Sequenced E. coli Genomes: Difference between revisions

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Table edited by Bmcintosh via TableEdit
Table edited by Bmcintosh via TableEdit
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PMID:9278503
PMID:9278503
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=511145 511145]
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PMID:16738553
PMID:16738553
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=316407 316407]
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This genome has now been incorporated into EcoliWiki.
This genome has now been incorporated into EcoliWiki.
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=316385 316385]
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=413997 413997]
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not yet
not yet
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Will be included in EcoliWiki when publically available. <br/>
We are working on adding this strain to EcoliWiki. <br/>
[http://www.ncbi.nlm.nih.gov/sites/entrez?db=genomeprj&cmd=Retrieve&dopt=Overview&list_uids=30681 DOE Joint Genome Institute]<br/>
[http://www.ncbi.nlm.nih.gov/sites/entrez?db=genomeprj&cmd=Retrieve&dopt=Overview&list_uids=30681 DOE Joint Genome Institute]<br/>
[http://www.ncbi.nlm.nih.gov/sites/entrez?db=genomeprj&cmd=Retrieve&dopt=Overview&list_uids=30681 Entrez Genome Project] <br/>
[http://www.ncbi.nlm.nih.gov/sites/entrez?db=genomeprj&cmd=Retrieve&dopt=Overview&list_uids=30681 Entrez Genome Project] <br/>
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=469008 469008]
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Enterotoxigenic.
Enterotoxigenic.
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=331111 331111]
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Highly antibiotic resistant, including ciprofloxacin & moxifloxacin.
Highly antibiotic resistant, including ciprofloxacin & moxifloxacin.
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=439855 439855]
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<br/>Enterohemorrhagic.
<br/>Enterohemorrhagic.
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=444450 444450]
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=83334&lvl=3&lin=f&keep=1&srchmode=1&unlock 83334]
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[http://www.ncbi.nlm.nih.gov/sites/entrez?db=genomeprj&cmd=Retrieve&dopt=Overview&list_uids=16718 Entrez Genome Project]<br/>
[http://www.ncbi.nlm.nih.gov/sites/entrez?db=genomeprj&cmd=Retrieve&dopt=Overview&list_uids=16718 Entrez Genome Project]<br/>
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=405955 405955]
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[http://www.ncbi.nlm.nih.gov/sites/entrez?db=genomeprj&cmd=Retrieve&dopt=Overview&list_uids=16259 Entrez Genome Project]
[http://www.ncbi.nlm.nih.gov/sites/entrez?db=genomeprj&cmd=Retrieve&dopt=Overview&list_uids=16259 Entrez Genome Project]
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=364106 364106]
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Uropathogenic.
Uropathogenic.
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=362663 362663]
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Uropathogenic.
Uropathogenic.
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=199310 199310]
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=481805 481805]  
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''E. coli'' E2348/69
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complete
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no
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[http://www.sanger.ac.uk/Projects/Escherichia_Shigella/ Sanger Institute]<br/>
[http://www.ericbrc.org/portal/eric/ecoli Enteropathogen Resource Integration Center (ERIC)] <br/>
[http://www.ncbi.nlm.nih.gov/sites/entrez?db=genomeprj&cmd=Retrieve&dopt=Overview&list_uids=341 Entrez Genome Project]<br/>
Enteropathogenic.
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Enterohemorrhagic.
Enterohemorrhagic.
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=155864 155864]
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Human commensal isolate.
Human commensal isolate.
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=409438 409438]
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Serotype O45:K1 strain, isolated from a case of meningitis.
Serotype O45:K1 strain, isolated from a case of meningitis.
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=585035 585035]
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Avirulent serogroup O81.
Avirulent serogroup O81.
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=585397 585397]
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=585034 585034]
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=585057 585057]
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Pathogenic strain.
Pathogenic strain.
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=585055 585055]
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PMID:19376874
PMID:19376874
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=595496&lvl=3&lin=f&keep=1&srchmode=1&unlock 595496]
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Pathogenic strain serotype O17:K52:H18
Pathogenic strain serotype O17:K52:H18
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=585056 585056]
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Pathogenic.
Pathogenic.
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[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=574521 574521]
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Revision as of 19:40, 27 July 2010

