Fig. 2

Phylogenetic trees. A Maximum Parsimony tree of all published modern and ancient [44, 45, 47, 49, 50, 96, 97, 108, 116,117,118,119,120,121], as well as newly sequenced leprosy strains. All ancient strains are bold, and all new ancient strains are bold and red. The bootstrap values are given as node labels (500 bs). Animal symbols and italicized labels indicate strains isolated from red squirrels (Brw15 strains), armadillos (W09), and non-human primates (CH4, SM1, and CM1). The main branches are color-coded with background boxes. B Bayesian Maximum Clade Credibility time-aware tree for the leprosy genomes including only genomes with at least 3-fold coverage and at least 60% of the genomic sites. Noteworthy nodes are labeled with the median estimated age (year CE/BCE) and 95% Highest Posterior Density for the age estimate (violet bars) as well as posterior probability estimate