Fig. 6
Genotypes and phylogenetic analysis of OsCd1. a The spectrum of allele frequencies at the causal polymorphisms of OsCd1 in O. rufipogon (Or-I, Or-II and Or-III) and O. sativa (japonica and indica). b Phylogenetic tree of the full population calculated from the SNPs of OsCd1 in O. sativa (indica and japonica subspecies, up) and O. rufipogon (Or-I, Or-II and Or-III, down). c Phylogenetic tree of the full population calculated from the SNPs of OsCd1 in O. rufipogon (outer ring) and O. sativa (inner ring). d Illustration of genetic diversity and population differentiation in O. rufipogon and O. sativa. The Fst values between the groups were indicated. ind, indica; jap, japonica. Or-I, Or-II and Or-III are colored in pink, light blue and gray respectively; indica and japonica subspecies are in red and black, respectively
