Figure 4
Phylogenomic tree of Oryza species.
(a,b) Phylogenetic trees were built based on the complete cp genome (a) and 45S cistron sequences (b). O. sativa ssp. japonica and indica groups are denoted as J and I, respectively. Different species/subspecies are indicated with different colored labels. Numbers in colored circles represent accessions labeled in Table 1. Dashed lines connect the positions of each accession/cultivar in the two trees; red highlights major differences between trees. The tree was generated based on Bayesian Inference analysis using BEAST (version 1.8.1) as mentioned in Materials and Methods. Posterior probability (pp) above 0.5 are shown on the branches. Divergence time was calculated based on 9 million years ago (MYA) when Oryza species with AA and BB genome were estimated to be speciation29.
