Streptomyces phage IchabodCrane
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Detailed Information for Phage IchabodCrane
Discovery Information
Isolation HostStreptomyces scabiei RL-34
Found ByPhoebe Mariano and Sydni Sobers
Year Found2018
Location FoundHanover, MD USA
Finding InstitutionUniversity of Maryland, Baltimore County
ProgramScience Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science
From enriched soil sample?No
Isolation Temperature28°C
GPS Coordinates39.155679 N, 76.750807 W Map
Discovery NotesCollection date: September 11, 2018
Collection time: 12:20 p.m.

Temperature and Weather:
- 23.05 degrees Centigrade or 73.5 degrees Fahrenheit
- Foggy, cloudy with light showers 2 hours prior to collection
- Humidity: 94%

Geography: On a hill of a wooded community dug from 3.5 inches below

Soil Characteristics:
- moist, rich, blackish-brown
- surrounding tiny and large roots
Naming NotesIchabodCrane is a Siphoviridae with a distinguishable long and flexible tail. Capturing intact phage for imaging was complicated because its lengthy tail and capsid were severed throughout the sample. The slaughtered scenes were reminiscent of The Sleepy Hollow tale of lanky and headless Ichabod Crane. The time and wooded location in which the phage was discovered also befitted the Halloween season.
Sequencing Information
Sequencing Complete?Yes
Date Sequencing CompletedJan 25, 2019
Sequencing FacilityNC State Genomic Sciences Laboratory
Shotgun Sequencing MethodIllumina Sequencing
Approximate Shotgun Coverage1308
Genome length (bp)130730
Character of genome endsDirect Terminal Repeat
Direct Terminal Repeat Length12187 bp
GC Content49.4%
Fasta file available?Yes: Download fasta file
Characterization
ClusterBE
SubclusterBE2
Cluster Life CycleLytic
Lysogeny NotesLysogen tests were observed over 10 days. Mesa were not found. The tests were repeated twice to ensure that the lack of mesa was not due to other factors. Mesa were still not found which strongly suggests that IchabodCrane is a virulent bacteriophage for S.scabiei.
Other Cluster Members
Annotating InstitutionUniversity of Maryland, Baltimore County
Annotation StatusIn GenBank
Plaque Notes- Quickly-formed in 20 hours

- Clear, distinct, symmetric circles

- Plaque clusters will form due to phage traversing the agar and infecting nearby cells. It appears as if some plaques are larger than individual ones but they are usually two plaques infecting bacterium close in proximity.

- Plaque assay (at 20 hrs): 1.1 mm in diameter with clear edges under 28.4 degrees centigrade incubation

Note: When plaque assays have extended (28 C) incubation of 52 to 120 hours, or transferred to 4 C storage within 48 hours of incubation, the plaques will grow 1.9 mm in diameter with faint to cloudy edges.
MorphotypeSiphoviridae
Number of Genes239
Number of tRNAs39
Number of tmRNAs1
Has been Phamerated?Yes
Gene List

Click to View

IchabodCrane_1

IchabodCrane_2

IchabodCrane_3

IchabodCrane_4

IchabodCrane_5

IchabodCrane_6
(Lsr2-like DNA bridging protein)

IchabodCrane_7

IchabodCrane_8

IchabodCrane_9

IchabodCrane_10

IchabodCrane_11

IchabodCrane_12
(ParB-like nuclease domain protein)

IchabodCrane_13

IchabodCrane_14

IchabodCrane_15

IchabodCrane_16

IchabodCrane_17

IchabodCrane_18

IchabodCrane_19

IchabodCrane_20

IchabodCrane_21

IchabodCrane_22

IchabodCrane_23

IchabodCrane_24

IchabodCrane_25
(HNH endonuclease)

IchabodCrane_26

IchabodCrane_27
(ThyX-like thymidylate synthase)

IchabodCrane_28

IchabodCrane_29

IchabodCrane_30

IchabodCrane_31

IchabodCrane_32
(membrane protein)

IchabodCrane_33

IchabodCrane_34

IchabodCrane_35

IchabodCrane_37
(HNH endonuclease)

IchabodCrane_38
(glycosyltransferase)

IchabodCrane_39

IchabodCrane_40

IchabodCrane_41
(glycosyltransferase)

IchabodCrane_42
(ribonucleotide reductase)

IchabodCrane_43
(LysM-like endolysin)

IchabodCrane_44

IchabodCrane_45

IchabodCrane_46
(portal protein)

IchabodCrane_47
(membrane protein)

IchabodCrane_48
(capsid maturation protease)

IchabodCrane_49
(major capsid protein)

IchabodCrane_50

IchabodCrane_51
(head-to-tail adaptor)

IchabodCrane_52

IchabodCrane_53

IchabodCrane_54

IchabodCrane_55
(major tail protein)

IchabodCrane_56
(tail assembly chaperone)

IchabodCrane_57

IchabodCrane_58
(tape measure protein)

IchabodCrane_59
(minor tail protein)

IchabodCrane_60
(minor tail protein)

IchabodCrane_61

IchabodCrane_62
(minor tail protein)

IchabodCrane_63
(minor tail protein)

IchabodCrane_64

IchabodCrane_65

IchabodCrane_66
(minor tail protein)

IchabodCrane_67
(HNH endonuclease)

IchabodCrane_68
(metallophosphoesterase)

IchabodCrane_69
(holin)

IchabodCrane_70
(helix-turn-helix DNA binding domain protein)

IchabodCrane_71
(MerR-like helix-turn-helix DNA binding domain protein)

IchabodCrane_72

IchabodCrane_73

IchabodCrane_74

IchabodCrane_75
(DnaB-like dsDNA helicase)

IchabodCrane_76

IchabodCrane_77
(DNA primase)

