Genome-wide association mapping and gene expression analysis reveal candidate genes for grain chalkiness in rice
文献类型： 外文期刊
作者： Huo, Xing 1 ; Wang, Jian 1 ; Chen, Luo 1 ; Fu, Hua 1 ; Yang, Tifeng 1 ; Dong, Jingfang 1 ; Ma, Yamei 1 ; Zhou, Lian 1 ; Chen, Jiansong 1 ; Liu, Dilin 1 ; Liu, Bin 1 ; Zhao, Junliang 1 ; Zhang, Shaohong 1 ; Yang, Wu 1 ;
作者机构： 1.Guangdong Acad Agr Sci, Rice Res Inst, Guangdong Key Lab New Technol Rice Breeding, Guangdong Rice Engn Lab,Key Lab Genet & Breeding H, Guangzhou, Peoples R China
关键词： rice; grain chalkiness; genome-wide association study; quantitative trait loci (QTL); candidate gene
期刊名称：FRONTIERS IN PLANT SCIENCE （ 影响因子：5.6； 五年影响因子：6.8 ）
ISSN： 1664-462X
年卷期： 2023 年 14 卷
页码：
收录情况： SCI
摘要： Grain chalkiness is the main factor determining the market value of rice. Reducing chalkiness is an important breeding goal for genetic improvement of high quality rice. Identification of QTLs or genes controlling chalkiness is the prerequisite for molecular breeding in rice. Here, we conducted a genome-wide association study to identify QTLs associated with grain chalkiness including percentage of grains with chalkiness (PGWC) and degree of endosperm chalkiness (DEC) in 450 rice accessions consisting of 300 indica and 150 japonica rice in two environments. A total of 34 QTLs were identified, including 14 QTLs for PGWC and 20 QTLs for DEC. Among them, seven QTLs were commonly identified in two environments, and eight QTLs were simultaneously related to two traits. Based on the haplotype analysis, LD decay analysis, RNA-sequencing, qRT-PCR confirmation and haplotype comparisons, four genes (LOC_Os10g36170, LOC_Os10g36260, LOC_Os10g36340 and LOC_Os10g36610) were considered as the candidate genes for qDEC-10c(1w,2wj), which could be identified in both environments and had the most significant p-value among the newly identified QTLs. These results provided new insight into the genetic basis of grain chalkiness and gene resources for improving quality by molecular breeding in rice.
- 相关文献
作者其他论文 更多>>
-
The Function of SD1 on Shoot Length and its Pyramiding Effect on Shoot Length and Plant Height in Rice (Oryza sativa L.)
作者：Dong, Jingfang;Ma, Yamei;Hu, Haifei;Wang, Jian;Yang, Wu;Fu, Hua;Zhang, Longting;Chen, Jiansong;Zhou, Lian;Li, Wenhui;Nie, Shuai;Zhao, Junliang;Liu, Bin;Yang, Tifeng;Zhang, Shaohong;Zhang, Longting;Liu, Ziqiang
关键词：Shoot Length; Plant Height; Causal gene; Allele Mining; Pyramiding Effect; Rice
-
Differential selection of yield and quality traits has shaped genomic signatures of cowpea domestication and improvement
作者：Wu, Xinyi;Li, Mao;Dong, Junyang;Wang, Baogen;Wu, Jian;Wu, Xiaohua;Wang, Ying;Wang, Jian;Lu, Zhongfu;Sun, Yuyan;Dong, Wenqi;Li, Guojing;Hu, Zhongyuan;Liao, Nanqiao;Zhang, Mingfang;Zhang, Yan;Yang, Yi;Li, Mao;Dong, Junyang;Wang, Baogen;Wu, Jian;Wu, Xiaohua;Wang, Ying;Wang, Jian;Lu, Zhongfu;Sun, Yuyan;Dong, Wenqi;Li, Guojing;Zhang, Mingfang;Zhang, Mingfang
