PJB-2018-182
A neo-diversity group of Oryza sativa L. ssp. Japonica has formed in northeast China evaluated based on large-effect SNPs
Hong GAO
Abstract
Selective breeding of the subspecies Oryza sativa L. ssp. japonica in northern China has been successful over a relatively short time span. However, little is known about how the genetic structure of japonica has diverged as a result of artificial selection. In this study, we selected 189 single nucleotide polymorphisms (SNPs) in gene coding regions to characterize the diversity, phylogeny and population structure of four breeding groups in northern China, modern breeding phase japonica: early breeding phase japonica, exotic japonica, and indica. Results suggest that the neo-diversity of japonica has formed gradually through introgression from other gene resources with the breeding selection. Sequence diversity (π) of modern breeding phase japonica was the lowest group compared with early breeding phase japonica, exotic japonica and indica which imply a genetic bottleneck caused by breeding selection. Population structure and phylogeny analysis proved that the modern phase japonica was independent of the early breeding phase japonica and exotic japonica groups.
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