Xin Wei, Mengjiao Chen, Qi Zhang, Junyi Gong, Jie Liu, Kaicheng Yong, Qin Wang, Jiongjiong Fan, Suhui Chen, Hua Hua, Zhaowei Luo, Xiaoyan Zhao, Xuan Wang, Wei Li, Jia Cong, Xiting Yu, Zhihan Wang, Ruipeng Huang, Jiaxin Chen, Xiaoyi Zhou, Jie Qiu, Ping Xu, Jeremy Murray, Hai Wang, Yang Xu, Chenwu Xu, Gen Xu, Jinliang Yang, Bin Han, Xuehui Huang
{"title":"Genomic investigation of 18,421 lines reveals the genetic architecture of rice","authors":"Xin Wei, Mengjiao Chen, Qi Zhang, Junyi Gong, Jie Liu, Kaicheng Yong, Qin Wang, Jiongjiong Fan, Suhui Chen, Hua Hua, Zhaowei Luo, Xiaoyan Zhao, Xuan Wang, Wei Li, Jia Cong, Xiting Yu, Zhihan Wang, Ruipeng Huang, Jiaxin Chen, Xiaoyi Zhou, Jie Qiu, Ping Xu, Jeremy Murray, Hai Wang, Yang Xu, Chenwu Xu, Gen Xu, Jinliang Yang, Bin Han, Xuehui Huang","doi":"10.1126/science.adm8762","DOIUrl":null,"url":null,"abstract":"<div >Understanding how numerous quantitative trait loci (QTL) shape phenotypic variation is an important question in genetics. To address this, we established a permanent population of 18,421 (18K) rice lines with reduced population structure. We generated reference-level genome assemblies of the founders and genotyped all 18K-rice lines through whole-genome sequencing. Through high-resolution mapping, 96 high-quality candidate genes contributing to variation in 16 traits were identified, including <i>OsMADS22</i> and <i>OsFTL1</i> verified as causal genes for panicle number and heading date, respectively. We identified epistatic QTL pairs and constructed a genetic interaction network with 19 genes serving as hubs. Overall, 170 masking epistasis pairs were characterized, serving as an important factor contributing to genetic background effects across diverse varieties. The work provides a basis to guide grain yield and quality improvements in rice.</div>","PeriodicalId":21678,"journal":{"name":"Science","volume":"385 6704","pages":""},"PeriodicalIF":45.8000,"publicationDate":"2024-07-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Science","FirstCategoryId":"103","ListUrlMain":"https://www.science.org/doi/10.1126/science.adm8762","RegionNum":1,"RegionCategory":"综合性期刊","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"MULTIDISCIPLINARY SCIENCES","Score":null,"Total":0}
引用次数: 0
Abstract
Understanding how numerous quantitative trait loci (QTL) shape phenotypic variation is an important question in genetics. To address this, we established a permanent population of 18,421 (18K) rice lines with reduced population structure. We generated reference-level genome assemblies of the founders and genotyped all 18K-rice lines through whole-genome sequencing. Through high-resolution mapping, 96 high-quality candidate genes contributing to variation in 16 traits were identified, including OsMADS22 and OsFTL1 verified as causal genes for panicle number and heading date, respectively. We identified epistatic QTL pairs and constructed a genetic interaction network with 19 genes serving as hubs. Overall, 170 masking epistasis pairs were characterized, serving as an important factor contributing to genetic background effects across diverse varieties. The work provides a basis to guide grain yield and quality improvements in rice.
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