Abstract
Background Thailand is a country with large diversity in rice varieties due to its rich and diverse ecology. In this paper, 300 rice varieties from all across Thailand were sequenced to identify SNP variants allowing for the population-structure to be explored.
Results The result of inferred population structure from admixture and clustering analysis illustrated strong evidence of substructure in each geographical region. The results of phylogenetic tree, PCA analysis, and machine learning on SNPs selected by QTL analysis also supported the inferred population structure.
Conclusion The population structure, which was inferred in this study, contains five populations s.t. each population has a unique ecological system, genetic pattern, as well as agronomic traits. This study can serve as a reference point of the nation-wide population structure for supporting breeders and researchers who are interested in Thai rice.
Competing Interest Statement
The authors have declared no competing interest.
