", "found_year": 2020, "p_institution": { "institution_code": "UCOK", "institution_name": "University of Central Oklahoma", "institution_logo": "https://phagesdb.org/media/institutions/UniversityofCentralOklahoma.JPG", "institution_url": "https://www.uco.edu/", "institution_city": "Edmond", "institution_state": "OK", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "he soil was found in a flower bed about 1.5 inches down. The soil was very loose and dark, not sandy or clay-like.", "isolation_temperature": 28, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "he plaques are unusually small, less than 0.1 cm, but large enough to extract some of the phages using a pipette tip. They are entirely clear with a distinct border, that is, there is nothing visibly cloudy inside the plaques.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "sp. ", "strain_name": "ATCC 21022", "strain_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "21022", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 8, "genus": "Arthrobacter", "species_name": "sp. ", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Auramarigold_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/AuraMarigold_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Auramarigold_Plaque_Thumb.jpg", "em_thumb_file": null, "dnam_file": null, "date_added": "2020-11-02T12:31:24-05:00", "date_modified": "2021-05-25T13:14:23-04:00" }, { "phage_name": "Auran", "old_names": "", "program": { "short_name": "MCG_Durban", "program_name": "Mycobacterial Genetics Course, Durban, South Africa", "program_blurb": "", "program_URL": "" }, "naming_notes": "", "finder_name": "Kiyara Sha", "found_city": "Durban", "found_state": "", "found_country": "South Africa", "found_GPS_lat": "", "found_GPS_long": "", "found_year": 2012, "p_institution": { "institution_code": "KRIT", "institution_name": "University of Kwazulu-Natal", "institution_logo": "https://phagesdb.org/media/institutions/KwazNat-01.jpg", "institution_url": "http://www.ukzn.ac.za/Homepage.aspx", "institution_city": "", "institution_state": "", "institution_country": "", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "garden, 2 cm below the surface, 22°C", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2012-07-20T05:47:24-04:00", "date_modified": "2017-09-24T10:17:10-04:00" }, { "phage_name": "Auransom", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "I combined the name of the host with my last name.", "finder_name": "Evan Ransom", "found_city": "Maurice", "found_state": "LA", "found_country": "United States", "found_GPS_lat": "30.04897 N", "found_GPS_long": "92.12354 W", "found_year": 2024, "p_institution": { "institution_code": "SELA", "institution_name": "Southeastern Louisiana University", "institution_logo": "https://phagesdb.org/media/institutions/southeastern.png", "institution_url": "https://www.southeastern.edu/", "institution_city": "Hammond", "institution_state": "LA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": true, "discovery_notes": "Found in a Crawfish Farm.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Arthrobacter", "species": "aurescens", "strain_name": "NRRL B-2879", "strain_species": { "id": 99, "genus": "Arthrobacter", "species_name": "aurescens", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 99, "genus": "Arthrobacter", "species_name": "aurescens", "species_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 3, "genus_domain": "Bacteria", "genus_name": "Arthrobacter", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2025-03-28T16:25:05-04:00", "date_modified": "2025-03-28T16:25:05-04:00" }, { "phage_name": "AureaDelicata", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Although slightly morbid, my golden retriever is buried in the same garden where I got my dirt sample from. So I used the Latin form of the word \"golden\". My phage seems to be quite weak and delicate, therefore I also used the Latin word for \"delicate\".", "finder_name": "Stephanie Fuller", "found_city": "Media", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "39.916124 N", "found_GPS_long": "75.461137 W", "found_year": 2016, "p_institution": { "institution_code": "USPH", "institution_name": "University of the Sciences (now St. Joseph's Univ)", "institution_logo": "https://phagesdb.org/media/institutions/USciences.png", "institution_url": "https://www.sju.edu/", "institution_city": "Philadelphia", "institution_state": "PA", "institution_country": "United States", "institution_latitude": "39.947118", "institution_longitude": "-75.20724" }, "enriched_sample": true, "discovery_notes": "I used a small hand shovel and dug about 3-6 inches into the dirt under a rose bush in a garden in my back yard. ", "isolation_temperature": 4, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "MYO", "plaque_notes": "My phage plaques are quite tiny.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/AureaDelicata_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/AureaDelicata_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/AureaDelicata_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/AureaDelicata_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2016-11-13T07:49:52-05:00", "date_modified": "2020-09-17T14:07:14-04:00" }, { "phage_name": "Aurelia", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Aurelia is an ancient Roman name meaning \"golden\" and I wanted my bacteriophage to have a strong name.", "finder_name": "Madison Beckwith", "found_city": "Westworth Village", "found_state": "TX", "found_country": "USA", "found_GPS_lat": "32.7593 N", "found_GPS_long": "97.4254 W", "found_year": 2017, "p_institution": { "institution_code": "UNTD", "institution_name": "University of North Texas", "institution_logo": "https://phagesdb.org/media/institutions/UNT-01.jpg", "institution_url": "http://www.unt.edu/", "institution_city": "Denton", "institution_state": "TX", "institution_country": "USA", "institution_latitude": "33.207825", "institution_longitude": "-97.15253" }, "enriched_sample": true, "discovery_notes": "Navy Federal Credit Union, Westworth Village, TX\r\nLatitude: 32.7593 N\r\nLongitude: 97.4254 W\r\nSeptember 1, 2017\r\n3:12 p.m.