Fig. 1

Core-genome SNP-based phylogeny of Brachyspira hyodysenteriae isolates of ST196. A The relationship among isolates of ST196 are shown according to the approximately-maximum-likelihood phylogenetic tree. Labels containing names of the isolates and regions (from Western to Eastern Switzerland: R1 to R4) of isolation are colored according to the years of isolation. Sublineages are indicated with roman numerals. Numbers of different non-recombinant cgSNPs identified respect to the reference genome are indicated for each isolate. Average (Avg) SNPs distance is also indicated for clusters V, VI, VII and VIII. B Isolates are clustered according to the distance matrix of pairwise differences calculated from the non-recombinant cgSNPs. Number of different cgSNPs used to identify genetic distances across all genomes are indicated in each cell of the heatmap