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Reference genome sequence and population genomic analysis of peas provide insights into the genetic basis of Mendelian and other agronomic traits

文献类型： 外文期刊

作者： Liu, Na 1 ; Lyu, Xiaolong 2 ; Zhang, Xueying 1 ; Zhang, Guwen 1 ; Zhang, Ziqian 2 ; Guan, Xueying 2 ; Chen, Xiaoyang 3 ; Yang, Xiaoming 4 ; Feng, Zhijuan 1 ; Gao, Qiang 2 ; Shi, Wanghong 2 ; Deng, Yayuan 2 ; Sheng, Kuang 2 ; Ou, Jinwen 1 ; Zhu, Yumeng 2 ; Wang, Bin 1 ; Bu, Yuanpeng 1 ; Zhang, Mingfang 2 ; Zhang, Liangsheng 2 ; Zhao, Ting 2 ; Gong, Yaming 1 ;

作者机构： 1.Zhejiang Acad Agr Sci, State Key Lab Managing Biot & Chem Threats Qual &, Key Lab Vegetable Legumes Germplasm Enhancement &, Minist Agr & Rural Affairs,Inst Vegetables,Zhejian, Hangzhou, Peoples R China

2.Zhejiang Univ, Coll Agr & Biotechnol, Hangzhou, Peoples R China

3.Stn Zhejiang Seed Management, Hangzhou, Peoples R China

4.Gansu Acad Agr Sci, Crop Res Inst, Lanzhou, Peoples R China

5.Zhejiang Univ, Hainan Inst, Sanya, Peoples R China

6.Yazhouwan Natl Lab, Sanya, Peoples R China

期刊名称：NATURE GENETICS （ 影响因子：31.7； 五年影响因子：36.6 ）

ISSN： 1061-4036

年卷期： 2024 年

页码：

收录情况： SCI

摘要： Peas are essential for human nutrition and played a crucial role in the discovery of Mendelian laws of inheritance. In this study, we assembled the genome of the elite vegetable pea cultivar 'Zhewan No. 1' at the chromosome level and analyzed resequencing data from 314 accessions, creating a comprehensive map of genetic variation in peas. We identified 235 candidate loci associated with 57 important agronomic traits through genome-wide association studies. Notably, we pinpointed the causal gene haplotypes responsible for four Mendelian traits: stem length (Le/le), flower color (A/a), cotyledon color (I/i) and seed shape (R/r). Additionally, we discovered the genes controlling pod form (Mendelian P/p) and hilum color. Our study also involved constructing a gene expression atlas across 22 tissues, highlighting key gene modules related to pod and seed development. These findings provide valuable pea genomic information and will facilitate the future genome-informed improvement of pea crops. Chromosome-scale genome assembly of a vegetable-type elite pea cultivar ZW1 and population analyses using resequencing data of 314 accessions provide insights into the genetic basis of Mendelian and other agronomic traits.

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