EcoliWiki plans to create gene lists for all available laboratory E. coli K-12, B, and C strains. Although pathogenic strains of E. coli are not the focus of EcoliWiki, numerous strains of E. coli, non-pathogenic or pathogenic, have been sequenced or projects are in progress to do so. Use this table to track which genomes are available and from where. Please add or edit any strains you know are being sequenced or are finished.

Strain Sequencing status Accessions (if applicable) In EcoliWiki Comments Taxon ID

MG1655

complete

NC_000913

yes

PMID:9278503[1]

511145

W3110

complete

AC_000091

yes

PMID:16738553[2]

316407

DH10B

complete

NC_010473

yes

PMID:18245285[3]

This genome has now been incorporated into EcoliWiki.

316385

REL606

complete

NC_012967

yes

Information about the genes of this E. coli B strain is now available from EcoliWiki International E. coli B Consortium
Entrez Genome Project

413997

E. coli BL21 (DE3)

complete

CP001509.3 & NC_012947.1 & CP001665.1

not yet

We are working on adding this strain to EcoliWiki.
DOE Joint Genome Institute
Entrez Genome Project

469008

E. coli 101-1

in progress

Whole Genome Shotgun Sequence 101-1

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project

Enteroaggregative.

E. coli 53638

in progress

Whole Genome Shotgun Sequence 53638

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Enteroinvasive.

E. coli B171

in progress

Whole Genome Shotgun Sequence B171

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Enteropathogenic.

E. coli B7A

in progress

Whole Genome Shotgun Sequence B7A

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Enterotoxigenic.

E. coli E110019

in progress

Whole Genome Shotgun Sequence E110019

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project

Atypical enteropathogenic.

E. coli E22

in progress

Whole Genome Shotgun Sequence E22

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Enteropathogenic.

E. coli E24377A

complete

NC_009801

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Enterotoxigenic.

331111

E. coli F11

in progress

Whole Genome Shotgun Sequence F11

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Extra-intestinal pathogenic.

E. coli HS

complete

NC_009800

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Human commensal isolate.

E. coli SMS-3-5

complete

NC_010498

no

PMID:18708504[4]
SECEC SMS-3-5 at JCVI
Entrez Genome Project
Highly antibiotic resistant, including ciprofloxacin & moxifloxacin.

439855

E. coli O157:H7 EC4024

in progress

Whole Genome Shotgun Sequence EC4024

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Enterohemorrhagic.

E. coli O157:H7 EC4042

in progress

Whole Genome Shotgun Sequence EC4042

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Enterohemorrhagic.


E. coli O157:H7 EC4045

in progress

Whole Genome Shotgun Sequence EC4045

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Enterohemorrhagic.

E. coli O157:H7 EC4076

in progress

Whole Genome Shotgun Sequence EC4076

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Enterohemorrhagic.

E. coli O157:H7 EC4113

in progress

Whole Genome Shotgun Sequence EC4113

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Enterohemorrhagic.

E. coli O157:H7 EC4115

complete

NC_011353

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Enterohemorrhagic.

444450

E. coli O157:H7 EC4196

in progress

Whole Genome Shotgun Sequence EC4196

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Enterohemorrhagic.

E. coli O157:H7 EC4206

in progress

Whole Genome Shotgun Sequence EC4206

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Enterohemorrhagic.

E. coli O157:H7 EC4401

in progress

Whole Genome Shotgun Sequence EC4401

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Enterohemorrhagic.

E. coli O157:H7 EC4486

in progress

Whole Genome Shotgun Sequence EC4486

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Enterohemorrhagic.

