数字农科院2.0

Genome-Wide Association Study of Cooked Rice Textural Attributes and Starch Physicochemical Properties in indica Rice

文献类型： 外文期刊

作者： Deng Bowen;Zhang Yanni;Zhang Fan;Wang Wensheng;Xu Jianlong;Zhang Yu;Bao Jinsong

作者机构：

关键词： cooking and eating quality;genome-wide association study;rice;Waxy gene

期刊名称： Rice Science

ISSN： 1672-6308

年卷期： 2024 年 31 卷 3 期

页码：

收录情况： SCIE（2024版） ; ; CSCD（2023-2024年度） ; ; 科技核心（2024版） ; ; 农林核心（2020版）

摘要： Rice cooking and eating qualities (CEQ) are mainly determined by cooked rice textural parameters and starch physicochemical properties. However, the genetic bases of grain texture and starch properties in rice have not been fully understood. We conducted a genome-wide association study for apparent amylose content (AAC), starch pasting viscosities, and cooked rice textural parameters using 279 indica rice accessions from the 3 000 Rice Genome Project. We identified 26 QTLs in the whole population and detected single nucleotide polymorphisms (SNPs) with the lowest P-value at the Waxy (Wx) locus for all traits except pasting temperature and cohesiveness. Additionally, we detected significant SNPs at the SUBSTANDARD STARCH GRAIN6 (SSG6) locus for AAC, setback (SB), hardness, adhesiveness, chewiness (CHEW), gumminess (GUM), and resilience. We subsequently divided the population using a SNP adjacent to the Waxy locus, and identified 23 QTLs and 12 QTLs in two sub-panels, WxT and WxA, respectively. In these sub-panels, SSG6 was also identified to be associated with pasting parameters, including peak viscosity, hot paste viscosity, cold paste viscosity, and consistency viscosity. Furthermore, a candidate gene encoding monosaccharide transporter 5 (OsMST5) was identified to be associated with AAC, breakdown, SB, CHEW, and GUM. In total, 39 QTLs were co-localized with known genes or previously reported QTLs. These identified genes and QTLs provide valuable information for genetic manipulation to improve rice CEQ.

分类号：

  • 相关文献

[1]水稻淡褐斑叶突变体lbsll的遗传分析与基因定位. 奉保华,杨杨,施勇烽,林璐,陈洁,黄奇娜,魏彦林,HeiLEUNG,吴建利. 2012

[2]OsBTF3转基因水稻对病原茵侵染的反应和防卫基因的表达分析. 陈华民,吴茂森,何晨阳. 2012

[3]Genome-wide association and epistasis studies reveal the genetic basis of saline-alkali tolerance at the germination stage in rice. Guogen Zhang,Zhiyuan Bi,Jing Jiang,Jingbing Lu,Keyang Li,Di Bai,Xinchen Wang,Xueyu Zhao,Min Li,Xiuqin Zhao,Wensheng Wang,Jianlong Xu,Zhikang Li,Fan Zhang,Yingyao Shi. 2023

[4]Dissection of the Genetic Basis of Rice Panicle Architecture Using a Genome-wide Association Study. Shaoxing Bai,Jun Hong,Ling Li,Su Su,Zhikang Li,Wensheng Wang,Fengli Zhang,Wanqi Liang,Dabing Zhang. 2021

[5]Distribution characteristics of selenium, cadmium and arsenic in rice grains and their genetic dissection by genome-wide association study. Wang W.,Zhang F.,Liu D.,Chen K.,Du B.,Qiu X.,Xu J.,Xing D.. 2022

[6]Combining Genome-Wide Association Study and Gene-Based Haplotype Analysis to Identify Candidate Genes for Alkali Tolerance at the Germination Stage in Rice. Song Mei,Guogen Zhang,Jing Jiang,Jingbing Lu,Fan Zhang. 2022

[7]Editorial: Mining and utilization of favorable gene resources in rice. Ying Wang,Xueyong Li,Ryuji Ishikawa,Xiaojin Luo. 2023

[8]Combining a Genome-Wide Association Study and Gene-Based Haplotype Analysis to Identify Candidate Genes for Cold Tolerance at the Bud Burst Stage in Rice (Oryza sativa L.). Wenqiang Chen,Pingping Li,Guogen Zhang,Kai Chen,Zhixin Li,Jianlong Xu. 2023

