Fig. 3

Distribution of ESBL, NDM and mcr-1 genes in E. coli from East Thailand. a Left: maximum likelihood tree of 149 study isolate genomes based on SNPs in the core genome. Scale bar indicates ~ 10,000 SNPs. The columns describe the origin (red, clinical; blue, canal; pink, farm wastewater; grey, untreated hospital sewage), ESBL elements (white, absent; yellow, CTX-M-55; purple, CTX-M-14; red, CTX-M-15; light blue, CTX-M-27; pink, CTX-M-24; brown, CTX-M-65; orange, SHV-12; black, multiple ESBL elements) and data for SHV-12 (blue, absent; red, present), NDM (blue, absent; red, NDM-1; orange, NDM-5), GES-5 (blue, absent; red, present), and mcr-1 (blue, absent; red, present). Right: the top ten multilocus sequence types. b Prevalence of ESBL elements (CTX-M and SHV-12 variants) in 149 study isolates. Three isolates contained multiple elements (CTX-M-15 and CTX-M-27, CTX-M-27 and CTX-M-55, and CTX-M-14 and SHV-12, respectively). c Percentage of each CTX-M variant and SHV-12 in 84 clinical versus 65 environmental isolates