Fig. 3

Comparative genomics of Dioscorea rotundata and other angiosperm species. a Venn diagram showing conserved and unique genes at 1:1 correspondence among D. rotundata, Arabidopsis thaliana, Brachypodium distachyon, and Oryza sativa. Total gene counts in each genome are given below the species name. b Maximum likelihood tree of D. rotundata, B. distachyon, O. sativa, Elaeis guineensis, Musa acuminata, and Phoenix dactylifera based on 2381 orthologous protein-coding genes. The bootstrap values across 1000 resamplings are shown. The scale bar represents the mean number of substitutions per site. c Phylogenetic analysis of the relationships of mannose-specific bulb-type lectin proteins in D. rotundata (red), A. thaliana (blue), B. distachyon (green), and O. sativa (orange). Arrowheads represent bulb-type lectins observed to have enriched expression in tubers. High confidence bootstrap values (1000 replicates) are represented at the nodes of the tree as dots. Thick red and blue lines show two root branches of D. rotundata-specific expanded genes