\r\n89 degrees F\r\nSemi-moist soil", "isolation_temperature": 35, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Typical plaque size has been about 1 micrometer and all have been circular in shape. Most plaques were clear, however some were cloudy. ", "lysogeny_notes": "No lysogens found.", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Streptomyces", "species": "griseus", "strain_name": "ATCC 10137", "strain_species": { "id": 4, "genus": "Streptomyces", "species_name": "griseus", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "10137", "genbank_accession": "", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 4, "genus": "Streptomyces", "species_name": "griseus", "species_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 4, "genus_domain": "Bacteria", "genus_name": "Streptomyces", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aurelia_Plaque.png", "em_file": "https://phagesdb.org/media/emPics/Aurelia_EMPic.jpeg", "digest_file": "https://phagesdb.org/media/digestPics/Aurelia_Digest.jpg", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aurelia_Plaque_Thumb.png", "em_thumb_file": "https://phagesdb.org/media/emPics/Aurelia_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2017-10-26T08:48:47-04:00", "date_modified": "2020-09-17T14:09:20-04:00" }, { "phage_name": "Aurelius", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "John Culver", "found_city": "Spokane", "found_state": "WA", "found_country": "USA", "found_GPS_lat": "47.660824 N", "found_GPS_long": "117.419499 W", "found_year": 2010, "p_institution": { "institution_code": "GONZ", "institution_name": "Gonzaga University", "institution_logo": "https://phagesdb.org/media/institutions/Gonzaga-01.jpg", "institution_url": "http://www.gonzaga.edu/", "institution_city": "Spokane", "institution_state": "WA", "institution_country": "USA", "institution_latitude": "47.667468", "institution_longitude": "-117.4029" }, "enriched_sample": true, "discovery_notes": "The sample was obtained from potting soil in a raised flower bed.\r\nDepth: 6 cm.\r\nTemp: 17°C.\r\nEnvironment: Urban park.", "isolation_temperature": null, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "Halo-shaped plaques with a clear interior and moderately turbid outer ring.\r\nTypical plaque diameter: 2 mm.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": "https://phagesdb.org/media/emPics/Aurelius_EMPic.tif", "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": "https://phagesdb.org/media/emPics/Aurelius_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2010-11-29T17:24:42-05:00", "date_modified": "2017-09-12T10:21:46-04:00" }, { "phage_name": "Aurelo", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Aurelo is of latin origin, meaning \"golden\" which represents something precious or rare.", "finder_name": "K. Killam, H. Sanders, S. Chege", "found_city": "", "found_state": "", "found_country": "", "found_GPS_lat": "42.38927 N", "found_GPS_long": "72.52619 W", "found_year": 2025, "p_institution": { "institution_code": "UMAS", "institution_name": "University of Massachusetts Amherst", "institution_logo": "https://phagesdb.org/media/institutions/UMassAmherst.png", "institution_url": "", "institution_city": "Amherst", "institution_state": "MA", "institution_country": "USA", "institution_latitude": "", "institution_longitude": "" }, "enriched_sample": false, "discovery_notes": "The phage came from topsoil near the campus pond, by some shrubbery.", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "The morphology is around 1 millimeter in diameter, slightly cloudy but mostly clear and some rough edges.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Microbacterium", "species": "foliorum", "strain_name": "NRRL B-24224", "strain_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "", "genbank_accession": "NZ_CP031425.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 49, "genus": "Microbacterium", "species_name": "foliorum", "species_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 12, "genus_domain": "Bacteria", "genus_name": "Microbacterium", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": null, "em_file": null, "digest_file": null, "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": null, "em_thumb_file": null, "dnam_file": null, "date_added": "2025-10-22T12:31:20-04:00", "date_modified": "2025-10-22T12:31:20-04:00" }, { "phage_name": "Aureola", "old_names": "GordoniaRamsae", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "Aureola means halo in Spanish. These plaques show halo morphology", "finder_name": "Nikita Patel", "found_city": "Pittsburgh", "found_state": "PA", "found_country": "USA", "found_GPS_lat": "40.44325 N", "found_GPS_long": "79.952417 W", "found_year": 2017, "p_institution": { "institution_code": "PITT", "institution_name": "University of