Fig. 2
Initial post-WGD acceleration is followed by asymmetric deceleration in protein evolution rates. a Schematic representing the different branches used in the hypothesis testing for differences in the rates of protein evolution at different branches in the genes' phylogeny. Branches 0 (gray) indicate sequences from all species that diverged before the WGD (yellow star); branches a1 (blue) and b1 (red) are the two branches following immediately after the WGD, while a2 (light blue) and b2 (pink) are the modern post-WGD paralogous clades. b Box plots showing the distributions of dN/dS rates at different stages of the phylogeny of orthogroups for which the R2 hypothesis (ω0 ≠ ωa1,b1 ≠ ωa2,b2) was accepted. Pie charts show the number of orthogroups in which the alternative hypothesis of different evolutionary rates is accepted for c immediate post-WGD and modern post-WGD branches (R2 and R2' variant), d immediate post-WGD paralogous branches (R3 and R3' variant), and e entire post-WGD paralogous clades (R4)