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The wax gourd genomes offer insights into the genetic diversity and ancestral cucurbit karyotype

Author

Listed:
  • Dasen Xie

    (Guangdong Academy of Agricultural Sciences)

  • Yuanchao Xu

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

  • Jinpeng Wang

    (North China University of Science and Technology)

  • Wenrui Liu

    (Guangdong Academy of Agricultural Sciences)

  • Qian Zhou

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

  • Shaobo Luo

    (Guangdong Academy of Agricultural Sciences)

  • Wu Huang

    (Chinese Academy of Agricultural Sciences)

  • Xiaoming He

    (Guangdong Academy of Agricultural Sciences)

  • Qing Li

    (Chinese Academy of Agricultural Sciences)

  • Qingwu Peng

    (Guangdong Academy of Agricultural Sciences)

  • Xueyong Yang

    (Chinese Academy of Agricultural Sciences)

  • Jiaqing Yuan

    (North China University of Science and Technology)

  • Jigao Yu

    (North China University of Science and Technology)

  • Xiyin Wang

    (North China University of Science and Technology)

  • William J. Lucas

    (Chinese Academy of Agricultural Sciences
    University of California)

  • Sanwen Huang

    (Chinese Academy of Agricultural Sciences)

  • Biao Jiang

    (Guangdong Academy of Agricultural Sciences)

  • Zhonghua Zhang

    (Chinese Academy of Agricultural Sciences
    Qingdao Agricultural University)

Abstract

The botanical family Cucurbitaceae includes a variety of fruit crops with global or local economic importance. How their genomes evolve and the genetic basis of diversity remain largely unexplored. In this study, we sequence the genome of the wax gourd (Benincasa hispida), which bears giant fruit up to 80 cm in length and weighing over 20 kg. Comparative analyses of six cucurbit genomes reveal that the wax gourd genome represents the most ancestral karyotype, with the predicted ancestral genome having 15 proto-chromosomes. We also resequence 146 lines of diverse germplasm and build a variation map consisting of 16 million variations. Combining population genetics and linkage mapping, we identify a number of regions/genes potentially selected during domestication and improvement, some of which likely contribute to the large fruit size in wax gourds. Our analyses of these data help to understand genome evolution and function in cucurbits.

Suggested Citation

  • Dasen Xie & Yuanchao Xu & Jinpeng Wang & Wenrui Liu & Qian Zhou & Shaobo Luo & Wu Huang & Xiaoming He & Qing Li & Qingwu Peng & Xueyong Yang & Jiaqing Yuan & Jigao Yu & Xiyin Wang & William J. Lucas &, 2019. "The wax gourd genomes offer insights into the genetic diversity and ancestral cucurbit karyotype," Nature Communications, Nature, vol. 10(1), pages 1-12, December.
    • Handle: RePEc:nat:natcom:v:10:y:2019:i:1:d:10.1038_s41467-019-13185-3
    DOI: 10.1038/s41467-019-13185-3
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    Cited by:

    1. Hongbo Li & Shenhao Wang & Sen Chai & Zhiquan Yang & Qiqi Zhang & Hongjia Xin & Yuanchao Xu & Shengnan Lin & Xinxiu Chen & Zhiwang Yao & Qingyong Yang & Zhangjun Fei & Sanwen Huang & Zhonghua Zhang, 2022. "Graph-based pan-genome reveals structural and sequence variations related to agronomic traits and domestication in cucumber," Nature Communications, Nature, vol. 13(1), pages 1-14, December.

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