Gordonia phage Zarbodnamra
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Detailed Information for Phage Zarbodnamra
Discovery Information
Isolation HostGordonia terrae 3612
Found ByArmando Braz
Year Found2017
Location FoundBethlehem, PA USA
Finding InstitutionUniversity of Pittsburgh
ProgramScience Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science
From enriched soil sample?No
Isolation TemperatureNot entered
GPS Coordinates40.65659 N, 75.342957 W Map
Discovery NotesLocation: This soil sample was collected from my hometown of Bethlehem, PA just prior to the start of the semester. I wanted to see if I'd see any luck with some soil from over 300 miles away, just out of curiosity.

The Soil Conditions: I retrieved this soil from my vegetable garden that had been used the previous summer. This soil is used annually to grow tomatoes, peppers, cucumbers, parsley, broccoli and other herbs/vegetables. Every year I use miracle grow nutrients in order to give the plants more of what they need to grow. On the day of soil collection (Jan 8, 2017), the sol was very dry and frozen. The soil appeared "deadened" in that the soil was a gray brown colour and was not very cohesive (sandy/loamy texture). There was a lot of plant detritus mixed in with the soil.

Weather Conditions: At the time of collection, air temperature was -6 degrees celcius. 3 days prior there was a snow storm, with snow from that still present on the ground. Weather over the past 24 hours involved blustering winds, with freezing rain overnight. During the actual collection of the soil however, skies were clear.
Naming NoteszarBodnamra comes from a nickname my South African friend would always call me in primary school. It has a catchy ring to it and I like it. Note that the "r's" are silent.
Sequencing Information
Sequencing Complete?Yes
Date Sequencing CompletedMay 16, 2017
Sequencing FacilityPittsburgh Bacteriophage Institute
Shotgun Sequencing MethodIllumina Sequencing
Approximate Shotgun Coverage1504
Genome length (bp)49729
Character of genome ends3' Sticky Overhang
Overhang Length10 bases
Overhang SequenceTCGCCGGTGA
GC Content67.3%
Fasta file available?Yes: Download fasta file
Characterization
ClusterCV
Subcluster--
Cluster Life CycleTemperate
Other Cluster Members
Annotating InstitutionUniversity of Pittsburgh
Annotation StatusIn GenBank
Plaque NotesMy phage produced clear plaques that vary in diameter size, ranging from diameter = .5mm to diameter = 3mm. The plaques are for the most part entirely circular and form a well defined boundary between where cells underwent lysis, and where cells did not.
MorphotypeSiphoviridae
Has been Phamerated?Yes
Gene List

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Zarbodnamra_1
(terminase small subunit)

Zarbodnamra_2
(terminase large subunit)

Zarbodnamra_3
(portal protein)

Zarbodnamra_4
(capsid maturation protease)

Zarbodnamra_5
(scaffolding protein)

Zarbodnamra_6
(major capsid protein)

Zarbodnamra_7

Zarbodnamra_8

Zarbodnamra_9

Zarbodnamra_10

Zarbodnamra_11

Zarbodnamra_12

Zarbodnamra_13

Zarbodnamra_14
(major tail protein)

Zarbodnamra_15
(tail assembly chaperone)

Zarbodnamra_16
(tail assembly chaperone)

Zarbodnamra_17
(tape measure protein)

Zarbodnamra_18
(minor tail protein)

Zarbodnamra_19
(minor tail protein)

Zarbodnamra_20
(lysin A, peptidase domain)

Zarbodnamra_21
(lysin A, glycosyl hydrolase domain)

Zarbodnamra_22
(holin)

Zarbodnamra_23
(membrane protein)

Zarbodnamra_24
(membrane protein)

Zarbodnamra_25
(lysin B)

Zarbodnamra_26

Zarbodnamra_27
(minor tail protein)

Zarbodnamra_28
(minor tail protein)

Zarbodnamra_29

Zarbodnamra_30
(minor tail protein)

Zarbodnamra_31

Zarbodnamra_32

Zarbodnamra_33

Zarbodnamra_34
(RelB-like antitoxin)

Zarbodnamra_35
(RelE-like toxin)

Zarbodnamra_36

Zarbodnamra_37

Zarbodnamra_38

Zarbodnamra_39
(integrase)

Zarbodnamra_40

Zarbodnamra_41
(immunity repressor)

Zarbodnamra_42
(MerR-like helix-turn-helix DNA binding domain protein)

Zarbodnamra_43

Zarbodnamra_44

Zarbodnamra_45

Zarbodnamra_46

Zarbodnamra_47

Zarbodnamra_48

Zarbodnamra_49

Zarbodnamra_50
(helix-turn-helix DNA binding protein)

Zarbodnamra_51

Zarbodnamra_52

Zarbodnamra_53

Zarbodnamra_54

Zarbodnamra_55

Zarbodnamra_56

Zarbodnamra_57
(exonuclease)

Zarbodnamra_58
(ssDNA binding protein)

Zarbodnamra_59

Zarbodnamra_60

Zarbodnamra_61

Zarbodnamra_62

Zarbodnamra_63

Zarbodnamra_64

Zarbodnamra_65
(nucleotidyltransferase)

Zarbodnamra_66

Zarbodnamra_67

Zarbodnamra_68

Zarbodnamra_69

Zarbodnamra_70

Zarbodnamra_71
(HNH endonuclease)

Zarbodnamra_72

Zarbodnamra_73
(HNH endonuclease)

Zarbodnamra_74

Zarbodnamra_75

Zarbodnamra_76

Zarbodnamra_77

Zarbodnamra_78

Zarbodnamra_79
(resolvase)

Zarbodnamra_80

Zarbodnamra_81

Zarbodnamra_82

Zarbodnamra_83

Zarbodnamra_84
(HNH endonuclease)

Submitted Minimal DNA Master FileDownload
Publication Info
Uploaded to GenBank?Yes
GenBank AccessionMH576969
Refseq NumberNone yet
Archiving Info
Archiving status Archived
Pitt Freezer Box# 56
Pitt Freezer Box Grid# F10
Available Files
Plaque PictureDownload
Restriction Digest PictureDownload
EM PictureDownload
GenBank File for PhameratorDownload