The genome sequence of allopolyploid Brassica juncea and analysis of differential homoeolog gene expression influencing selection

Jinghua Yang, Dongyuan Liu, Xiaowu Wang, Changmian Ji, Feng Cheng, Baoning Liu, Zhongyuan Hu, Sheng Chen, Deepak Pental, Youhui Ju, Pu Yao, Xuming Li, Kun Xie, Jianhui Zhang, Jianlin Wang, Fan Liu, Weiwei Ma, Jannat Shopan, Hongkun Zheng, Sally MackenzieMingfang Zhang

Research output: Contribution to journalArticle

131 Citations (Scopus)

Abstract

The Brassica genus encompasses three diploid and three allopolyploid genomes, but a clear understanding of the evolution of agriculturally important traits via polyploidy is lacking. We assembled an allopolyploid Brassica juncea genome by shotgun and single-molecule reads integrated to genomic and genetic maps. We discovered that the A subgenomes of B. juncea and Brassica napus each had independent origins. Results suggested that A subgenomes of B. juncea were of monophyletic origin and evolved into vegetable-use and oil-use subvarieties. Homoeolog expression dominance occurs between subgenomes of allopolyploid B. juncea, in which differentially expressed genes display more selection potential than neutral genes. Homoeolog expression dominance in B. juncea has facilitated selection of glucosinolate and lipid metabolism genes in subvarieties used as vegetables and for oil production. These homoeolog expression dominance relationships among Brassicaceae genomes have contributed to selection response, predicting the directional effects of selection in a polyploid crop genome.

Original languageEnglish (US)
Pages (from-to)1225-1232
Number of pages8
JournalNature Genetics
Volume48
Issue number10
DOIs
StatePublished - Oct 1 2016

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Mustard Plant
Genome
Gene Expression
Polyploidy
Plant Oils
Genes
Brassicaceae
Glucosinolates
Brassica napus
Brassica
Firearms
Diploidy
Lipid Metabolism

All Science Journal Classification (ASJC) codes

  • Genetics

Cite this

Yang, Jinghua ; Liu, Dongyuan ; Wang, Xiaowu ; Ji, Changmian ; Cheng, Feng ; Liu, Baoning ; Hu, Zhongyuan ; Chen, Sheng ; Pental, Deepak ; Ju, Youhui ; Yao, Pu ; Li, Xuming ; Xie, Kun ; Zhang, Jianhui ; Wang, Jianlin ; Liu, Fan ; Ma, Weiwei ; Shopan, Jannat ; Zheng, Hongkun ; Mackenzie, Sally ; Zhang, Mingfang. / The genome sequence of allopolyploid Brassica juncea and analysis of differential homoeolog gene expression influencing selection. In: Nature Genetics. 2016 ; Vol. 48, No. 10. pp. 1225-1232.
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author = "Jinghua Yang and Dongyuan Liu and Xiaowu Wang and Changmian Ji and Feng Cheng and Baoning Liu and Zhongyuan Hu and Sheng Chen and Deepak Pental and Youhui Ju and Pu Yao and Xuming Li and Kun Xie and Jianhui Zhang and Jianlin Wang and Fan Liu and Weiwei Ma and Jannat Shopan and Hongkun Zheng and Sally Mackenzie and Mingfang Zhang",
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Yang, J, Liu, D, Wang, X, Ji, C, Cheng, F, Liu, B, Hu, Z, Chen, S, Pental, D, Ju, Y, Yao, P, Li, X, Xie, K, Zhang, J, Wang, J, Liu, F, Ma, W, Shopan, J, Zheng, H, Mackenzie, S & Zhang, M 2016, 'The genome sequence of allopolyploid Brassica juncea and analysis of differential homoeolog gene expression influencing selection', Nature Genetics, vol. 48, no. 10, pp. 1225-1232. https://doi.org/10.1038/ng.3657

The genome sequence of allopolyploid Brassica juncea and analysis of differential homoeolog gene expression influencing selection. / Yang, Jinghua; Liu, Dongyuan; Wang, Xiaowu; Ji, Changmian; Cheng, Feng; Liu, Baoning; Hu, Zhongyuan; Chen, Sheng; Pental, Deepak; Ju, Youhui; Yao, Pu; Li, Xuming; Xie, Kun; Zhang, Jianhui; Wang, Jianlin; Liu, Fan; Ma, Weiwei; Shopan, Jannat; Zheng, Hongkun; Mackenzie, Sally; Zhang, Mingfang.

In: Nature Genetics, Vol. 48, No. 10, 01.10.2016, p. 1225-1232.

Research output: Contribution to journalArticle

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AU - Yang, Jinghua

AU - Liu, Dongyuan

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AU - Ji, Changmian

AU - Cheng, Feng

AU - Liu, Baoning

AU - Hu, Zhongyuan

AU - Chen, Sheng

AU - Pental, Deepak

AU - Ju, Youhui

AU - Yao, Pu

AU - Li, Xuming

AU - Xie, Kun

AU - Zhang, Jianhui

AU - Wang, Jianlin

AU - Liu, Fan

AU - Ma, Weiwei

AU - Shopan, Jannat

AU - Zheng, Hongkun

AU - Mackenzie, Sally

AU - Zhang, Mingfang

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