Figure 4.

Species trees reconstructed using phase-specific FFs in 420 proteomes of free-living organisms. (A) Tree of proteomes reconstructed from the 76 FFs of phase I (tree length = 12,829 steps; CI = 0.065, RI = 0.727; g1 = -0.116). (B) Tree of proteomes reconstructed from the 232 FFs of phase II (tree length = 28,447 steps; CI = 0.056, RI = 0.708; g1 = -0.242). (C) Tree of proteomes reconstructed from the 331 FFs of phase III (tree length = 13,773 steps; CI = 0.082, RI = 0.783; g1 = -0.212). (D) Tree of proteomes reconstructed from the 1,008 FFs of phase IV (tree length = 21,804 steps; CI = 0.153, RI = 0.614; g1 = -0.356). (E) Tree of proteomes reconstructed from the 750 FFs of phase V (tree length = 47,213 steps; CI = 0.136, RI = 0.828; g1 = -0.284). Terminal leaves of Archaea, Bacteria, and Eukarya were labeled in red, blue, and gray. Venn diagrams show the distribution of FFs in the three superkingdoms for the FFs of each phase. The green arrow indicates the root position of a given tree of proteomes.

Kim and Caetano-Anoll├ęs BMC Evolutionary Biology 2012 12:13   doi:10.1186/1471-2148-12-13
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