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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 1 ; Guo, Huijun 1 ; Fu, Meiyu 1 ; Xie, Yongdun 1 ; Zhao, Linshu 1 ; Gu, Jiayu 1 ; Zhao, Shirong 1 ; Ding, Yuping 1 ; Du, Qidi 1 ; Zhang, Jiazi 1 ; Qiu, Lin 1 ; Xie, Xiaomei 1 ; Zhou, Libin 2 ; Chen, Zhongxu 3 ; Liu, Luxiang 1 ;

作者机构： 1.Chinese Acad Agr Sci, Inst Crop Sci, Natl Ctr Space Mutagenesis Crop Improvement, Natl Engn Lab Crop Mol Breeding, Beijing, Peoples R China

2.Chinese Acad Sci, Inst Modern Phys, Biophys Grp, Lanzhou, Peoples R China

3.Tcuni Inc, Dept Life Sci, Chengdu, Peoples R China

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

期刊名称：PLANT BIOTECHNOLOGY JOURNAL （ 影响因子：13.8； 五年影响因子：13.2 ）

ISSN： 1467-7644

年卷期： 2023 年

页码：

收录情况： SCI

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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