Genome-wide association study and BSR-seq identify nitrate reductase-related genes in rice landraces (Oryza sativa L.)
文献类型： 外文期刊
作者： Luo, Shuangshuang 1 ; Liao, Zuyu 2 ; Huang, Shilv 3 ; Xia, Xiuzhong 2 ; Zhang, Zongqiong 2 ; Nong, Baoxuan 2 ; Luo, Tongping 2 ; Zhu, Chenli 2 ; Chen, Can 2 ; Guo, Hui 2 ; Feng, Rui 2 ; Pan, Yinghua 2 ; Liang, Shuhui 2 ; Li, Yongcheng 1 ; Liu, Jianhui 1 ; Qiu, Yongfu 1 ; Li, Danting 2 ; Yang, Xinghai 2 ;
作者机构： 1.Guangxi Univ, Coll Agr, Nanning, Peoples R China
2.Guangxi Acad Agr Sci, Rice Res Inst, Guangxi Key Lab Rice Genet & Breeding, Nanning 530007, Peoples R China
3.Guangxi Acad Agr Sci, Microbiol Res Inst, Nanning, Peoples R China
4.State Key Lab Conservat & Utilizat Subtrop Agrobio, Nanning, Peoples R China
期刊名称：PLANT GENOME （ 影响因子：3.8； 五年影响因子：4.2 ）
ISSN：
年卷期： 2025 年 18 卷 2 期
页码：
收录情况： SCI
摘要： Nitrogen (N) is an essential nutrient for rice (Oryza sativa L.) growth and development. However, the lower nitrogen use efficiency (NUE) results in an N fertilizer surplus, which causes many environmental problems. In this study, genome-wide association studies were used to detect nitrate reductase (NR)-related loci in 419 rice landraces. Using the general linear model (GLM), mixed linear model (MLM), linear model (LM), and linear mixed model (LMM), we found six, nine, seven, and six significant single-nucleotide polymorphisms (SNPs) associated (p < 1 x 10(-5)) for three traits. Moreover, 98 significant SNPs were associated (logarithm of odds >= 3) with three traits through 3 V multi-locus random-SNP-effect mixed linear model. Interestingly, we found that Chr1_15896481 was significantly associated in the GLM, MLM, LM, and LMM models. Meanwhile, this significant locus overlapped with a candidate region in bulked segregant RNA sequencing. Through integrated analysis, we identified a most likely candidate genomic region 15,627,420-16,084,761 bp on chromosome 1. By performing functional annotation, RNA sequencing, and real-time quantitative polymerase chain reaction (RT-qPCR) analysis for the genes within this interval, we identified five candidate genes that may affect NR activity. Os01g0378400 exhibits a gene expression pattern highly similar to that of OsNR1.2. It belongs to the NAC transcription factor family, which is involved in plant N metabolism. Os01g0377700 is homologous to an ammonium transporter gene (Cre06g293051). Os01g0383700 encodes a WD40 domain protein, Os01g0379400 encodes an F-box protein, and Os01g0382800 encodes a DYW-type PPR domain protein. These findings will provide valuable genetic resources for NUE genetic improvement in rice breeding.
- 相关文献
作者其他论文 更多>>
-
Large-scale genomic and phenomic analyses of modern cultivars empower future rice breeding design
作者：Ma, Xiaoding;Wang, Hao;Yan, Shen;Zhou, Chuanqing;Ji, Zhiyuan;Sun, Xianjun;Zhou, Yongli;Zhou, Peng;Cui, Di;Han, Bing;He, Qiang;Fang, Wei;Han, Longzhi;Zhou, Chuanqing;Jing, Xin;Zhou, Kunneng;Zhang, Qiang;Li, Maomao;Yang, Yaolong;Li, Danting;Song, Peng;Tang, Cuifeng;Geng, Leiyue;Sun, Jianchang
关键词：modern rice cultivars; genomic bases; rice-growing regions; breeding design
-
Construction of a High-Density Genetic Linkage Map and QTL Mapping for Stem Rot Resistance in Passion Fruit (Passiflora edulis Sims)
作者：Wu, Yanyan;Huang, Weihua;Liu, Jieyun;Zhou, Junniu;Tian, Qinglan;Mou, Haifei;Xia, Xiuzhong;Yang, Xinghai
关键词：passion fruit; single nucleotide polymorphisms; genetic map; linkage analysis; stem rot resistance; candidate genes
-
Identifying Heat Adaptability QTLs and Candidate Genes for Grain Appearance Quality at the Flowering Stage in Rice
作者：Chen, Lei;Chen, Weiwei;Wei, Yu;Qing, Dongjin;Huang, Juan;Yang, Xinghai;Tang, Maoyan;Deng, Guofu;Dai, Gaoxing;Liang, Tianfeng;Pan, Yinghua;Chen, Chao;Pan, Yinghua;Chen, Chao;Li, Jin;Zhang, Zhanying;Yu, Jianping
关键词：GWAS; Heat stress; Grain appearance quality; Gene pyramiding; Rice
-
Exploring genomic regions and genes modulating plant height and flag leaf morphology in rice
作者：Wang, Xianpeng;Zhao, Zhikun;Khan, Najeeb Ullah;Hu, Qianfeng;Liu, Ruiqi;Qian, Xuehan;Zhu, Xiaoyang;Sun, Xingming;Li, Jinjie;Zhang, Hongliang;Li, Zichao;Zhang, Zhanying;Chen, Lei;Li, Danting;Pan, Yinghua;Jiang, Ningjia;Liu, Zhenkun;Sun, Xingming;Li, Jinjie;Zhang, Hongliang;Li, Zichao;Zhang, Zhanying;Xu, Peng
关键词：plant height; flag leaf morphology; GWAS;
LEAF1 ; rice -
Identification and validation of stem rot disease resistance genes in passion fruit (Passiflora edulis)
作者：Wu, Yanyan;Zhou, Junniu;Tian, Qinglan;Liu, Jieyun;Huang, Weihua;Mou, Haifei;Shi, Guoying;Xia, Xiuzhong;Yang, Xinghai
关键词：candidate genes; disease resistance; Fusarium solani; Huangjinguo; RNA-sequenc ing; WGCNA
-
Exploring resistance mechanisms and identifying QTLs for brown planthopper in tropical and subtropical rice (Oryza sativa L.) germplasm
作者：Huang, Fugang;Liao, Shuolei;Shen, Juan;Long, Lanzhi;Li, Jingying;Zhong, Xiaohui;Liao, Zuyu;Lu, Baiyi;Li, Fahuo;Jiang, Zhe;Qiu, Yongfu;Zhang, Zongqiong;Xia, Xiuzhong;Yang, Xinghai;Guo, Hui;Nong, Baoxuan;Li, Danting;Cheng, Ling;Wang, Caixian
关键词：
-
Revealing Genomic Traits and Evolutionary Insights of Oryza officinalis from Southern China Through Genome Assembly and Transcriptome Analysis
作者：Chen, Can;Guo, Hui;Xia, Xiuzhong;Zhang, Zongqiong;Nong, Baoxuan;Feng, Rui;Liang, Shuhui;Liu, Jianhui;Li, Danting;Yang, Xinghai;Hu, Haifei;Zhao, Junliang;Nong, Baoxuan;Li, Danting;Yang, Xinghai;Liu, Boheng;Liu, Boheng
关键词：
Oryza officinalis ; CC genome; Genome sequencing; Evolution; Resistance