关键词：
-
A soybean bZIP transcription factor is involved in submergence resistance
作者：Lin, Yanhui;Xu, Jing;Li, Yapeng;Zhu, Honglin;Tang, Liqiong;Wang, Xiaoning;Li, Yapeng;Wang, Xiaoning;Huo, Xing;Yu, Yongmei
关键词：GmbZIP71-4; Transcription factor; Abiotic stress; Submergence resistant; ABA
-
Identification and Characterization of HS4-Mediated Hybrid Seed Shattering in Rice
作者：Wang, Daiqi;Ruan, Ying;Liu, Chunlin;Wang, Daiqi;Liu, Chunlin;Wang, Daiqi;Xie, Wantong;Chen, Hong;Liu, Ziqiang;Wang, Daiqi;Xie, Wantong;Liu, Ziqiang;Yang, Tifeng
关键词：fine mapping; hybrid seed shattering; Oryza glaberrima; rice
-
Pangenome-Wide Association Study and Transcriptome Analysis Reveal a Novel QTL and Candidate Genes Controlling both Panicle and Leaf Blast Resistance in Rice
作者：Wang, Jian;Hu, Haifei;Zhang, Shaohong;Yang, Wu;Dong, Jingfang;Yang, Tifeng;Ma, Yamei;Zhou, Lian;Chen, Jiansong;Nie, Shuai;Liu, Chuanguang;Liu, Bin;Zhao, Junliang;Wang, Jian;Hu, Haifei;Zhang, Shaohong;Yang, Wu;Dong, Jingfang;Yang, Tifeng;Ma, Yamei;Zhou, Lian;Chen, Jiansong;Nie, Shuai;Liu, Chuanguang;Liu, Bin;Zhao, Junliang;Wang, Jian;Hu, Haifei;Zhang, Shaohong;Yang, Wu;Dong, Jingfang;Yang, Tifeng;Ma, Yamei;Zhou, Lian;Chen, Jiansong;Nie, Shuai;Liu, Chuanguang;Liu, Bin;Zhao, Junliang;Wang, Jian;Hu, Haifei;Zhang, Shaohong;Yang, Wu;Dong, Jingfang;Yang, Tifeng;Ma, Yamei;Zhou, Lian;Chen, Jiansong;Nie, Shuai;Liu, Chuanguang;Liu, Bin;Zhao, Junliang;Zhu, Xiaoyuan;Yang, Jianyuan;Zhu, Xiaoyuan;Yang, Jianyuan;Jiang, Xianya;Ning, Yuese
关键词：Rice; Blast resistance; Pangenome-wide association study; Transcriptomic analysis; Candidate genes
-
Haplotype-resolved genomes of octoploid species in Phyllanthaceae family reveal a critical role for polyploidization and hybridization in speciation
作者：Li, Fangping;Hou, Zhuangwei;Xu, Shiqiang;Li, Bin;Cai, Shike;Gu, Yan;Mei, Yu;Wang, Jihua;Li, Fangping;Liu, Jieying;Gan, Zhenpeng;Zhang, Xiufeng;Zhou, Xiaofan;Wang, Shaokui;Li, Fangping;Wang, Zefu;Hou, Zhuangwei;Han, Danlu;Hu, Haifei;Zhao, Junliang;Hu, Haifei;Zhao, Junliang;Hu, Haifei;Zhao, Junliang;Zhang, Jisen
关键词：Phyllanthaceae; chromosome-scale haplotype-resolved genome; octoploid species; speciation; polyploidization; hybridization
-
Dominance complementation of parental heading date alleles of Hd1, Ghd7, DTH8, and PRR37 confers transgressive late maturation in hybrid rice
作者：Zong, Wubei;Song, Yingang;Xiao, Dongdong;Guo, Xiaotong;Li, Fuquan;Sun, Kangli;Tang, Wenjing;Xie, Wenhao;Luo, Yanqiu;Liang, Shan;Zhou, Jingyao;Xie, Xianrong;Chen, Letian;Wang, Haiyang;Liu, Yao-Guang;Guo, Jingxin;Liu, Dilin
关键词：hybrid rice; transgressive late maturation; photoperiod sensitivity; genetic basis; marker-assisted selection
