Mycobacterium phage Bernardo
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Detailed Information for Phage Bernardo
Discovery Information
Isolation HostMycobacterium smegmatis mc²155
Found ByC. Prien, N. Morales, A. Cohen, and R. Avetisyan
Year Found2012
Location FoundLos Angeles, CA USA
Finding InstitutionUniversity of California, Los Angeles
ProgramUnavailable
From enriched soil sample?No
Isolation TemperatureNot entered
GPS Coordinates34.074363 N, 118.44384 W Map
Discovery NotesIsolated in MIMG 103AL (Spring 2012) and annotated in MIMG 103BL (Fall 2012) by Team RANC: Christopher Prien, Nicholis Morales, Alexa Cohen, and Rozeta Avetisyan
Instructor: Erin Sanders
TA (AL): Shannon Beaty
TA (BL): Will Villella
Curation of annotation results done by 199 students (Winter 2013): Shannon Cooper
Sequencing Information
Sequencing Complete?Yes
Date Sequencing CompletedApr 22, 2013
Sequencing FacilityThe UCLA Genotyping and Sequencing Core
Shotgun Sequencing Method454 Pyrosequencing
Approximate Shotgun Coverage28
Genome length (bp)68196
Character of genome endsCircularly Permuted
GC Content67.4%
Fasta file available?Yes: Download fasta file
Characterization
ClusterB
SubclusterB3
Cluster Life CycleLytic
Lysogeny NotesTurbid plaques suggest that the phage is lysogenic. However, the lack of key lysogenic pathway genes, such as integrases, is a cause for concern. The presence of an exonuclease and endonuclease indicates that the phage could have a lytic life cycle.
Other Cluster Members

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BirdsNest (None)

Indlovu (None)

LilMcDreamy (None)

AbsoluteMadLad (B1)

ABU (B1)

AltPhacts (B1)

Altwerkus (B1)

Antonia (B1)

Apizium (B1)

Ashraf (B1)

Badfish (B1)

Banjo (B1)

BatteryCK (B1)

Beaglebox (B1)

Bishoperium (B1)

BlackStallion (B1)

Buckeye (B1)

CamL (B1)

Cannibal (B1)

Carthage (B1)

Chah (B1)

CharlieGBrown (B1)

CheetO (B1)

Childish (B1)

Chorkpop (B1)

Chunky (B1)

Cobra (B1)

Colbert (B1)

Cosmolli16 (B1)

Craff (B1)

Crownjwl (B1)

Daffy (B1)

Derpp (B1)

Dingo (B1)

Dione (B1)

Doddsville (B1)

DoesntMatter (B1)

DonSanchon (B1)

DuchessDung (B1)

Duggie (B1)

Durga (B1)

Emiris (B1)

EmpTee (B1)

Eremos (B1)

Eugenia (B1)

Fang (B1)

FluffyNinja (B1)

FriarPreacher (B1)

Fringe (B1)

FugateOSU (B1)

Gareth (B1)

GeneCoco (B1)

Gophee (B1)

Grand2040 (B1)

Gyarad (B1)

Haimas (B1)

Haleema (B1)

Hamish (B1)

Harvey (B1)

Held (B1)

HenryJackson (B1)

Hertubise (B1)

Hetaeria (B1)

HighStump (B1)

Hocus (B1)

Horchata (B1)

HSavage (B1)

ImtiyazSitla (B1)

Iridoclysis (B1)

IsaacEli (B1)

JacAttac (B1)

JakeO (B1)

JangoPhett (B1)

Jillium (B1)

Jiminy (B1)

Kahve (B1)

Kailash (B1)

Keitherie (B1)

Kikipoo (B1)

KingTut (B1)

KingVeVeVe (B1)

KlimbOn (B1)

Kloppinator (B1)

KLucky39 (B1)

Kwadwo (B1)

Kwksand96 (B1)

Labeouficaum (B1)

Lasso (B1)

LeeLot (B1)

Lego3393 (B1)

Legolas (B1)

LemonSlice (B1)

Longacauda (B1)

LuckyMarjie (B1)

Lulumae (B1)

