Phylogenomic digital expression analysis of the AP2/ERF family and validation of expression patterns of 12 downstream AP2/ERF genes of Sub1A-1. A, Phylogenomic digital expression analysis of 86 AP2/ERF TFs including three groups (i.e. VIIa, VIIIa, and IIIc) that are positively involved in Sub1A-1 function. Phylogenomic digital expression analysis of all AP2/ERF genes (182) is presented in Supplemental Figure S1. B, Validation of gene expression patterns of 11 AP2/ERF genes downstream of Sub1A-1. Gene models colored red in A were at least 2-fold up-regulated in M202(Sub1) compared with M202 at 1 d after submergence; a gene model colored green in A was more than 2-fold down-regulated in M202(Sub1) compared with M202 at 1 d after submergence; and gene models colored light blue in A were 1.4- to 2-fold down-regulated in M202(Sub1) compared with M202 at 1 d after submergence. See Figure 2 legend for the heat map. [See online article for color version of this figure.]