Escherichia coli O104:H4 Database

Project Information

In May 2011, a diarrhea outbreak associated with Shiga-toxin producing E. coli began in Germany. Strains from this outbreak possess an unusual serotype, O104:H4, and results in a high frequency of hemolytic uremic syndrome cases. These strains are also multidrug resistant and possess genes found in enteroaggregative E. coli (EAEC).

The Broad Institute has sequenced multiple strains from this outbreak and additional historical strains to assist and enable the following analyses:

  1. Tracking the epidemic. SNP data will allow us to understand the structure of the outbreak.
  2. Gene gain and loss. Genome assembly data will be used to find large differences in gene content among isolates.
  3. Evolutionary context. Two commensal E. coli previously sequenced by the Broad Institute are very closely related to the outbreak isolate; there is also a reference genome ('55989'). We want to determine relationships of these strains and identify which genes have been gained or lost during the transition (or transitions) from commensalism to pathogenesis.

We have included re-annotations of previously released genomes for the purposes of analytical consistency.