FIG 1.

Phylogeny of 60 E. coli isolates collected from soils and fecal sources in rural Bangladesh. The core genome phylogenetic tree, based on SNPs and indels, was constructed by maximum likelihood using IQ tree and visualized using the iTOL online tool. The genome of Escherichia fergusonii was used as the outgroup. The household (HH) where the isolate was collected and the source (“S” for soil, “H” for human fecal, “CH” for chicken fecal, and “C” for cattle fecal) correspond to the isolate name. The source is additionally indicated by colored circles; E. coli phylogroups are indicated on the right.