Questioning the Ubiquity of Neofunctionalization
Figure 6
Change in the number of interacting partners (protein connectivity) over time.
Proteins are aligned with the phylogenetic period from Figure 5 in which they were born (see Methods). Red circles identify the connectivity of gene duplicates born at the indicated phylogenetic timepoint: T1, T2, and T3. The red trend line indicates that the connectivities of gene duplicates increase over time. Black triangles identify the same proteins after removing interactions with more recent duplicates. The black trend line indicates that once subsequent duplications are accounted for, the connectivities of paralogous genes remain largely unchanged. This is consistent with the alternate explanation proposed in Figure 4B. (A) The combined interaction datasets [29],[30] used by He and Zhang [6]. (B) Physical interactions from BioGrid [31].