[9]Candidate genes for alkali tolerance identified by genome-wide association study at the seedling stage in rice (Oryza sativa L.). Wan Sheng,Guogen Zhang,Laiyuan Zhai,Jianlong Xu. 2025

[10]Candidate genes for alkali tolerance identified by genome-wide association study at the seedling stage in rice (Oryza sativa L.). Wan Sheng,Guogen Zhang,Laiyuan Zhai,Jianlong Xu. 2024

[11]Genome-Wide Association Study and Haplotype Analysis Jointly Identify New Candidate Genes for Alkaline Tolerance at Seedling Stage in Rice. Ratan Kumar Ganapati,Kai Chen,Xiuqin Zhao,Tianqing Zheng,Fan Zhang,Laiyuan Zhai,Jianlong Xu. 2025

[12]cis-Regulatory variation affecting gene expression contributes to the improvement of maize kernel size. Li Y.-X., Lu J., He C., Wu X., Cui Y., Chen L., Zhang J., Xie Y., An Y., Liu X., Zhen S., Liu Y., Li C., Zhang D., Shi Y.-S., Song Y., Wang J., Li Y., Wang G., Fu J., Wang T.. 2022

[13]Identification and characterization of a novel Waxy allele from a Yunnan rice landrace. Liu, Linglong,Ma, Xiaodong,Liu, Shijia,Zhu, Changlan,Jiang, Ling,Wang, Yihua,Shen, Yi,Ren, Yulong,Dong, Hui,Chen, Liangming,Liu, Xi,Zhao, Zhigang,Wan, Jianmin,Zhai, Huqu,Wan, Jianmin.

[14]Du1, encoding a novel Prp1 protein, regulates starch biosynthesis through affecting the splicing of Wx(b) supercript stop pre-mRNAs in rice (Oryza sativa L.). Zeng, Dali,Yan, Meixian,Wang, Yonghong,Liu, Xinfang,Qian, Qian,Li, Jiayang.

[15]Effects of High Temperature and Strong Light Combine Stress on Yield and Quality of Early Indica Rice with Different Amylose Content during Grout Filling. Ai, Xiaofeng,Xiong, Ruoyu,Tan, Xueming,Wang, Haixia,Zhang, Jun,Zeng, Yongjun,Pan, Xiaohua,Shi, Qinghua,Liu, Taoju,Zeng, Yanhua. 2022

[16]Genetic characteristics of soybean resistance to HG type 0 and HG type 1.2.3.5.7 of the cyst nematode analyzed by genome-wide association mapping. Li, Yinghui,Qiu, Lijuan,Liu, Dongyuan,Zheng, Hongkun,Han, Yingpeng,Zhao, Xue,Cao, Guanglu,Wang, Yan,Teng, Weili,Zhang, Zhiwu,Li, Dongmei,Li, Wenbin. 2015

[17]Genome-wide association study for rib eye muscle area in a Large WhitexMinzhu F-2 pig resource population. Guo Yun-yan,Liu Wen-zhong,Guo Yun-yan,Zhang Long-chao,Wang Li-xian. 2015

[18]Forward LASSO analysis for high-order interactions in genome-wide association study. Gao, Huijiang,Li, Junya,Li, Jiahan,Yang, Runqing. 2014

[19]Genome-wide Association Study of Porcine Hematological Parameters in a Large White x Minzhu F2 Resource Population. Chen, Shaokang,Wang, Chuduan,Chen, Shaokang,Wang, Chuduan,Luo, Weizhen,Cheng, Duxue,Wang, Ligang,Li, Yong,Ma, Xiaojun,Liu, Xin,Li, Wen,Liang, Jing,Yan, Hua,Zhao, Kebin,Wang, Lixian,Zhang, Longchao,Song, Xin. 2012

[20]Mapping the four-horned locus and testing the polled locus in three Chinese sheep breeds. He, Xiaohong,Zhou, Zhengkui,Pu, Yabin,Chen, Xiaofei,Ma, Yuehui,Jiang, Lin,He, Xiaohong,Pu, Yabin,Chen, Xiaofei,Ma, Yuehui,Jiang, Lin.

作者其他论文 更多>>