Fig. 4: Phylogenetic representations of E. coli species using the core genome of the 14 medoids.
From: Mash-based analyses of Escherichia coli genomes reveal 14 distinct phylogroups
a The tree was built using a set of 2,613 core clusters with no paralogs using IQ-TREE50. b Summary representation of Count output. The phylogenetic tree presents the different gain/loss/duplication ratios obtained per each phylogroup as output of Count v.10.04 software51. Dots in branches represent “informative ellipsis” where the length of the undotted section of the branch multiplied by the inverse ratio of undotted section is equal to the true rate of the branch. For example, assuming the displayed branch length is 1 and 1/10 of the branch is solid, then the true rate of the branch would be 10. Gain/loss/duplication rates for each branch are shown in the table.
