Fig. 5: Population genetic evidence for adaptive evolution in HAN2.
From: Suppressing an auxin efflux transporter enhances rice adaptation to temperate habitats
a Distribution of HAN2 Copia LTR across Aus, Ind, Trj, Tej, and Ruf populations. b Genetic diversity and population differentiation within a 6 Mb region (26–32 Mb) near HAN2 in O. rufipogon and O. sativa. Circle sizes represent genetic diversity; FST values between groups are indicated. Ruf, O. rufipogon; Ind, indica; Jap, japonica. c Genetic diversity and population differentiation in a 6 Mb region near HAN2 in Tej and Trj. Circle sizes represent genetic diversity; FST values are indicated. Tej, temperate japonica; Trj-LTR, tropical japonica without HAN2 Copia LTR; Trj+LTR, tropical japonica with HAN2 Copia LTR. d Haplotype analysis of the HAN2 region on chromosome 1 across indica, temperate japonica, and tropical japonica rice with and without the LTR. e Nucleotide diversity (π) surrounding the HAN2 gene in Ruf, Ind, and Tej populations. The red arrow indicates the position of HAN2. f Nucleotide diversity (π) surrounding the HAN2 gene in Trj, Trj-LTR, and Trj+LTR populations. The red arrow indicates the position of HAN2. g Percentage and geographical distribution of LTR insertions in rice cultivars across Asian countries. Source data are provided as a Source Data file.