IchabodCrane_78
(ssDNA binding protein)

IchabodCrane_79
(DnaE-like DNA polymerase III)

IchabodCrane_80

IchabodCrane_81
(MazG-like nucleotide pyrophosphohydrolase)

IchabodCrane_82
(RecA-like DNA recombinase)

IchabodCrane_83

IchabodCrane_84
(holliday junction resolvase)

IchabodCrane_85

IchabodCrane_86

IchabodCrane_87

IchabodCrane_88
(Cas4 family exonuclease)

IchabodCrane_89

IchabodCrane_90
(RuvC-like resolvase)

IchabodCrane_91
(DprA-like DNA processing chain A)

IchabodCrane_92
(MerR-like helix-turn-helix DNA binding domain protein)

IchabodCrane_93
(methyltransferase)

IchabodCrane_94
(thymidylate kinase)

IchabodCrane_95

IchabodCrane_96
(helix-turn-helix DNA binding domain protein)

IchabodCrane_97
(terminase)

IchabodCrane_98
(HNH endonuclease)

IchabodCrane_99

IchabodCrane_103

IchabodCrane_104

IchabodCrane_107
(tRNA nucleotidyltransferase)

IchabodCrane_108
(FtsK-like DNA translocase)

IchabodCrane_109

IchabodCrane_111

IchabodCrane_113

IchabodCrane_114

IchabodCrane_115

IchabodCrane_116

IchabodCrane_117
(AAA-ATPase)

IchabodCrane_118

IchabodCrane_119

IchabodCrane_120

IchabodCrane_122

IchabodCrane_123

IchabodCrane_125

IchabodCrane_126
(Ro-like RNA binding protein)

IchabodCrane_127

IchabodCrane_128

IchabodCrane_129

IchabodCrane_130
(helix-turn-helix DNA binding domain protein)

IchabodCrane_131

IchabodCrane_132

IchabodCrane_133

IchabodCrane_134

IchabodCrane_135

IchabodCrane_137

IchabodCrane_145

IchabodCrane_146

IchabodCrane_147

IchabodCrane_150
(peptidase)

IchabodCrane_151

IchabodCrane_153

IchabodCrane_154

IchabodCrane_155

IchabodCrane_156

IchabodCrane_157
(band-7-like membrane protein)

IchabodCrane_158

IchabodCrane_159

IchabodCrane_161

IchabodCrane_165

IchabodCrane_167

IchabodCrane_169

IchabodCrane_172

IchabodCrane_173

IchabodCrane_176

IchabodCrane_177

IchabodCrane_178

IchabodCrane_182

IchabodCrane_184
(HNH endonuclease)

IchabodCrane_185

IchabodCrane_186
(exonuclease)

IchabodCrane_187

IchabodCrane_189

IchabodCrane_190

IchabodCrane_191
(acetyltransferase)

IchabodCrane_192

IchabodCrane_193

IchabodCrane_194

IchabodCrane_195

IchabodCrane_196

IchabodCrane_197

IchabodCrane_198

IchabodCrane_199
(RNA ligase)

IchabodCrane_200

IchabodCrane_201

IchabodCrane_202

IchabodCrane_203
(polynucleotide kinase)

IchabodCrane_204

IchabodCrane_205

IchabodCrane_206

IchabodCrane_208

IchabodCrane_209

IchabodCrane_211
(SprT-like protease)

IchabodCrane_212

IchabodCrane_213

IchabodCrane_214

IchabodCrane_216

IchabodCrane_217

IchabodCrane_218

IchabodCrane_219

IchabodCrane_220

IchabodCrane_221

IchabodCrane_222

IchabodCrane_223

IchabodCrane_224

IchabodCrane_225
(deoxycytidylate deaminase)

IchabodCrane_226
(metallophosphoesterase)

IchabodCrane_227

IchabodCrane_228

IchabodCrane_229
(WhiB family transcription factor)

IchabodCrane_230

IchabodCrane_231

IchabodCrane_232

IchabodCrane_233

IchabodCrane_234
(membrane protein)

IchabodCrane_235

IchabodCrane_236

IchabodCrane_237

IchabodCrane_238

IchabodCrane_240

IchabodCrane_241

IchabodCrane_242

IchabodCrane_243

IchabodCrane_244

IchabodCrane_245

IchabodCrane_246
(thioredoxin)

IchabodCrane_247

IchabodCrane_248
(glycosylase)

IchabodCrane_249

IchabodCrane_250

IchabodCrane_251

IchabodCrane_252

IchabodCrane_253

IchabodCrane_254

IchabodCrane_255

IchabodCrane_256

IchabodCrane_257

IchabodCrane_258

IchabodCrane_259
(Lsr2-like DNA bridging protein)

IchabodCrane_260

IchabodCrane_261

IchabodCrane_262

IchabodCrane_263

IchabodCrane_264

IchabodCrane_265
(ParB-like nuclease domain protein)

IchabodCrane_266

IchabodCrane_267

IchabodCrane_268

IchabodCrane_269

IchabodCrane_270

IchabodCrane_271

IchabodCrane_272

IchabodCrane_273

IchabodCrane_274

IchabodCrane_275

IchabodCrane_276

IchabodCrane_277

IchabodCrane_278

IchabodCrane_279
(HNH endonuclease)

Submitted Minimal DNA Master FileDownload
Publication Info
Uploaded to GenBank?Yes
GenBank AccessionMN428060
Refseq NumberNone yet
Archiving Info
Archiving status Archived
Pitt Freezer Box# 83
Pitt Freezer Box Grid# G2
Available Files
Plaque PictureDownload
Restriction Digest PictureDownload
EM PictureDownload
GenBank File for PhameratorDownload