Pittsburgh", "institution_logo": "https://phagesdb.org/media/institutions/Pitt1.gif", "institution_url": "http://www.pitt.edu/", "institution_city": "Pittsburgh", "institution_state": "PA", "institution_country": "USA", "institution_latitude": "40.446981", "institution_longitude": "-79.95414" }, "enriched_sample": false, "discovery_notes": "", "isolation_temperature": 30, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "SIPHO", "plaque_notes": "Plaques have a halo type morphology with a hazy ring around a clear plaque. Most plaques are <2mm in diameter ", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Gordonia", "species": "terrae", "strain_name": "3612", "strain_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "25594", "genbank_accession": "NZ_CP016594.1", "strain_information": "" }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 16, "genus": "Gordonia", "species_name": "terrae", "species_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 6, "genus_domain": "Bacteria", "genus_name": "Gordonia", "genus_wikipedia": "", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aureola_Plaque.JPG", "em_file": "https://phagesdb.org/media/emPics/Aureola_EMPic.png", "digest_file": "https://phagesdb.org/media/digestPics/Aureola_Digest.PNG", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aureola_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Aureola_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2017-11-28T09:42:36-05:00", "date_modified": "2021-05-25T13:14:24-04:00" }, { "phage_name": "Aureole", "old_names": "", "program": { "short_name": "SEAPHAGES", "program_name": "Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science", "program_blurb": "", "program_URL": "https://www.hhmi.org/programs/science-education-alliance" }, "naming_notes": "", "finder_name": "Christopher Davis", "found_city": "Bryon Center", "found_state": "MI", "found_country": "USA", "found_GPS_lat": "42.812251 N", "found_GPS_long": "85.722806 W", "found_year": 2010, "p_institution": { "institution_code": "HOPE", "institution_name": "Hope College", "institution_logo": "https://phagesdb.org/media/institutions/Hope.jpg", "institution_url": "http://www.hope.edu/", "institution_city": "Holland", "institution_state": "MI", "institution_country": "USA", "institution_latitude": "42.788980", "institution_longitude": "-86.10404" }, "enriched_sample": true, "discovery_notes": "Aureole was isolated from a very moist pile of cow manure that had been aged for six months. There were no trees in the immediate area and the sample was taken on the northeast side of a barn. The air temperature was 76 degrees Fahrenheit and the time was 4 pm.", "isolation_temperature": 37, "growth_notes": "", "pcluster": null, "psubcluster": null, "morphotype": "", "plaque_notes": "After 24 hours incubated at 37 degrees Celsius, Aureole produced a bull’s eye pattern with a clearly lysed center and a turbid outer zone. Plaques were on average 5.3 mm in total diameter (n=3) and had, on average, a 4 mm diameter clear lysed center (n=3). After another 24 hours at room temperature (77 degrees Fahrenheit) a sharp halo structure was developed around the original plaques.", "lysogeny_notes": "", "seq_finished": false, "date_finished": null, "seq_facility": null, "seq_method": null, "coverage": null, "finishing_reactions": null, "genome_length": null, "gcpercent": null, "end_type": "", "repeat_length": null, "end_notes": "", "overhang_length": null, "overhang_sequence": "", "sequencing_notes": "", "duplicate_notes": "", "is_annotated": false, "is_phamerated": false, "num_ORFs": null, "num_tRNAs": null, "num_tmRNAs": null, "submitted_dnam_file": null, "submitted_minimal_dnam_file": null, "submitted_author_list": null, "submitted_cover_sheet": null, "submitted_annotation_date": null, "qced_genbank_file": null, "qced_genbank_file_date": null, "isolation_host": { "genus": "Mycobacterium", "species": "smegmatis", "strain_name": "mc²155", "strain_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "ATCC_ID": "700084", "genbank_accession": "CP102346.1", "strain_information": "Though there is a version of this strain's genome available on GenBank (NC_008596.1), we in the Hatfull lab at the University of Pittsburgh have recently sequenced the strain we have in our lab and found it has a number of differences from that GenBank-published sequence. Hence, we've provided the link to the GenBank file that matches what we have in our lab and have distributed to other institutions." }, "verified_hosts": [], "verified_non_hosts": [], "host_species": { "id": 1, "genus": "Mycobacterium", "species_name": "smegmatis", "species_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "species_wikipedia": "" }, "host_genus": { "id": 1, "genus_domain": "Bacteria", "genus_name": "Mycobacterium", "genus_wikipedia": "http://en.wikipedia.org/wiki/Mycobacterium", "is_actinomycetales": true }, "in_paper": false, "paper_published_in": null, "in_genbank": false, "genbank_accession": "", "refseq_accession": "", "plaque_file": "https://phagesdb.org/media/plaquePics/Aureole_Plaque.jpg", "em_file": "https://phagesdb.org/media/emPics/Aureole_EMPic.tif", "digest_file": "https://phagesdb.org/media/digestPics/Aureole_Digest.JPG", "vdigest_file": null, "fasta_file": null, "plaque_thumb_file": "https://phagesdb.org/media/plaquePics/Aureole_Plaque_Thumb.jpg", "em_thumb_file": "https://phagesdb.org/media/emPics/Aureole_EMPic_Thumb.jpg", "dnam_file": null, "date_added": "2010-11-18T03:25:18-05:00", "date_modified": "2020-07-17T21:08:14-04:00" } ] }
