The Candidate Genes Underlying a Stably Expressed QTL for Low Temperature Germinability in Rice (Oryza sativaL.)
文献类型： 外文期刊
作者： Yang, Tifeng 1 ; Zhou, Lian 1 ; Zhao, Junliang 1 ; Dong, Jingfang 1 ; Liu, Qing 1 ; Fu, Hua 1 ; Mao, Xingxue 1 ; Yang, Wu 1 ;
作者机构： 1.Guangdong Acad Agr Sci, Rice Res Inst, Guangzhou 510640, Peoples R China
2.Guangdong Key Lab New Technol Rice Breeding, Guangzhou 510640, Peoples R China
关键词： Rice (Oryza sativaL; ); Low temperature germinability; Quantitative trait locus; Candidate gene; Genome-wide association study
期刊名称：RICE （ 影响因子：4.783； 五年影响因子：5.23 ）
ISSN： 1939-8425
年卷期： 2020 年 13 卷 1 期
页码：
收录情况： SCI
摘要： Background Direct seeding is an efficient cultivation technique in rice. However, poor low temperature germinability (LTG) of modern rice cultivars limits its application. Identifying the genes associated with LTG and performing molecular breeding is the fundamental way to address this issue. However, few LTG QTLs have been fine mapped and cloned so far. Results In the present study, the LTG evaluation of 375 rice accessions selected from the Rice Diversity Panel 2 showed that there were large LTG variations within the population, and the LTG ofIndicagroup was significantly higher than that ofJaponicaandAusgroups (p < 0.01). In total, eleven QTLs for LTG were identified through genome-wide association study (GWAS). Among them,qLTG_sRDP2-3/qLTG_JAP-3,qLTG_AUS-3andqLTG_sRDP2-12are first reported in the present study. The QTL on chromosome 10,qLTG_sRDP2-10ahad the largest contribution to LTG variations in 375 rice accessions, and was further validated using single segment substitution line (SSSL). The presence ofqLTG_sRDP2-10acould result in 59.8% increase in LTG under 15 degrees C low temperature. The expression analysis of the genes withinqLTG_sRDP2-10aregion indicated thatLOC_Os10g22520andLOC_Os10g22484exhibited differential expression between the high and low LTG lines. Further sequence comparisons revealed that there were insertion and deletion sequence differences in the promoter and intron region ofLOC_Os10g22520, and an about 6 kb variation at the 3 ' end ofLOC_Os10g22484between the high and low LTG lines, suggesting that the sequence variations of the two genes could be the cause for their differential expression in high and low LTG lines. Conclusion Among the 11 QTLs identified in this study,qLTG_sRDP2-10acould also be detected in other three studies using different germplasm under different cold environments. Its large effect and stable expression makeqLTG_sRDP2-10aparticularly valuable in rice breeding. The two genes,LOC_Os10g22484andLOC_Os10g22520, were considered as the candidate genes underlyingqLTG_sRDP2-10a. Our results suggest that integrating GWAS and SSSL can facilitate identification of QTL for complex traits in rice. The identification ofqLTG_sRDP2-10aand its candidate genes provide a promising source for gene cloning of LTG and molecular breeding for LTG in rice.
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