Mycobacterium phage HamSlice
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Detailed Information for Phage HamSlice
Discovery Information
Isolation HostMycobacterium smegmatis mc²155
Found ByJulianne Sticha
Year Found2012
Location FoundExport, PA USA
Finding InstitutionSeton Hill University
ProgramScience Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science
From enriched soil sample?Yes
Isolation TemperatureNot entered
GPS Coordinates40.408889 N, 79.659444 W Map
Discovery NotesThe soil was relatively dry but a deep dark brown, with a rich earthy smell. There were some shallow grass root fragments mixed with differently sized clumps of soil. Site was at the base of a butternut tree aged over 100yrs. Fresh nuts in varying stages of decay were littered around the site, as well as ivy and fallen leaves. Soil was collected approximately 2cm below the surface, soil temp was approximately 20C at 9/10/2012 at 11:53pm EST.
Sequencing Information
Sequencing Complete?Yes
Date Sequencing CompletedJan 16, 2013
Sequencing FacilityPittsburgh Bacteriophage Institute
Shotgun Sequencing MethodIon Torrent
Approximate Shotgun Coverage1200
Sanger Finishing Reactions10
Genome length (bp)51370
Character of genome ends3' Sticky Overhang
Overhang Length10 bases
Overhang SequenceCGGCCGGTAA
GC Content63.9%
Fasta file available?Yes: Download fasta file
Characterization
ClusterA
SubclusterA4
Cluster Life CycleTemperate
Other Cluster Members
Annotating InstitutionUnknown or unassigned
Annotation StatusIn GenBank
Plaque NotesPlaques were approximately 2-2.5mm in diameter, with round, but irregular margins. If left to incubate beyond 24hours 'halos' begin to develop around the plaques that are more opaque than the initial plaque. Plaques forming close together are smaller than those that are well isolated.
MorphotypeSiphoviridae
Number of Genes84
Number of tRNAs0
Number of tmRNAs0
Has been Phamerated?Yes
Gene List
Submitted Annotation in DNA Master FormatDownload
Author ListDownload
Annotation Cover SheetDownload
Publication Info
Uploaded to GenBank?Yes
GenBank AccessionKP057620
Refseq NumberNone yet
Published in PaperPope, Bowman, Russell, et al 2015, eLIFE: Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity
Archiving Info
Archiving status Archived
SEA Lysate Titer 2.8E9
Date of SEA Lysate Titering Oct 23, 2012
Pitt Freezer Box# 38
Pitt Freezer Box Grid# 66