Fig. 2
From: Multi-locus genome-wide association studies for five yield-related traits in rice
Genetic structure of the 529 rice panel. (a - b) PCA plots of the 529 rice core varieties. PCA plots present the genetic variation in the rice accessions with PC1 and PC2, PC2 and PC3, separately. (c) Phylogenetic tree clustering of 529 rice core germplasm accessions. (d) Genome-wide LD decay is estimated from all population and subpopulations. The x-axis represents the physical distance and the y-axis represents the average pairwise correlation coefficient (r2) of SNPs. The black, grey, purple, blue, green, orange, and red colors represent All, Adm, Aus, IndI, IndII, Tej, and Trj, successively