FIG 1 .

WGS-based maximum likelihood phylogeny (using the best-fit model TVMe+ASC) of 497 S. aureus isolate genomes showing the CC8 group in the context of the whole of S. aureus. This analysis includes 1,000 bootstraps of 275,242 total SNPs in a core genome size (the length of the reference genome covered by all samples, excluding repeated regions) of 1.84 Mbp. Regions of chromosomal exchange among lineages resulting in hybrid strains (e.g., ST239) were not excluded. Bootstrap values are 100%, except where indicated. Branches of the phylogeny on which SNPs were selected for assay development are marked with a red triangle.