Mag7 (B1)

Mana (B1)

Manad (B1)

Maskar (B1)

Matalotodo (B1)

Mcshane (B1)

Mecca (B1)

Megatron (B1)

Mesh1 (B1)

MichaelPhcott (B1)

Mikota (B1)

MitKao (B1)

Morgushi (B1)

Morty (B1)

Mosaic (B1)

MRabcd (B1)

Mulan (B1)

Murdoc (B1)

Mutante (B1)

Nacho (B1)

Newman (B1)

Numberten (B1)

Oline (B1)

Olive (B1)

OliverWalter (B1)

Omniscient (B1)

Oosterbaan (B1)

Orion (B1)

OSmaximus (B1)

PG1 (B1)

Phamished (B1)

Phareon (B1)

PhatCats2014 (B1)

PhenghisKhan (B1)

Phergie (B1)

Phipps (B1)

Phleuron (B1)

PhrankReynolds (B1)

PhrodoBaggins (B1)

Phunky (B1)

Piglet (B1)

PinheadLarry (B1)

Pinkman (B1)

Pipsqueak (B1)

Placalicious (B1)

Plmatters (B1)

Podrick (B1)

Pops (B1)

Potter (B1)

Prickles (B1)

ProfessorX (B1)

Puhltonio (B1)

QueenBeane (B1)

RedMaple (B1)

Riggan (B1)

Robyn (B1)

Roliet (B1)

Roscoe (B1)

Roy17 (B1)

Samaymay (B1)

SassyCat97 (B1)

Schadenfreude (B1)

Scoot17C (B1)

SDcharge11 (B1)

Serendipity (B1)

Serpentine (B1)

Sheila (B1)

ShiVal (B1)

Sigman (B1)

Skippy (B1)

Solosis (B1)

Sophia (B1)

Soto (B1)

Spartan300 (B1)

Squid (B1)

Squiggle (B1)

Struggle (B1)

Suffolk (B1)

Surely (B1)

Swish (B1)

TallGrassMM (B1)

Thora (B1)

ThreeOh3D2 (B1)

Timmi (B1)

TomBombadil (B1)

Trypo (B1)

TyrionL (B1)

UAch1 (B1)

UncleHowie (B1)

Vaishali24 (B1)

Valjean (B1)

Vaticameos (B1)

Veritas (B1)

Virapocalypse (B1)

Vista (B1)

Vivaldi (B1)

Vortex (B1)

Wallhey (B1)

Waterdiva (B1)

Xavier (B1)

Yoshand (B1)

YouGoGlencoco (B1)

Zaider (B1)

Zelda (B1)

Zonia (B1)

Arbiter (B2)

Ares (B2)

Bananafish (B2)

Boyle (B2)

Brownie5 (B2)

Coffee (B2)

Eaglehorse (B2)

Faze9 (B2)

FrenchFry (B2)

Glass (B2)

Godines (B2)

Hedgerow (B2)

Holeinone (B2)

ItsyBitsy1 (B2)

Kheth (B2)

Laurie (B2)

Lephleur (B2)

LizLemon (B2)

Opia (B2)

Qyrzula (B2)

Rhinoforte (B2)

Rosebush (B2)

Sabella (B2)

TA17a (B2)

Tinciduntsolum (B2)

Tres (B2)

West99 (B2)

Abinghost (B3)

Akoma (B3)

Athena (B3)

Audrey (B3)

Baloo (B3)

Bernardo (B3)

ChaChing (B3)

Chandler (B3)

Compostia (B3)

Corofin (B3)

Daisy (B3)

Gadjet (B3)

Heathcliff (B3)

Jackstina (B3)

Kamiyu (B3)

Marley1013 (B3)

Mortcellus (B3)

Morty007 (B3)

Nozo (B3)

Obutu (B3)

OrangeOswald (B3)

Phaedrus (B3)

Philly (B3)

Phlyer (B3)

Pipefish (B3)

RagingRooster (B3)

Rita1961 (B3)

RomaT (B3)

SynergyX (B3)

Tydolla (B3)

Yahalom (B3)

AlanGrant (B4)

