| Detailed Information for Phage SophKB |
| Discovery Information |
| Isolation Host | Mycobacterium smegmatis mc²155 |
| Found By | Sophia McGonagle and Kailey Leclerc |
| Year Found | 2022 |
| Location Found | MA United States of America |
| Finding Institution | Merrimack College |
| Program | Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science |
| From enriched soil sample? | Yes |
| Isolation Temperature | Not entered |
| GPS Coordinates | 42.14549 N, 72.45588 W Map |
| Discovery Notes | The location where the soil was collected is a vegetable garden, which grows tomatoes, squash, green beans, and peas. The soil was initially disturbed by a shovel. After four passes with the shovel, sampling was started. The hole dug to collect the sample was approximately 3-4 inches deep. The soil was sold and compact, as it had just rained. The shovel was used to loosen the soil. The tube given in class was used as a vessel to directly scoop up approximately 20mL of soil. The tube was then labeled with the names of the group members, the time that it was collected (6:00 pm) and the date (September 18, 2022). The ambient temperature for the day was 83°F and the relative humidity
was 45%. The soil was collected one day before the isolation was started and was refrigerated for 20 hours before isolation began. |
| Naming Notes | Named after the students who discovered the phage. |
| Sequencing Information |
| Sequencing Complete? | Yes |
| Date Sequencing Completed | Dec 15, 2022 |
| Sequencing Facility | Pittsburgh Bacteriophage Institute |
| Shotgun Sequencing Method | Illumina Sequencing |
| Approximate Shotgun Coverage | 467 |
| Genome length (bp) | 75585 |
| Character of genome ends | 3' Sticky Overhang |
| Overhang Length | 9 bases |
| Overhang Sequence | CGCTTGTCA |
| GC Content | 63.0% |
| Sequencing Notes | The sequencing reads showed some contamination of the sample by other phages. One of the other phages (present in ~15% of the total reads) was MAckerman. There was also a novel Cluster A1 phage (~7%) which could be partially assembled. |
| Fasta file available? | Yes: Download fasta file |
| Characterization |
| Cluster | E |
| Subcluster | -- |
| Cluster Life Cycle | Temperate |
| Other Cluster Members |
|
| Annotating Institution | Merrimack College |
| Annotation Status | In GenBank |
| Plaque Notes | The plaques were very clear, but seem to be confluent. The plaques were about 0.1 cm in diameter. |
| Has been Phamerated? | Yes |
| Gene List |
|
| Submitted Annotation in DNA Master Format | Download |
| Submitted Minimal DNA Master File | Download |
| Author List | Download |
| Annotation Cover Sheet | Download |
| Publication Info |
| Uploaded to GenBank? | Yes |
| GenBank Accession | PP208932 |
| Refseq Number | None yet |
| Archiving Info |
| Archiving status |
Archived |
| Pitt Freezer Box# |
150 |
| Pitt Freezer Box Grid# |
G1 |
| Available Files |
| Plaque Picture | Download |
| GenBank File for Phamerator | Download |
