Yu Hang†, Liu Yue, Sun Bingrui, Liu Qing, Mao Xingxue, Jiang Liqun, Lyu Shuwei, Zhang Jing, Chen Pingli, Pan Dajian, Chen Wenfeng, Fan Zhilan, Li Chen*

Rice

Abstract 

As the pioneer of the Green Revolution in China, Guangdong province witnessed the improvement and spread of semi-dwarf Xian/Indica rice cultivars and possessed diverse rice germplasm of landrace and
cultivars. A total of 517 accessions containing a core germplasm of 479
newly sequenced landraces and modern cultivars were used to reveal
breeding signatures and key variations for regional genetic improvement
of indica rice from Guangdong. Four subpopulations were
identified in the collection, which including Ind IV as a novel
subpopulation that not covered by previously released accessions. Modern
cultivars of subpopulation Ind II were inferred to have less
deleterious variations, especially in yield related genes. About 15 Mb
genomic segments were identified as potential breeding signatures by
cross-population likelihood method (XP-CLR) of modern cultivars and
landraces. The selected regions spanning multiple yield related QTLs
(quantitative trait locus) which identified by GWAS (genome-wide
association studies) of the same population, and specific variations
that fixed in modern cultivars of Ind II were characterized. This study
highlights genetic differences between traditional landraces and modern
cultivars, which revealed the potential molecular basis of regional
genetic improvement for Guangdong indica rice from southern China.

Keywords Rice, Yield improvement, Resequencing, Breeding signature, GWAS

附件：https://thericejournal.springeropen.com/articles/10.1186/s12284-023-00642-3