数字农科院2.0

Chromosome-length genome assemblies of six legume species provide insights into genome organization, evolution, and agronomic traits for crop improvement

文献类型： 外文期刊

作者： Vanika Garg;Olga Dudchenko;Jinpeng Wang;Aamir W. Khan;Saurabh Gupta;Parwinder Kaur;Kai Han;Rachit K. Saxena;Sandip M. Kale;Melanie Pham;Jigao Yu;Annapurna Chitikineni;Zhikang Zhang;Guangyi Fan;Christopher Lui;Vinodkumar Valluri;Fanbo Meng;Aditi Bhandari;Xiaochuan Liu;Tao Yang;Hua Chen;Babu Valliyodan;Manish Roorkiwal;Chengcheng Shi;Hong Bin Yang;Neva C. Durand;Manish K. Pandey;Guowei Li;Rutwik Barmukh;Xingjun Wang;Xiaoping Chen;Hon Ming Lam;Huifang Jiang;Xuxiao Zong;Xuanqiang Liang;Xin Liu;Boshou Liao;Baozhu Guo;Scott Jackson;Henry T. Nguyen;Weijian Zhuang;Wan Shubo;Xiyin Wang;Erez Lieberman Aiden;Jeffrey L. Bennetzen;Rajeev K. Varshney

作者机构：

关键词： Evolution;GWAS;Legumes;Nodulation;Plant genomes;QTL

期刊名称： Journal of Advanced Research

ISSN： 2090-1232

年卷期： 2022 年 42 卷

页码：

收录情况： SCIE（2023版）

摘要： Introduction: Legume crops are an important source of protein and oil for human health and in fixing atmospheric N2 for soil enrichment. With an objective to accelerate much-needed genetic analyses and breeding applications, draft genome assemblies were generated in several legume crops; many of them are not high quality because they are mainly based on short reads. However, the superior quality of genome assembly is crucial for a detailed understanding of genomic architecture, genome evolution, and crop improvement. Objectives: Present study was undertaken with an objective of developing improved chromosome-length genome assemblies in six different legumes followed by their systematic investigation to unravel different aspects of genome organization and legume evolution. Methods: We employed in situ Hi-C data to improve the existing draft genomes and performed different evolutionary and comparative analyses using improved genome assemblies. Results: We have developed chromosome-length genome assemblies in chickpea, pigeonpea, soybean, subterranean clover, and two wild progenitor species of cultivated groundnut (A. duranensis and A. ipaensis). A comprehensive comparative analysis of these genome assemblies offered improved insights into various evolutionary events that shaped the present-day legume species. We highlighted the expansion of gene families contributing to unique traits such as nodulation in legumes, gravitropism in groundnut, and oil biosynthesis in oilseed legume crops such as groundnut and soybean. As examples, we have demonstrated the utility of improved genome assemblies for enhancing the resolution of “QTL-hotspot” identification for drought tolerance in chickpea and marker-trait associations for agronomic traits in pigeonpea through genome-wide association study. Genomic resources developed in this study are publicly available through an online repository, ‘Legumepedia’. Conclusion: This study reports chromosome-length genome assemblies of six legume species and demonstrates the utility of these assemblies in crop improvement. The genomic resources developed here will have significant role in accelerating genetic improvement applications of legume crops.

分类号：

  • 相关文献

[1]Harnessing omics to decode the mechanisms of symbiotic nitrogen fixation. Ye, Keyi,Zheng, Jianshu,Dong, Zhaonian,Wang, Shuaishuai,Huang, Sanwen. 2025

[2]基于GWAS和BSA-seq挖掘辣椒果实中辣椒红色素含量的QTL区间及候选基因. 班国梁,曹亚从,张正海,于海龙,吴华茂,李戎轩,赵红,张伟丽,聂智星,宋红霞,王立浩. 2025

[3]Canine hip dysplasia is predictable by genotyping. Zhang, Z.,Guo, G.,Wang, Y.,Zhang, Y.,Guo, G.,Zhou, Z.,Li, J.,Zhou, Z.,Hunter, L.,Friedenberg, S.,Krotscheck, U.,Todhunter, R.,Zhu, L.,Lust, G.,Harris, S.,Jones, P.,Sandler, J.,Zhao, K.,Zhou, Z.. 2011

[4]Integrating genome-wide association study with transcriptomic data to predict candidate genes influencing Brassica napus root and biomass-related traits under low phosphorus conditions. Nazir Ahmad,Sani Ibrahim,Lieqiong Kuang,Tian Ze,Xinfa Wang,Hanzhong Wang,Xiaoling Dun. 2023

