Monophyly of each sub-division.

The monophylies of most major divisions (9 out of 13 phyla) can be confirmed by high RP supports (RP>95%), implying the intrinsic differences in the gene networks of taxonomic divisions. The disruptions were found in Metazoa, Euryarchaeota, Proteobacteria and Firmicutes, even though the families in these phyla are monophyletic (RP>50%). Increased gene relationships in these genomes will help to resolve the phylogeny of these species (Figure 3). For detailed descriptions, see Table S4.
aRP stands for “Robustness Proportion”.
bOnly one species of the phylum was used in our study.