Escherichia coli diarrheagenic

Enterobase classifies E. coli genomes to pathotypes using this logic. Pathotypes included in the E. coli (diarrheagenic) dashboard are:

• Shiga toxin-producing E. coli (STEC)

• Enterohemorrhagic E. coli (EHEC)

• Enterotoxigenic E. coli (ETEC)

• Enteropathogenic E. coli (EPEC)

• Enteroinvasive E. coli (EIEC)

Last update: 5 August 2025.

Warning

The E. coli data used in AMRnet are not yet curated for purpose-of-sampling, and therefore reflect the biases of global sequencing efforts which may be skewed towards sequencing AMR strains and/or outbreaks. Data curation efforts are ongoing however until then, please be careful when interpreting the data in the dashboard.

Variable definitions

• Lineages: Lineages are labeled by the pathovar followed by the (7-locus) ST.

• AMR determinants: Enterobase identifies AMR determinants using NCBI’s AMRFinderPlus run with default settings. AMRnet imports these AMR genotype calls, and assigns them to drugs/classes in the dashboard using the Subclass curated in refgenes, see the table.