Fig. 2

A The SKPCV phylogeny. Maximum likelihood tree of the 1,604 genomes of the SKPCV project using the core-genome (90%) alignment (Supplementary Fig. 2). B Association between lineages and resistant types. A simplified version of the tree in (A) showing only those sequence types (STs) with at least five isolates. The bar plot depicts the total number of isolates within each sublineage, color-coded according to their antibiotic resistance profile: susceptible, resistant to third-generation cephalosporins, or carbapenems. The last column represents the odds ratio (OR) and its 95 percent confidence interval estimates for the association between each sublineage and resistance to either 3GC or carbapenems. Only statistically significant values (p-value < 0.005) determined by t-tests are shown. When confidence intervals (CI) could not be computed due to small sample sizes, the odds ratio (OR) is shown without CI