Extended Data Fig. 1: Genetic relatedness and genomic features of 710 VREfm isolates from UPMC.
From: Bacteriocin production facilitates nosocomial emergence of vancomycin-resistant Enterococcus faecium
(A) The midpoint-rooted phylogenetic tree was constructed from a single-copy core genome alignment. The scale bar represents nucleotide substitutions per site. Sequence types (ST) and isolation source are colored as indicated. Emergent lineages are noted by a black star. Antimicrobial susceptibility testing (AST) results for daptomycin (DAP) and linezolid (LNZ) were interpreted as resistant (R), intermediate (I), or susceptible (S). (B) Genome length, (C) presence of antimicrobial resistance genes, (D) presence of virulence genes, and (E) presence of plasmid replicons within main VREfm lineages. Averages of genomic features within each ST were compared to the average seen in the previously dominant ST17 lineage using a two-sided t-test. Asterisks indicate p-values < 0.0045. Horizontal lines represent the average and error bars show the standard deviation for each group.
