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. 2024 May 7;2:14. doi: 10.1038/s44259-024-00032-9

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© The Author(s) 2024

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 4 — a, b Bayesian maximum clade credibility time-calibrated phylogenies of a ST5 and b ST8 based on non-recombining regions of the core genome alignment. Branches colored in red represent genomes carrying SCCmec elements. The SCCmec types are represented by the colored dots at the tip of the branches. The divergence date (median estimate with 95% highest posterior density dates) is indicated as a horizontal blue line on the tree. For visual clarity, only the relevant divergence dates related to SCCmec acquisition are shown. Colored squares represent the presence of a mutation or genes associated with AMR and superantigens (SAg). c, d Condensed version of panels a and b showing the emergence of AMR classes as a function of the age of nodes when resistance mutations or genes were inferred to have emerged in c ST5 and d ST8.