Fig. 3

Lineage-specific copy number expansion of REM genes in pepper. (A) The phylogenetic relationship of the B3 genes among seven species. The outer and middle rings represent subfamilies and subgroups, respectively. Colored dots at the end of the branch indicate species. (B) The most abundant motifs near the B3 domain are shown. Motifs are portrayed as numbers in the box. The boxes are colored to show the type of enriched result of the motifs (p < 0.0001). (C) The number of subgroups indicated by species on the heatmap. (D) Microsynteny relationship of G8 genes in pepper (C. annuum), potato, and tomato. The line implies an orthologous relationship between genes. Black and gray blocks mark the chromosome locations of orthologous and non-orthologous B3 genes. White blocks mean orthologous genes of non-B3 genes. (E) Duplication history of G8 genes in pepper, potato, and tomato. The Ks values of duplication pairs of genes are shown in a dot plot. The Ka/Ks ratio is displayed as a bar graph