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A chromosome-level genome assembly of Cydia pomonella provides insights into chemical ecology and insecticide resistance

Author

Listed:
  • Fanghao Wan

    (Chinese Academy of Agricultural Sciences
    Chinese Academy of Agricultural Sciences)

  • Chuanlin Yin

    (Zhejiang University)

  • Rui Tang

    (Chinese Academy of Agricultural Sciences
    Chinese Academy of Sciences)

  • Maohua Chen

    (Key Laboratory of Integrated Pest Management on Crops in Northwestern Loess Plateau of Ministry of Agriculture)

  • Qiang Wu

    (Chinese Academy of Agricultural Sciences)

  • Cong Huang

    (Chinese Academy of Agricultural Sciences
    Hunan Agricultural University)

  • Wanqiang Qian

    (Chinese Academy of Agricultural Sciences)

  • Omar Rota-Stabelli

    (Fondazione Edmund Mach, Via Mach 1)

  • Nianwan Yang

    (Chinese Academy of Agricultural Sciences)

  • Shuping Wang

    (Shanghai Custom)

  • Guirong Wang

    (Chinese Academy of Agricultural Sciences)

  • Guifen Zhang

    (Chinese Academy of Agricultural Sciences)

  • Jianyang Guo

    (Chinese Academy of Agricultural Sciences)

  • Liuqi (Aloy) Gu

    (University of Kansas)

  • Longfei Chen

    (Zhejiang University)

  • Longsheng Xing

    (Chinese Academy of Agricultural Sciences)

  • Yu Xi

    (Chinese Academy of Agricultural Sciences)

  • Feiling Liu

    (Zhejiang University)

  • Kejian Lin

    (Chinese Academy of Agricultural Sciences)

  • Mengbo Guo

    (Chinese Academy of Agricultural Sciences)

  • Wei Liu

    (Chinese Academy of Agricultural Sciences)

  • Kang He

    (Zhejiang University)

  • Ruizheng Tian

    (Key Laboratory of Integrated Pest Management on Crops in Northwestern Loess Plateau of Ministry of Agriculture)

  • Emmanuelle Jacquin-Joly

    (INRA, Institute of Ecology and Environmental Sciences of Paris)

  • Pierre Franck

    (INRA, Plantes et Systèmes de culture Horticole, 228 route de l’Aérodrome)

  • Myriam Siegwart

    (INRA, Plantes et Systèmes de culture Horticole, 228 route de l’Aérodrome)

  • Lino Ometto

    (Fondazione Edmund Mach, Via Mach 1
    University of Pavia)

  • Gianfranco Anfora

    (Fondazione Edmund Mach, Via Mach 1
    University of Trento)

  • Mark Blaxter

    (The University of Edinburgh)

  • Camille Meslin

    (INRA, Institute of Ecology and Environmental Sciences of Paris)

  • Petr Nguyen

    (Institute of Entomology, Branišovská 31
    University of South Bohemia, Branišovská 1760)

  • Martina Dalíková

    (Institute of Entomology, Branišovská 31
    University of South Bohemia, Branišovská 1760)

  • František Marec

    (Institute of Entomology, Branišovská 31)

  • Jérôme Olivares

    (INRA, Plantes et Systèmes de culture Horticole, 228 route de l’Aérodrome)

  • Sandrine Maugin

    (INRA, Plantes et Systèmes de culture Horticole, 228 route de l’Aérodrome)

  • Jianru Shen

    (Chinese Academy of Agricultural Sciences)

  • Jinding Liu

    (Nanjing Agricultural University)

  • Jinmeng Guo

    (Nanjing Agricultural University)

  • Jiapeng Luo

    (Zhejiang University)

  • Bo Liu

    (Chinese Academy of Agricultural Sciences)

  • Wei Fan

    (Chinese Academy of Agricultural Sciences)

  • Likai Feng

    (Xinjiang Academy of Agricultural and Reclamation Sciences)

  • Xianxin Zhao

    (Zhejiang University)

  • Xiong Peng

    (Key Laboratory of Integrated Pest Management on Crops in Northwestern Loess Plateau of Ministry of Agriculture)

  • Kang Wang

    (Key Laboratory of Integrated Pest Management on Crops in Northwestern Loess Plateau of Ministry of Agriculture)

  • Lang Liu

    (Key Laboratory of Integrated Pest Management on Crops in Northwestern Loess Plateau of Ministry of Agriculture)

  • Haixia Zhan

    (Chinese Academy of Agricultural Sciences)

  • Wanxue Liu

    (Chinese Academy of Agricultural Sciences)

  • Guoliang Shi

    (Chinese Academy of Agricultural Sciences
    Qingdao Agricultural University)

  • Chunyan Jiang

    (Chinese Academy of Agricultural Sciences
    Qingdao Agricultural University)

  • Jisu Jin

    (Chinese Academy of Agricultural Sciences
    Hunan Agricultural University)

  • Xiaoqing Xian

    (Chinese Academy of Agricultural Sciences)

  • Sha Lu

    (Chinese Academy of Agricultural Sciences
    Qingdao Agricultural University)

  • Mingli Ye

    (Zhejiang Shuren University)

  • Meizhen Li

    (Zhejiang University)

  • Minglu Yang

    (Tarim University)

  • Renci Xiong

    (Tarim University)

  • James R. Walters

    (University of Kansas)

  • Fei Li

    (Zhejiang University)

Abstract

The codling moth Cydia pomonella, a major invasive pest of pome fruit, has spread around the globe in the last half century. We generated a chromosome-level scaffold assembly including the Z chromosome and a portion of the W chromosome. This assembly reveals the duplication of an olfactory receptor gene (OR3), which we demonstrate enhances the ability of C. pomonella to exploit kairomones and pheromones in locating both host plants and mates. Genome-wide association studies contrasting insecticide-resistant and susceptible strains identify hundreds of single nucleotide polymorphisms (SNPs) potentially associated with insecticide resistance, including three SNPs found in the promoter of CYP6B2. RNAi knockdown of CYP6B2 increases C. pomonella sensitivity to two insecticides, deltamethrin and azinphos methyl. The high-quality genome assembly of C. pomonella informs the genetic basis of its invasiveness, suggesting the codling moth has distinctive capabilities and adaptive potential that may explain its worldwide expansion.

Suggested Citation

  • Fanghao Wan & Chuanlin Yin & Rui Tang & Maohua Chen & Qiang Wu & Cong Huang & Wanqiang Qian & Omar Rota-Stabelli & Nianwan Yang & Shuping Wang & Guirong Wang & Guifen Zhang & Jianyang Guo & Liuqi (Alo, 2019. "A chromosome-level genome assembly of Cydia pomonella provides insights into chemical ecology and insecticide resistance," Nature Communications, Nature, vol. 10(1), pages 1-14, December.
    • Handle: RePEc:nat:natcom:v:10:y:2019:i:1:d:10.1038_s41467-019-12175-9
    DOI: 10.1038/s41467-019-12175-9
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