360度群体遗传变异扫描——大豆泛基因组研究

doi:10.11983/CBB20096

植物学报 ›› 2020, Vol. 55 ›› Issue (4): 403-406.DOI: 10.11983/CBB20096

360度群体遗传变异扫描——大豆泛基因组研究

祝光涛¹,黄三文^2,^*()

¹云南师范大学马铃薯科学研究院, 昆明 650500
²中国农业科学院农业基因组研究所, 岭南现代农业科学与技术广东省实验室深圳分中心, 深圳 518120

收稿日期:2020-05-26 接受日期:2020-06-07 出版日期:2020-07-01 发布日期:2020-06-17
通讯作者: 黄三文
基金资助:
云南省基础研究计划杰出青年基金(2020)

A 360-degree Scanning of Population Genetic Variations—a Pan-genome Study of Soybean

Guangtao Zhu¹,Sanwen Huang^2,^*()

¹The CAAS-YNNU Joint Academy of Potato Sciences, Yunnan Normal University, Kunming 650500, China
²Shenzhen Branch, Guangdong Laboratory for Lingnan Modern Agricultural Science and Technology, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518120, China

Received:2020-05-26 Accepted:2020-06-07 Online:2020-07-01 Published:2020-06-17
Contact: Sanwen Huang

摘要/Abstract

摘要： 大豆(Glycine max)是重要的油料和蛋白作物, 其丰富的遗传变异为生物学性状挖掘和育种改良提供了重要的资源基础。然而, 单个基因组信息无法全面揭示种质资源的遗传变异, 泛基因组研究为解决这一不足提供了新方案。近日, 中国科学院遗传与发育生物学研究所田志喜和梁承志研究团队从2 898份大豆种质中选取26份代表性材料, 并整合已有的3个基因组, 构建了包含野生和栽培大豆的泛基因组和图基因组(graph-based genome), 鉴定了整个群体的绝大多数结构变异数据集, 确定了大豆种质的核心、非必需和个体特异的基因集。利用这些数据系统地揭示了生育期位点E3的等位基因变异和基因融合事件、种皮颜色基因I的单体型和演化关系以及结构变异对铁离子转运基因表达和地区适应性选择的影响。该研究为作物基因组学研究提供了一个新的模式, 同时将加速推动大豆遗传变异的鉴定、性状解析和种质创新。

关键词: 大豆, 泛基因组, 图基因组, 遗传变异, 农艺性状

Abstract: Soybean (Glycine max) is an important oil and protein crop. The abundancy of genetic diversity within the species provides an essential resource for traits exploration and breeding improvement. However, one reference genome is inadequate for discovering all genetic diversity of a species. Pan-genome provides a new solution to overcome this limitation. Recently, Prof. Zhixi Tian’ Group and Prof. Chengzhi Liang’ Group from the Institute of Genetics and Develop- mental Biology, Chinese Academy of Sciences, selected 26 representative soybeans from 2 898 sequenced accessions. Together with three previously published genomes, they constructed a pan-genome and a graph-based genome of wild and cultivated soybean germplasm. The core, dispensable, and private genes as well as all the vast majority of genetic variations within this species were identified and characterized. These data comprehensively revealed allelic variations and gene fusion event of maturity gene E3, the haploid types of seed coat color gene I and their evolutionary relationship, and structural variations affecting gene expression and regional adaptation selection of ferric ion transporters. This study provide a new mode for crop genomics, and will facilitate genetic variations identification, traits exploration and germplasm innovation of soybean.

Key words: soybean, pan-genome, graph-based genome, genetic variation, agronomic traits

祝光涛,黄三文. 360度群体遗传变异扫描——大豆泛基因组研究. 植物学报, 2020, 55(4): 403-406.

Guangtao Zhu,Sanwen Huang. A 360-degree Scanning of Population Genetic Variations—a Pan-genome Study of Soybean. Chinese Bulletin of Botany, 2020, 55(4): 403-406.

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360度群体遗传变异扫描——大豆泛基因组研究

A 360-degree Scanning of Population Genetic Variations—a Pan-genome Study of Soybean

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