Fig. 3

Core genome phylogeny of all ESBL-carrying E. coli isolates in our dataset (n=123). Patient numbers are listed to identify serial isolates. Isolation source and phylogroups are color coded, indicated by the corresponding legends. Fluoroquinolone (FLQ) (ciprofloxacin and/or levofloxacin) non-susceptibility is indicated by a closed orange square, the presences of unique ESBL alleles are shown in a closed blue square, and plasmid replicon families identified with prevalence ≥10% are indicated by a gray closed square. Two novel ESBL-producing STs were characterized: ST-12869 and ST-12736