E. coli O157:H7 EC4501

in progress

Whole Genome Shotgun Sequence EC4501

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Enterohemorrhagic.

E. coli O157:H7 EC508

in progress

Whole Genome Shotgun Sequence EC508

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Enterohemorrhagic.

E. coli O157:H7 TW14359

complete

NC_013008

no

Entrez Genome Project
Enterohemorrhagic.

E. coli O157:H7 EC869

in progress

Whole Genome Shotgun Sequence EC869

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Enterohemorrhagic.

E. coli O157:H7 FRIK966

in progress

no

MBRI
Entrez Genome Project
Bovine isolate; does not express Shiga toxin.

E. coli O157:H7 TW14588

in progress

Whole Genome Shotgun Sequence TW14588

no

JCVI
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Enterohemorrhagic.

E. coli O157:H7 GZ-021210/cattle

in progress

no

Entrez Genome Project
Enterohemorrhagic bovine isolate.

E. coli O157:H7

complete

NC_002695

no

PMID:11258796[5]
This strain is also referred to as E. coli O157:H7 Sakai
Entrez Genome Project

83334

E. coli APEC O1

complete

NC_008563

no

PMID:17293413[6]
Nolan Lab Bacterial Pathogenesis Laboratory
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project

405955

E. coli UTI89

complete

NC_007946

no

PMID:16585510[7]
Entrez Genome Project

364106

E. coli 042

complete

FN554766

no

Sanger Institute
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Enteroaggregative.

E. coli 536

complete

NC_008253

no

PMID:16879640[8]
University of Gottingen
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Uropathogenic.

362663

E. coli RS218

in progress

no

PMID:16988236[9]
University of Wisconsin Genome Center
Entrez Genome Project
E. coli K1; Neonatal meningitis E. coli (NMEC).

E. coli CFT073

complete

NC_004431

no

PMID:12471157[10]
University of Wisconsin Genome Center
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project
Uropathogenic.

199310

E. coli ATCC 8739

complete

NC_010468

not yet

E. coli Crooks strain (sometimes misnamed as E. coli B strain (see page for ATCC 8739)
Joint Genome Institute
Enteropathogen Resource Integration Center (ERIC)
Entrez Genome Project

481805

E. coli F18+

in progress

no

Entrez Genome Project

E. coli 789 A/C 1

in progress

no

Gottingen Genomics Laboratory

E. coli LW1655F+

in progress

no

Entrez Genome Project

E. coli NC-7

in progress

not yet

Entrez Genome Project
Cell wall-less L-form derivative of E. coli K-12.

E. coli O157:H7 EDL933

complete

NC_002655.2

no

Enteropathogen Resource Integration Center (ERIC)

Enterohemorrhagic.

155864

E. coli SE11

complete

NC_011415

no

Entrez Genome Project
Human commensal isolate.

409438

E. coli 078:H11 H10407

complete

no

Enteropathogen Resource Integration Center (ERIC)
Sanger Institute

Enterohemorrhagic.

E. coli W

in progress

no

Entrez Genome Project

E. coli c7122

in progress

no

Entrez Genome Project

E. coli S88

complete

NC_011742

no

GenoScope

Serotype O45:K1 strain, isolated from a case of meningitis.

585035

E. coli ED1a

complete

NC_011745

no

GenoScope

Avirulent serogroup O81.

585397

E. coli IAI1

complete

NC_011741

no

GenoScope

Serogroup O8.

585034

E. coli IAI39

complete

NC_011750

no

Genoscope

Serotype O7:K1.

585057

E. coli 55989

complete

NC_011748

no

PMID:19165319[11]

Pathogenic strain.

585055

E. coli BW2952 MC4100(MuLac)

complete

NC_012759

yes

PMID:19376874[12]

595496

E.coli UMN026

complete

NC_011751

no

PMID:19165319[11]

Pathogenic strain serotype O17:K52:H18

585056

E.coli O103:H2 str. 12009

complete

NC_013353

no

PMID:19815525[13]

Pathogenic.