Apex (B4)

BrownCNA (B4)

ChrisnMich (B4)

Cooper (B4)

Fortunato (B4)

Frederick (B4)

Hangman (B4)

JAMaL (B4)

Lolalove (B4)

Magpie (B4)

Mithril (B4)

Nigel (B4)

RawrgerThat (B4)

Stinger (B4)

Vincenzo (B4)

Waleliano (B4)

Zemanar (B4)

Acadian (B5)

Baee (B5)

Donny (B5)

Phelemich (B5)

Reprobate (B5)

Rich (B5)

Serendipitous (B5)

39HC (B6)

40BC (B6)

Hosp (B6)

Jolie1 (B6)

KayaCho (B6)

Saguaro (B7)

Thonko (B8)

Imvubu (B9)

Annotation StatusIn GenBank
Plaque NotesPlaques are turbid and homogenous with a diameter of 2mm.
MorphotypeSiphoviridae
Number of Genes100
Has been Phamerated?Yes
Gene List

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Bernardo_1

Bernardo_2

Bernardo_3

Bernardo_4
(PAPs reductase)

Bernardo_5
(ParB-like nuclease domain protein)

Bernardo_6
(terminase large subunit)

Bernardo_7

Bernardo_8
(RuvC-like resolvase)

Bernardo_9

Bernardo_10

Bernardo_11

Bernardo_12
(capsid maturation protease and MuF-like fusion protein)

Bernardo_13

Bernardo_14
(capsid protein)

Bernardo_15

Bernardo_16

Bernardo_17

Bernardo_18

Bernardo_19

Bernardo_20

Bernardo_21
(major tail protein)

Bernardo_22

Bernardo_23
(head-to-tail adaptor)

Bernardo_24

Bernardo_25

Bernardo_26
(tail assembly chaperone)

Bernardo_27
(tail assembly chaperone)

Bernardo_28
(tape measure protein)

Bernardo_29
(minor tail protein)

Bernardo_30

Bernardo_31

Bernardo_32

Bernardo_33

Bernardo_34

Bernardo_35

Bernardo_36

Bernardo_37

Bernardo_38

Bernardo_39
(HNH endonuclease domain protein)

Bernardo_40

Bernardo_41

Bernardo_42

Bernardo_43

Bernardo_44
(Xis)

Bernardo_45
(HTH DNA binding domain protein)

Bernardo_46

Bernardo_47
(LysA)

Bernardo_48
(LysB)

Bernardo_49

Bernardo_50

Bernardo_51

Bernardo_52

Bernardo_53
(type III restriction helicase)

Bernardo_54

Bernardo_55

Bernardo_56

Bernardo_57
(RepA)

Bernardo_58

Bernardo_59
(DNA polymerase I)

Bernardo_60

Bernardo_61

Bernardo_62

Bernardo_63

Bernardo_64

Bernardo_65

Bernardo_66

Bernardo_67

Bernardo_68

Bernardo_69

Bernardo_70

Bernardo_71

Bernardo_72

Bernardo_73

Bernardo_74

Bernardo_75

Bernardo_76

Bernardo_77

Bernardo_78

Bernardo_79

Bernardo_80

Bernardo_81
(HNH domain protein)

Bernardo_82

Bernardo_83

Bernardo_84

Bernardo_85

Bernardo_86

Bernardo_87

Bernardo_88

Bernardo_89

Bernardo_90

Bernardo_91

Bernardo_92

Bernardo_93

Bernardo_94

Bernardo_95

Bernardo_96

Bernardo_97

Bernardo_98

Bernardo_99

Bernardo_100

Publication Info
Uploaded to GenBank?Yes
GenBank AccessionKF493879
Refseq NumberNC_022983
Archiving Info
Archiving status Archived
SEA Designator 2012UCLAbernardoNM
SEA Lysate Titer 4.6x10^10
Date of SEA Lysate Titering May 24, 2012
Pitt Freezer Box# 3
Pitt Freezer Box Grid# D9
Available Files
Plaque PictureDownload
Restriction Digest PictureDownload
EM PictureDownload
Final DNAMaster FileDownload