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Rapid identification of a new gene influencing low amylose content in rice landraces (Oryza sativa L.) using genome-wide association study with specific-locus amplified fragment sequencing

文献类型： 外文期刊

作者： Yang, Xinghai 1 ; Nong, Baoxuan 1 ; Xia, Xiuzhong 1 ; Zhang, Zongqiong 1 ; Zeng, Yu 1 ; Liu, Kaiqiang 1 ; Deng, Guofu; 1 ;

作者机构： 1.Guangxi Acad Agr Sci, Rice Res Inst, 174 East Daxue Rd, Nanning 530007, Peoples R China

关键词： rice landraces;very low amylose content;SLAF-seq;GWAS;candidate gene

期刊名称：GENOME （ 影响因子：2.166； 五年影响因子：2.474 ）

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收录情况： SCI

摘要： Starch is the major component of milled rice, and amylose content (AC) affects eating quality. In this study, a genome-wide association study (GWAS) with specific-locus amplified fragment sequencing (SLAF-seq) data was performed for AC on a core collection of 419 rice landraces. Using the compressed mixed linear method based on the Q+K model, we identified a new gene, LAC6 (Chr6: 5.65-6.04 Mb), associated with AC in the low amylose content panel. The LAC6 candidate gene was detected by qRT-PCR in rice panicles. Results indicate that LOC_Os06g11130 was up-regulated, and LOC_Os06g11340 was significantly down-regulated, making it most likely a key candidate gene of LAC6. In conclusion, the findings provide a certain theoretiacal basis of molecular biology for genetic improvement of AC in rice and rice quality variety breeding.

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