E.coli O111:H- str. 11128

complete

NC_013364

no

PMID:19815525[13]

Pathogenic.

E. coli O127:H6 str. E2348/69

complete

NC_011601

no

PMID:18952797[14]

Pathogenic.

574521

E. coli K-12 DH1

complete

CP001637

not yet

Escherichia coli K12 DH1, ATCC 33849

E. coli O55:H7 CB9615

complete

NC_013941

no

E. coli O26:H11 str. 11368

complete

NC_013361

no

enteropathogenic strain, serovar = O26:H11

E. coli IHE3034

complete

CP001969

no

Extraintestinal Pathogenic

E. coli SE15

complete

AP009378]

no

Commensal strain.


edit table
  1. ↑ Blattner, FR et al. (1997) The complete genome sequence of Escherichia coli K-12. Science 277 1453-62 PubMed
  2. ↑ Hayashi, K et al. (2006) Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110. Mol. Syst. Biol. 2 2006.0007 PubMed
  3. ↑ Durfee, T et al. (2008) The complete genome sequence of Escherichia coli DH10B: insights into the biology of a laboratory workhorse. J. Bacteriol. 190 2597-606 PubMed
  4. ↑ Fricke, WF et al. (2008) Insights into the environmental resistance gene pool from the genome sequence of the multidrug-resistant environmental isolate Escherichia coli SMS-3-5. J. Bacteriol. 190 6779-94 PubMed
  5. ↑ Hayashi, T et al. (2001) Complete genome sequence of enterohemorrhagic Escherichia coli O157:H7 and genomic comparison with a laboratory strain K-12. DNA Res. 8 11-22 PubMed
  6. ↑ Johnson, TJ et al. (2007) The genome sequence of avian pathogenic Escherichia coli strain O1:K1:H7 shares strong similarities with human extraintestinal pathogenic E. coli genomes. J. Bacteriol. 189 3228-36 PubMed
  7. ↑ Chen, SL et al. (2006) Identification of genes subject to positive selection in uropathogenic strains of Escherichia coli: a comparative genomics approach. Proc. Natl. Acad. Sci. U.S.A. 103 5977-82 PubMed
  8. ↑ Hochhut, B et al. (2006) Role of pathogenicity island-associated integrases in the genome plasticity of uropathogenic Escherichia coli strain 536. Mol. Microbiol. 61 584-95 PubMed
  9. ↑ Teng, CH et al. (2006) Effects of ompA deletion on expression of type 1 fimbriae in Escherichia coli K1 strain RS218 and on the association of E. coli with human brain microvascular endothelial cells. Infect. Immun. 74 5609-16 PubMed
  10. ↑ Welch, RA et al. (2002) Extensive mosaic structure revealed by the complete genome sequence of uropathogenic Escherichia coli. Proc. Natl. Acad. Sci. U.S.A. 99 17020-4 PubMed
  11. ↑ 11.0 11.1 Touchon, M et al. (2009) Organised genome dynamics in the Escherichia coli species results in highly diverse adaptive paths. PLoS Genet. 5 e1000344 PubMed
  12. ↑ Ferenci, T et al. (2009) Genomic sequencing reveals regulatory mutations and recombinational events in the widely used MC4100 lineage of Escherichia coli K-12. J. Bacteriol. 191 4025-9 PubMed
  13. ↑ 13.0 13.1 Ogura, Y et al. (2009) Comparative genomics reveal the mechanism of the parallel evolution of O157 and non-O157 enterohemorrhagic Escherichia coli. Proc. Natl. Acad. Sci. U.S.A. 106 17939-44 PubMed
  14. ↑ Iguchi, A et al. (2009) Complete genome sequence and comparative genome analysis of enteropathogenic Escherichia coli O127:H6 strain E2348/69. J. Bacteriol. 191 347-54 PubMed
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