Orthologues and co-orthologues in a Group III WRKY transcription factor clade in the grasses. A combined phylogram of grass members of a Group III WRKY transcription factor clade. Members from the grasses maize, sorghum, switchgrass, foxtail millet, and rice, in addition to TaWRKY45A, TaWRKY45B, TaWRKY45D, BdWRKY11, TaWRKY11, and BdWRKY79, were used. The complete amino acid sequences of the proteins were used to construct the phylogram. The evolutionary history was inferred using the Neighbor-Joining method. The bootstrap consensus tree inferred from 1000 replicates is taken to represent the evolutionary history of the taxa analyzed. The percentages of replicate trees in which the associated taxa clustered together in the bootstrap test (1000 replicates) are shown next to the branches. The tree is drawn to scale, with branch lengths in the same units as those of the evolutionary distances used to infer the phylogenetic tree. The distance scale (0.1) is shown. The evolutionary distances were computed using the Poisson correction method and are in the units of the number of amino acid substitutions per site. Evolutionary analyses were conducted in MEGA5 . Wheat proteins are indicated by a green dot and Brachypodium proteins by a red dot. Brachypodium proteins are prefixed by Bd, wheat proteins by Ta, Arabidopsis WRKY1 (used as an outgroup) by At, barley WRKY32 by Hv, and rice proteins by Osj. All other proteins are indicated by the name of the gene model in Phytozome and prefixed as follows; GRMZM (maize), Si (foxtail millet), Pavirv (switchgrass), and Sb (sorghum). To the right of each protein name is the domain structure of each protein as predicted by MEME, and beneath are the consensus sequences of each of the ten protein domains.
Tripathi et al. BMC Genomics 2012 13:270 doi:10.1186/1471-2164-13-270