[5]Development of a MAGIC population and high-resolution quantitative trait mapping for nicotine content in tobacco. Yuan G.,Sun K.,Yu W.,Jiang Z.,Jiang C.,Liu D.,Wen L.,Si H.,Wu F.,Meng H.,Cheng L.,Yang A.,Wang Y.. 2023

[6]Editorial: Soybean molecular breeding and genetics. Guo Liang Jiang,Istvan Rajcan,Yuan Ming Zhang,Tianfu Han,Rouf Mian. 2023

[7]Genome-Wide Association Study Uncover the Genetic Architecture of Salt Tolerance-Related Traits in Common Wheat (Triticum aestivum L.). Xiaoyan Quan,Jindong Liu,Ning Zhang,Chunjuan Xie,Hongmei Li,Xianchun Xia,Wenxing He,Yuxiang Qin. 2021

[8]Genome-Wide Association Study Uncover the Genetic Architecture of Salt Tolerance-Related Traits in Common Wheat (Triticum aestivum L.). Xiaoyan Quan,Jindong Liu,Ning Zhang,Chunjuan Xie,Hongmei Li,Xianchun Xia,Wenxing He,Yuxiang Qin. 2021

[9]Genome-Wide Association Study Identifies Resistance Loci for Bacterial Blight in a Collection of Asian Temperate Japonica Rice Germplasm. Jianmin Li,Xiaorong Shi,Chunchao Wang,Quanlin Li,Jialing Lu,Dan Zeng,Junping Xie,Yingyao Shi,Wenxue Zhai,Yongli Zhou. 2023

[10]A genome-wide association study identifies novel QTL for wheat yield stability under drought stress. Xiaoqiang Liu,Zhaolin Yang,Wenjia Hu,Sitong Liu,Runze Sun,Songsong Jin,Khandmaa Nergui,Guangyao Zhao,Lifeng Gao,Yongxiu Liu,Xin Deng. 2024

[11]Candidate genes associated with low temperature tolerance in cucumber adult plants identified by combining GWAS & QTL mapping. Caixia Li,Shaoyun Dong,Diane M. Beckles,Xiaoping Liu,Jiantao Guan,Zaizhan Wang,Xingfang Gu,Han Miao,Shengping Zhang. 2024

[12]QTL mapping and candidate gene analysis of element accumulation in rice grains via genome-wide association study and population genetic analysis. Min Li,Mengxue Gao,Jinmei Huang,Shaojuan Jin,Yamei Lv,Lin Wang,Tao Huang,Fengcai Wu,Zhijian Xu,Yinghua Pan,Zhixia Liu,Chaopu Zhang,Yuntao Liang,Lijun Meng,Jianlong Xu. 2025

[13]Genome-Wide Identification of Wheat Gene Resources Conferring Resistance to Stripe Rust. Ma, Qiaoyun,Yan, Dong,Pang, Binshuang,Bai, Jianfang,Yang, Weibing,Gao, Jiangang,Chen, Xianchao,Hou, Qiling,Zhang, Honghong,Tian, Li,Li, Yahui,Jia, Jizeng,Zhang, Lei,Chen, Zhaobo,Gao, Lifeng,Liao, Xiangzheng. 2025

[14]Genes and QTLs discovery for sesame (Sesamum indicum L.) breeding traits: A review. Desawi Hdru Teklu,Ahmed A. Abbas,Jun You,Linhai Wang. 2025

[15]蛋鸡资源群体的盲肠长度全基因组关联分析. 王星果,曲亮,卢建,窦套存,马猛,胡玉萍,沈曼曼,郭军,李尚民,王克华. 2018

[16]中国籼稻群体的遗传结构解析及12个株型性状的全基因组关联分析. 鲁清,章孟臣,魏兴华. 2015

[17]北京油鸡血清IgG含量的GWAS初步分析. 张磊,刘冉冉,赵桂苹,文杰,郑麦青,吴丹,胡耀东,李鹏,刘丽. 2011

[18]黄瓜发芽期耐热性评价及全基因组关联分析. 张松,苗晗,宋子超,薄凯亮,王烨,顾兴芳,张圣平. 2019

[19]功能基因筛选方法的研究进展. 姚雅馨,喇永富,汤继顺,贺小云,张壮彪,储明星. 2020

[20]玉米叶片叶绿素含量的全基因组关联性分析. 滕守振1,,2 汪海2 梁海生1,,2 辛红佳2 李圣彦2 郎志宏2. 2017

作者其他论文 更多>>