EnteroBase

Available Databases

Salmonella
Strains:298583
Assembled
  • Legacy:4932
  • From NGS:293651
  • In Progress:6778
Schemes
  • Achtman 7 Gene MLST:298315
  • cgMLST V2 + HierCC V1:292780
  • rMLST:293143
  • wgMLST:292580
Escherichia/Shigella
Strains:169847
Assembled
  • Legacy:9524
  • From NGS:160323
  • In Progress:6246
Schemes
  • Achtman 7 Gene MLST:169530
  • cgMLST V1 + HierCC V1:160046
  • rMLST:159953
  • wgMLST:159622
Streptococcus
Strains:73028
Assembled
  • From NGS:73028
  • In Progress:1717
Schemes
  • cgMLSTv1:73018
Clostridioides
Strains:22245
Assembled
  • From NGS:22245
  • In Progress:60
Schemes
  • cgMLST V1 + HierCC V1:22073
  • Griffiths 7 Gene:22102
  • rMLST:22102
  • wgMLST:22079
Vibrio
Strains:11791
Assembled
  • From NGS:11791
  • In Progress:183
Schemes
  • rMLST:11689
  • Vibrio cgMLST + HierCC:11687
Helicobacter
Strains:5131
Assembled
  • Legacy:1869
  • From NGS:3262
  • In Progress:207
Schemes
  • rMLST:3258
Yersinia
Strains:4643
Assembled
  • Legacy:861
  • From NGS:3782
  • In Progress:2
Schemes
  • Achtman 7 Gene:4421
  • cgMLST V1 + HierCC V1:3800
  • McNally 7 Gene:4001
  • rMLST:3783
  • wgMLST:3782
Moraxella
Strains:2567
Assembled
  • Legacy:416
  • From NGS:2151
  • In Progress:24
Schemes
  • Achtman 7 Gene:2568
  • rMLST:2151
Need Help? Not sure where to start? Click here to read the documentation
Any Questions or comments? please post to our Issue tracker (BitBucket)
Support for users of the old 7-gene MLST site - click here

If you use data/metadata from the website, or the analysis based on these data, please cite EnteroBase as:
  • Zhou Z, Alikhan NF, Mohamed K, the Agama Study Group, Achtman M (2020) The EnteroBase user's guide, with case studies on Salmonella transmissions, Yersinia pestis phylogeny and Escherichia core genomic diversity. Genome Res. 30:138-152.
Please cite Salmonella database as:
  • Achtman M, Zhou Z, Alikhan NF, et al. (2020) Genomic diversity of Salmonella enterica - The UoWUCC 10K genomes project. Wellcome Open Res 5:223
  • Alikhan NF, Zhou Z,Sergeant MJ, Achtman M (2018) A genomic overview of the population structure of Salmonella. PLoS Genet 14 (4): e1007261
Please cite Clostridioides database as:
  • Frentrup M, Zhou Z, et al. (2020) A publicly accessible database for Clostridioides difficile genome sequences supports tracing of transmission chains and epidemics. DOI 10.1099/mgen.0.000410
If you use GrapeTree please cite the following paper:
  • Zhou Z, Alikan NF, et al. GrapeTree: visualization of core genomic relationships among 100,000 bacterial pathogens. Genome Res. 28:1395-1404

Development team (enterobase@warwick.ac.uk):
  • Zhemin Zhou
  • Khaled Mohamed
  • Mark Achtman
Former team members:
  • Nabil-Fareed Alikhan
  • Martin Sergeant
  • William Nicholson
  • Yulei Fan