Fig. 5

Strain-sharing within and between ecological niches and sources. A Venn-diagram showing the distribution of 857 sublineages (SLs) across human, animal and marine niches. In total, 107 SLs were present in ≥ 2 niches. B Distribution of pairwise single nucleotide polymorphism (SNP) distances, grouped by genome-pairs within the same niche (orange) and between niches (purple), showing distances up to 1000 SNPs. C Connections between sources. The proportion of human infection genomes (y-axis) that were connected to one of the other sources, by the number of pairwise SNPs (x-axis). D Strain-sharing links (clusters of genomes sharing ≤ 22 SNPs) between source pairs, as indicated on the x- and y-axes. The yellow shading highlights within-source clusters, and the purple highlights the cross-niche clusters