Fig. 2

Phylogeny of M. tuberculosis. a SNP-based phylogenetic tree derived from the multiple alignments of 1794 M. tuberculosis genomes from the five main human lineages plus the M. bovis-West-Africa lineage (BOV-AFRI). Lineages were identified using the informative-SNP dataset from [22]. The star shows the position of the reference strain H37Rv. b A closer look at the 18b branch. For each sample, the accession number is given, followed by the total number of SNPs compared to the 18b genome, location of sample collection and year of collection