Figure 4
From: Dynamic differential evolution schemes of WRKY transcription factors in domesticated and wild rice
Phylogenetic construction of WRKY proteins from Oryza and hypothesized domain evolution. (a) Maximum likelihood tree of WRKY domain sequences using 1000 bootstrap replicates. Group IaN: red, Group IaC: dark green, Group IbN: blue, Group IbC: purple, Group IIa: yellow, Group IIb: orange, Group IIc: pink, Group IId: brown, Group IIe: cyan, Group III: light green, and Group IV: black. Clades have also been labeled according to orthologous group placement. Clades notated with two or more WRKY IDs indicate an intermixed clade. Red asterisks indicate novel group 1a WRKYs resulted from duplications of the N-terminal domain of more ancient group Ia proteins. Red arrows indicate novel WRKYs likely resulted from loss of the N-terminal WRKY domain of Group Ia proteins. Red font texts indicate clades with Group Ib. Nodes with bootstrap support < 50 are not shown. (b) Proposed hypothesis for how the clades observed in panel A for W57 and W102/103 could have occurred via the rapid loss and gain of WRKY domains. The hypothesis proposes that a Group Ia ancestor for each respective WRKY may have lost its C-terminus and left a IIc-like N-terminus, which subsequently duplicated within select lineages to create a novel Group Ia-like WRKYs (Group 1a-n1).
