Fig. 4

Comparison of major plastid gene sets between Florideophyceae (red algae) and seed plants (green plants). Functions and substitution rates are shown based on taxon sampling of the maximum likelihood trees (Figs. 1 and 3). Sixty two common genes are clustered based on their homology (rpoC1 and rpoC2 genes were combined as rpoC). Functional categories are shown based on UniProt and NCBI databases, and “plastid conserved gene” indicates ycf gene. Red algal-specific genes (135), green lineage-specific genes (16), and their common genes (62; red and green lineage) were analyzed by synonymous substitution rates (ds) and non-synonymous substitution rates (dn) and plotted as a graph