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Whole-genome resequencing reveals Brassica napus origin and genetic loci involved in its improvement

Author

Listed:
  • Kun Lu

    (Southwest University, Beibei
    Southwest University, Beibei
    State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei)

  • Lijuan Wei

    (Southwest University, Beibei
    Southwest University, Beibei)

  • Xiaolong Li

    (Biomarker Technologies Corporation)

  • Yuntong Wang

    (Biomarker Technologies Corporation)

  • Jian Wu

    (Chinese Academy of Agricultural Science)

  • Miao Liu

    (Southwest University, Beibei)

  • Chao Zhang

    (Southwest University, Beibei)

  • Zhiyou Chen

    (Southwest University, Beibei)

  • Zhongchun Xiao

    (Southwest University, Beibei)

  • Hongju Jian

    (Southwest University, Beibei)

  • Feng Cheng

    (Chinese Academy of Agricultural Science)

  • Kai Zhang

    (Southwest University, Beibei)

  • Hai Du

    (Southwest University, Beibei
    Southwest University, Beibei
    State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei)

  • Xinchao Cheng

    (State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei)

  • Cunming Qu

    (Southwest University, Beibei
    Southwest University, Beibei
    State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei)

  • Wei Qian

    (Southwest University, Beibei
    Southwest University, Beibei
    State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei)

  • Liezhao Liu

    (Southwest University, Beibei
    Southwest University, Beibei
    State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei)

  • Rui Wang

    (Southwest University, Beibei
    Southwest University, Beibei
    State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei)

  • Qingyuan Zou

    (Southwest University, Beibei)

  • Jiamin Ying

    (Southwest University, Beibei)

  • Xingfu Xu

    (Southwest University, Beibei
    Southwest University, Beibei)

  • Jiaqing Mei

    (Southwest University, Beibei
    Southwest University, Beibei)

  • Ying Liang

    (Southwest University, Beibei
    Southwest University, Beibei
    State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei)

  • You-Rong Chai

    (Southwest University, Beibei
    Southwest University, Beibei
    State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei)

  • Zhanglin Tang

    (Southwest University, Beibei
    Southwest University, Beibei
    State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei)

  • Huafang Wan

    (Southwest University, Beibei)

  • Yu Ni

    (Southwest University, Beibei
    Southwest University, Beibei
    State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei)

  • Yajun He

    (Southwest University, Beibei)

  • Na Lin

    (Southwest University, Beibei)

  • Yonghai Fan

    (Southwest University, Beibei)

  • Wei Sun

    (Southwest University, Beibei)

  • Nan-Nan Li

    (Southwest University, Beibei)

  • Gang Zhou

    (Biomarker Technologies Corporation)

  • Hongkun Zheng

    (Biomarker Technologies Corporation)

  • Xiaowu Wang

    (Chinese Academy of Agricultural Science)

  • Andrew H. Paterson

    (University of Georgia)

  • Jiana Li

    (Southwest University, Beibei
    Southwest University, Beibei
    State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei)

Abstract

Brassica napus (2n = 4x = 38, AACC) is an important allopolyploid crop derived from interspecific crosses between Brassica rapa (2n = 2x = 20, AA) and Brassica oleracea (2n = 2x = 18, CC). However, no truly wild B. napus populations are known; its origin and improvement processes remain unclear. Here, we resequence 588 B. napus accessions. We uncover that the A subgenome may evolve from the ancestor of European turnip and the C subgenome may evolve from the common ancestor of kohlrabi, cauliflower, broccoli, and Chinese kale. Additionally, winter oilseed may be the original form of B. napus. Subgenome-specific selection of defense-response genes has contributed to environmental adaptation after formation of the species, whereas asymmetrical subgenomic selection has led to ecotype change. By integrating genome-wide association studies, selection signals, and transcriptome analyses, we identify genes associated with improved stress tolerance, oil content, seed quality, and ecotype improvement. They are candidates for further functional characterization and genetic improvement of B. napus.

Suggested Citation

  • Kun Lu & Lijuan Wei & Xiaolong Li & Yuntong Wang & Jian Wu & Miao Liu & Chao Zhang & Zhiyou Chen & Zhongchun Xiao & Hongju Jian & Feng Cheng & Kai Zhang & Hai Du & Xinchao Cheng & Cunming Qu & Wei Qia, 2019. "Whole-genome resequencing reveals Brassica napus origin and genetic loci involved in its improvement," Nature Communications, Nature, vol. 10(1), pages 1-12, December.
    • Handle: RePEc:nat:natcom:v:10:y:2019:i:1:d:10.1038_s41467-019-09134-9
    DOI: 10.1038/s41467-019-09134-9
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    Cited by:

    1. Jia Wang & Lin Mao & Yangyang Li & Kun Lu & Cunmin Qu & Zhanglin Tang & Jiana Li & Liezhao Liu, 2024. "Natural variation in BnaA9.NF-YA7 contributes to drought tolerance in Brassica napus L," Nature Communications, Nature, vol. 15(1), pages 1-17, December.
    2. Xiao Zhang & Mark Blaxter & Jonathan M. D. Wood & Alan Tracey & Shane McCarthy & Peter Thorpe & Jack G. Rayner & Shangzhe Zhang & Kirstin L. Sikkink & Susan L. Balenger & Nathan W. Bailey, 2024. "Temporal genomics in Hawaiian crickets reveals compensatory intragenomic coadaptation during adaptive evolution," Nature Communications, Nature, vol. 15(1), pages 1-19, December.
    3. Mirjana Domazet-Lošo & Tin Široki & Korina Šimičević & Tomislav Domazet-Lošo, 2024. "Macroevolutionary dynamics of gene family gain and loss along multicellular eukaryotic lineages," Nature Communications, Nature, vol. 15(1), pages 1-22, December.
    4. Li Lin & Xingrui Zhang & Jialin Fan & Jiawei Li & Sichao Ren & Xin Gu & Panpan Li & Meiling Xu & Jingyi Xu & Wenjing Lei & Dongxiao Liu & Qinfu Sun & Guangqin Cai & Qing-Yong Yang & Youping Wang & Jia, 2024. "Natural variation in BnaA07.MKK9 confers resistance to Sclerotinia stem rot in oilseed rape," Nature Communications, Nature, vol. 15(1), pages 1-18, December.

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