Fig. 2

Population structure and LD of 253 accessions A Inferred population structure of 253 accessions. Bar plot of individual membership coefficients for the genetic clusters inferred using ADMIXITURE (K = 3) base on 112,070 SNPs. Individual membership coefficients (Q) were sorted within each cluster. CG-1, CG-2 and CG-3 are shown in yellow, red and blue, respectively. B Principal component analysis (PCA). The four PCA scatter diagram was made by the first and second principal components. Four inferred populations were identified in ADMIXITURE, CG-1 was showed in yellow, CG-2 in red, CG-3 in blue and CG-4 in grey. C NJ tree compared the classification of inferred populations, cultivated statuses (ML modern landraces, AL ancient landraces) and two basins (PR the Pearl River Basin, YR Yangtze River Basin and OT other). D The LD decay plot of 253 accessions and four inferred populations