Fig. 3: Maximum likelihood SNP phylogeny of E. coli.
From: A 16th century Escherichia coli draft genome associated with an opportunistic bile infection
a The global phylogeny with bootstrap values and phylogenetic groups with E. coli EC42405 as the out-group. b Phylogeny of the reduced subgroup A0 as defined by the Clermont genotype (+ - - -)61. Tip points represent the sequence type of the strain. IAI1 was the out-group of the phylogeny. c Phylogeny of the ST4995 strains. Red rectangles represent the 95% confidence interval for the topology; labels indicate the median date of divergence. The evolutionary rate for the phylogeny was 2.555 × 10−6[1.567 × 10−6, 3.992 × 10−6] subs/site/year. CFSAN051544 was the out-group. The brown arrows indicate the position of the ancient genome.
