Supplementary Figure 4: Congruence of the NCBI taxonomy on a tree inferred with ExaML from the concatenation of 120 proteins (bac120) and species-dereplicated genome set.
From: A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life
(a) Percentage of NCBI taxa at each rank which are monophyletic, operationally monophyletic, or polyphyletic within the ExaML tree. Results were calculated over all taxa comprised of >1 genomes and the number of taxa considered at each rank is shown in parentheses. (b) Percentage of the 8,905 RefSeq/GenBank genomes within the ExaML tree with identical, unresolved, or conflicting taxonomic assignments at each rank relative to the NCBI taxonomy when taxonomy is assigned based on their placement in the inferred tree. (c) RED of taxa with ≥2 immediate subordinate taxa in the ExaML tree, with the same coloring as used in panel a. The number of taxa plotted at each rank is given in parentheses.
