EnteroBase

Available Databases

Salmonella
Strains:325384
Assembled
  • Legacy:4933
  • From NGS:320451
  • In Progress:185
Schemes
  • Achtman 7 Gene MLST:325309
  • cgMLST V2 + HierCC V1:319160
  • rMLST:320132
  • wgMLST:319221
Escherichia/Shigella
Strains:189099
Assembled
  • Legacy:9523
  • From NGS:179576
  • In Progress:180
Schemes
  • Achtman 7 Gene MLST:189035
  • cgMLST V1 + HierCC V1:179750
  • rMLST:179460
  • wgMLST:178938
Streptococcus
Strains:76835
Assembled
  • From NGS:76835
  • In Progress:7
Schemes
  • cgMLSTv1:76827
Clostridioides
Strains:23368
Assembled
  • From NGS:23368
  • In Progress:25
Schemes
  • cgMLST V1 + HierCC V1:23337
  • Griffiths 7 Gene:23348
  • rMLST:23348
  • wgMLST:23320
Vibrio
Strains:12564
Assembled
  • From NGS:12564
  • In Progress:35
Schemes
  • rMLST:12564
  • Vibrio cgMLST + HierCC:12550
Helicobacter
Strains:5378
Assembled
  • Legacy:1869
  • From NGS:3509
  • In Progress:17
Schemes
  • rMLST:3505
Yersinia
Strains:5085
Assembled
  • Legacy:861
  • From NGS:4224
  • In Progress:1
Schemes
  • Achtman 7 Gene:4863
  • cgMLST V1 + HierCC V1:4241
  • McNally 7 Gene:4443
  • rMLST:4225
  • wgMLST:4223
Moraxella
Strains:2778
Assembled
  • Legacy:416
  • From NGS:2362
  • In Progress:0
Schemes
  • Achtman 7 Gene:2779
  • rMLST:2362
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