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- Title
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.
- Authors
Yang, Xinghai; Nong, Baoxuan; Xia, Xiuzhong; Zhang, Zongqiong; Zeng, Yu; Liu, Kaiqiang; Deng, Guofu; Li, Danting; McIntyre, C.L.
- Abstract
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.
- Subjects
RICE; AMYLOSE; GENES; RICE breeding; MOLECULAR biology
- Publication
Genome, 2017, Vol 60, Issue 6, p465
- ISSN
0831-2796
- Publication type
Article
- DOI
10.1139/gen-2016-0104