江西农业大学学报2025，Vol.47Issue(5)：1224-1234,11.DOI:10.3724/aauj.2025105
全基因组关联分析定位水稻垩白QTL及候选基因分析
Genome-wide association study for mapping QTLs and candidate gene analysis of rice chalkiness
摘要
Abstract
[Objective]Rice chalkiness is one of the key indicators affecting the commercial value of rice grains.Although progress has been made in the identification of quantitative trait loci(QTLs)and genes associated with rice grain chalkiness,it still cannot fully meet the needs of rice breeding.Therefore,mining more chalkiness-related QTLs and genes from rice germplasm resources is of great significance for promoting the breeding of new high-quality rice varieties.[Method]A total of 144 representative rice varieties were used as experimental materials.These materials were planted at the experimental bases in Nanchang and Gao'an in 2023.After harvest at the maturity stage,the chalky grain rate and chalkiness degree of rice were determined,and genome-wide association analysis was performed using GEMMA software combined with genotypes.[Result]Under the Nanchang environment,16 chalkiness-related QTLs were identified,including 12 associated with the percentage of chalky grains and 4 associated with chalkiness degree.Under the Gao'an environment,3 chalkiness-related QTLs were detected,with 1 related to the percentage of chalky grains and 2 related to chalkiness degree.The results showed that qPGWCNC10-2,qPGWCGA10-2,qDECNC-10,and qDECGA-10 on chromosome 10 were localized in the same interval.Further analysis of QTLs on chromosome 10 led to the screening of 3 candidate genes associated with grain chalkiness,namely LOC_Os10g14870,LOC_Os10g17690,and LOC_Os10g17930.[Conclusion]This study identified new chalkiness-related loci in rice and analyzed the candidate genes,providing a reference for the cloning of new chalkiness-related QTLs(genes)and the genetic improvement of chalkiness.关键词
水稻/GWAS/垩白粒率/垩白度/QTL/候选基因Key words
rice/GWAS/chalky grain rate/chalkiness degree/QTL/candidate gene分类
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刘旭,贺浩华,边建民,陈亮,李先圣,钟奇,Mvuyeni Nyasulu,朱晓霞,杨家健,丁晗,杨玉萍..全基因组关联分析定位水稻垩白QTL及候选基因分析[J].江西农业大学学报,2025,47(5):1224-1234,11.基金项目
国家生物育种项目(2022ZD040010202)和江西省重点研发计划项目(20243BBH81003)Project supported by the National Biological Breeding Project(2022ZD040010202)and Key Research and Development Program Project of Jiangxi Province(20243BBH81003) （2022ZD040010202）
