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Fig. S1. The phylogeny of the 16S gene rrn.

Fig. S2. Pairwise comparison of housekeeper gene trees.

Fig. S3. The phylogeny of the argininosuccinate lyase gene argH.

Fig. S4. The phylogeny of the ATP synthase beta chain gene atpD.

Fig. S5. The phylogeny of the elongation factor P gene efp.

Fig. S6. The phylogeny of the phosphoenolpyruvate carboxylase gene ppc.

Fig. S7. The phylogeny of the ribosomal protein L3 gene rplC.

Fig. S8. The phylogeny of the DNA-directed RNA polymerase beta subunit gene rpoB.

Fig. S9. The phylogeny of the 30S ribosomal protein S12 gene rpsL.

Fig. S10. The phylogeny of the Fe-containing superoxide dismutase gene sodF.

Fig. S11. Population snapshot of the S. griseus clade. Group A strains are black, Group B grey and Group C white. The numbers next to some of the sites denotes the number of strains with the same allelic profile.

Fig. S12. The phylogeny of the ABC-type transport gene strW.

Fig. S13. Resistance levels of strains studied divided by phylogroup. The pale grey column indicates high-level resistance (50 μg ml−1), the deeper grey moderate level resistance (10 μg ml−1) and the dark grey sensitivity.

Fig. S14. PCR primers used in this study.

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