数字农科院2.0

A large-scale whole-exome sequencing mutant resource for functional genomics in wheat

文献类型： 外文期刊

作者： Xiong, Hongchun;Guo, Huijun;Fu, Meiyu;Xie, Yongdun;Zhao, Linshu;Gu, Jiayu;Zhao, Shirong;Ding, Yuping;Du, Qidi;Zhang, Jiazi;Qiu, Lin;Xie, Xiaomei;Zhou, Libin;Chen, Zhongxu;Liu, Luxiang

作者机构：

关键词： wheat mutant;whole-exome sequencing;EMS;gamma-rays;C-ion beams;functional genomics

期刊名称： PLANT BIOTECHNOLOGY JOURNAL

ISSN： 1467-7644

年卷期： 2023 年

页码：

收录情况： SCIE（2023版）

摘要： Hexaploid wheat (Triticum aestivum), a major staple crop, has a remarkably large genome of similar to 14.4 Gb (containing 106 913 high-confidence [HC] and 159 840 low-confidence [LC] genes in the Chinese Spring v2.1 reference genome), which poses a major challenge for functional genomics studies. To overcome this hurdle, we performed whole-exome sequencing to generate a nearly saturated wheat mutant database containing 18 025 209 mutations induced by ethyl methanesulfonate (EMS), carbon (C)-ion beams, or gamma-ray mutagenesis. This database contains an average of 47.1 mutations per kb in each gene-coding sequence: the potential functional mutations were predicted to cover 96.7% of HC genes and 70.5% of LC genes. Comparative analysis of mutations induced by EMS, gamma-rays, or C-ion beam irradiation revealed that gamma-ray and C-ion beam mutagenesis induced a more diverse array of variations than EMS, including large-fragment deletions, small insertions/deletions, and various non-synonymous single nucleotide polymorphisms. As a test case, we combined mutation analysis with phenotypic screening and rapidly mapped the candidate gene responsible for the phenotype of a yellow-green leaf mutant to a 2.8-Mb chromosomal region. Furthermore, a proof-of-concept reverse genetics study revealed that mutations in gibberellic acid biosynthesis and signalling genes could be associated with negative impacts on plant height. Finally, we built a publically available database of these mutations with the corresponding germplasm (seed stock) repository to facilitate advanced functional genomics studies in wheat for the broad plant research community.

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