Additional file 1 of Multi-host infection and phylogenetically diverse lineages shape the recombination and gene pool dynamics of Staphylococcus aureus

Additional file 1: Supplementary Table S1. Accession numbers, associated metadata, ST, BAPS sequence cluster, homologous recombination information, AMR and virulence genes and rep families of the 437 S. aureus genomes in this study. Supplementary Table S2. Functional classification of the unique genes (i.e., isolate-specific) detected in human and animal isolates according to eggnog. Supplementary Table S3. Genome-wide average nucleotide identity (ANI) values for every pair of S. aureus genomes. Supplementary Table S4. List of recombination events predicted by ClonalFrameML indicating the initial position and end position of each recombination event detected in the genomes as well as in the ancestor nodes. Supplementary Table S5. Recombination events inferred from the 437 genomes using fastGEAR. The results include information about the donor group, recipient group, start/end position of event, gene name, and a list of recipient genomes. Supplementary Table S6. Recombination events inferred from a subset of 228 genomes (114 human and 114 animals) using fastGEAR. The results include information about the donor group, recipient group, start/end position of event, gene name, and a list of recipient genomes.