Fine mapping and candidate gene analysis of qGL10 affecting rice grain length
Tengkui Chen,
Lixin Luo,
Zhe Zhao,
Hui Wang,
Chun Chen,
Yongzhu Liu,
Xinchang Li,
Tao Guo,
Wuming Xiao
Affiliations
Tengkui Chen
National Plant Space Breeding Engineering Technology Research Center, South China Agricultural University, Guangzhou 510642, Guangdong, China
Lixin Luo
National Plant Space Breeding Engineering Technology Research Center, South China Agricultural University, Guangzhou 510642, Guangdong, China
Zhe Zhao
National Plant Space Breeding Engineering Technology Research Center, South China Agricultural University, Guangzhou 510642, Guangdong, China
Hui Wang
National Plant Space Breeding Engineering Technology Research Center, South China Agricultural University, Guangzhou 510642, Guangdong, China
Chun Chen
National Plant Space Breeding Engineering Technology Research Center, South China Agricultural University, Guangzhou 510642, Guangdong, China
Yongzhu Liu
National Plant Space Breeding Engineering Technology Research Center, South China Agricultural University, Guangzhou 510642, Guangdong, China
Xinchang Li
Zhaoqing Branch Center of Guangdong Laboratory for Lingnan Modern Agricultural Science and Technology, Zhaoqing 526238, Guangdong, China
Tao Guo
National Plant Space Breeding Engineering Technology Research Center, South China Agricultural University, Guangzhou 510642, Guangdong, China; Zhaoqing Branch Center of Guangdong Laboratory for Lingnan Modern Agricultural Science and Technology, Zhaoqing 526238, Guangdong, China; Corresponding authors.
Wuming Xiao
National Plant Space Breeding Engineering Technology Research Center, South China Agricultural University, Guangzhou 510642, Guangdong, China; Zhaoqing Branch Center of Guangdong Laboratory for Lingnan Modern Agricultural Science and Technology, Zhaoqing 526238, Guangdong, China; Corresponding authors.
Grain size influences the yield and quality of rice (Oryza sativa L.), and grain length is one of the component traits of grain size. In this study, a near-isogenic line LB3 with long grain size was constructed using japonica rice cultivar 02428, with short grain size, as the recipient parent and indica rice cultivar ZYX, with long grain size, as the donor parent, by multi-generation backcrossing and selfing. BSA-seq was used for preliminary QTL mapping and InDel markers were developed to fine map the locus. The major QTL, tentatively named qGL10, for grain length was located in a 128.45 kb region of chromosome 10. Combined with haplotype analysis of rice varieties, expression pattern analysis of candidate genes suggested LOC_Os10g39130 (OsMADS56) as a candidate gene. Sequence alignment of OsMADS56 in 02428 and LB3 revealed that there were 15 SNPs in the promoter region and four in the coding region. Further haplotype analysis suggested that SNP9 (G/A) located in the TGTCACA motif might account for the different expression levels of OsMADS56 in 02428 and LB3. These results lay a foundation for the application of qGL10 in molecular breeding of new rice varieties.
