The genome of cultivated peanut provides insight into legume karyotypes, polyploid evolution and crop domestication

Weijian Zhuang, Hua Chen, Meng Yang, Jianping Wang, Manish K. Pandey, Chong Zhang, Wen Chi Chang, Liangsheng Zhang, Xingtan Zhang, Ronghua Tang, Vanika Garg, Xingjun Wang, Haibao Tang, Chi Nga Chow, Jinpeng Wang, Ye Deng, Depeng Wang, Aamir W. Khan, Qiang Yang, Tiecheng CaiPrasad Bajaj, Kangcheng Wu, Baozhu Guo, Xinyou Zhang, Jingjing Li, Fan Liang, Jiang Hu, Boshou Liao, Shengyi Liu, Annapurna Chitikineni, Hansong Yan, Yixiong Zheng, Shihua Shan, Qinzheng Liu, Dongyang Xie, Zhenyi Wang, Shahid Ali Khan, Niaz Ali, Chuanzhi Zhao, Xinguo Li, Ziliang Luo, Shubiao Zhang, Ruirong Zhuang, Ze Peng, Shuaiyin Wang, Gandeka Mamadou, Yuhui Zhuang, Zifan Zhao, Weichang Yu, Faqian Xiong, Weipeng Quan, Mei Yuan, Yu Li, Huasong Zou, Han Xia, Li Zha, Junpeng Fan, Jigao Yu, Wenping Xie, Jiaqing Yuan, Kun Chen, Shanshan Zhao, Wenting Chu, Yuting Chen, Pengchuan Sun, Fanbo Meng, Tao Zhuo, Yuhao Zhao, Chunjuan Li, Guohao He, Yongli Zhao, Congcong Wang, Polavarapu Bilhan Kavikishor, Rong Long Pan, Andrew H. Paterson, Xiyin Wang, Ray Ming, Rajeev K. Varshney

Research output: Contribution to journalArticle

Abstract

High oil and protein content make tetraploid peanut a leading oil and food legume. Here we report a high-quality peanut genome sequence, comprising 2.54 Gb with 20 pseudomolecules and 83,709 protein-coding gene models. We characterize gene functional groups implicated in seed size evolution, seed oil content, disease resistance and symbiotic nitrogen fixation. The peanut B subgenome has more genes and general expression dominance, temporally associated with long-terminal-repeat expansion in the A subgenome that also raises questions about the A-genome progenitor. The polyploid genome provided insights into the evolution of Arachis hypogaea and other legume chromosomes. Resequencing of 52 accessions suggests that independent domestications formed peanut ecotypes. Whereas 0.42–0.47 million years ago (Ma) polyploidy constrained genetic variation, the peanut genome sequence aids mapping and candidate-gene discovery for traits such as seed size and color, foliar disease resistance and others, also providing a cornerstone for functional genomics and peanut improvement.

Original languageEnglish (US)
Pages (from-to)865-876
Number of pages12
JournalNature Genetics
Volume51
Issue number5
DOIs
StatePublished - May 1 2019

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ASJC Scopus subject areas

  • Genetics

Cite this

Zhuang, W., Chen, H., Yang, M., Wang, J., Pandey, M. K., Zhang, C., Chang, W. C., Zhang, L., Zhang, X., Tang, R., Garg, V., Wang, X., Tang, H., Chow, C. N., Wang, J., Deng, Y., Wang, D., Khan, A. W., Yang, Q., ... Varshney, R. K. (2019). The genome of cultivated peanut provides insight into legume karyotypes, polyploid evolution and crop domestication. Nature Genetics, 51(5), 865-876. https://doi.org/10.1038/s41588-019-0402-2