Figure 3

Groups of inner and outer integument expressed genes identified by SOM clustering and significant differences in expression. The expression profiles of genes that showed significant changes and were more than two-fold changed in the mutants are shown grouped by predicted location of expression and cluster. The mean values for each gene were standardized to a mean of 0 and standard deviation of 1 (z-transformation), in order to focus on expression changes and not magnitude of expression. SOM cluster numbers (Additional file 5) are indicated at the bottom left of the graphs where applicable. (A) Genes likely to be expressed in the inner integument or other regions affected by the ant mutant are separated into 3 groups with different patterns. (B) Genes likely to be expressed in both integuments show a steady decrease in expression from WT E through ino E to ant E. (C) Genes likely to be expressed in the outer integument or at late stages in the embryo sac. The EARLY ("E") group is defined by lower expression levels in ino E, with similar levels in ant E while the FULL ("F") group contains those genes that only showed significant differences between WT F and ino F, and not at the early stages.