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Rooted phylogenetic analysis using a maximum likelihood approximation on the 120 850 SNPs identified in the conserved core genome of the 241 S. aureus isolates. The tree is rooted on the CC45 branch [49] and CC groups with more than 10 isolates are highlighted. Outer circle corresponds to infection type (red=IE, blue=SAB-only). For identification of specific samples see Fig. S5.
