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Unzipped chromosome-level genomes reveal allopolyploid nematode origin pattern as unreduced gamete hybridization

Author

Listed:
  • Dadong Dai

    (Huazhong Agricultural University
    Huazhong Agricultural University)

  • Chuanshuai Xie

    (Huazhong Agricultural University
    Huazhong Agricultural University)

  • Yayi Zhou

    (Huazhong Agricultural University
    Huazhong Agricultural University)

  • Dexin Bo

    (Huazhong Agricultural University
    Huazhong Agricultural University)

  • Shurong Zhang

    (Huazhong Agricultural University
    Huazhong Agricultural University)

  • Shengqiang Mao

    (Huazhong Agricultural University
    Huazhong Agricultural University)

  • Yucheng Liao

    (Huazhong Agricultural University
    Huazhong Agricultural University)

  • Simeng Cui

    (Huazhong Agricultural University
    Huazhong Agricultural University)

  • Zhaolu Zhu

    (Huazhong Agricultural University
    Huazhong Agricultural University)

  • Xueyu Wang

    (Huazhong Agricultural University
    Huazhong Agricultural University)

  • Fanling Li

    (Huazhong Agricultural University
    Huazhong Agricultural University)

  • Donghai Peng

    (Huazhong Agricultural University
    Huazhong Agricultural University)

  • Jinshui Zheng

    (Huazhong Agricultural University
    Huazhong Agricultural University)

  • Ming Sun

    (Huazhong Agricultural University
    Huazhong Agricultural University)

Abstract

The formation and consequences of polyploidization in animals with clonal reproduction remain largely unknown. Clade I root-knot nematodes (RKNs), characterized by parthenogenesis and allopolyploidy, show a widespread geographical distribution and extensive agricultural destruction. Here, we generated 4 unzipped polyploid RKN genomes and identified a putative novel alternative telomeric element. Then we reconstructed 4 chromosome-level assemblies and resolved their genome structures as AAB for triploid and AABB for tetraploid. The phylogeny of subgenomes revealed polyploid RKN origin patterns as hybridization between haploid and unreduced gametes. We also observed extensive chromosomal fusions and homologous gene expression decrease after polyploidization, which might offset the disadvantages of clonal reproduction and increase fitness in polyploid RKNs. Our results reveal a rare pathway of polyploidization in parthenogenic polyploid animals and provide a large number of high-precision genetic resources that could be used for RKN prevention and control.

Suggested Citation

  • Dadong Dai & Chuanshuai Xie & Yayi Zhou & Dexin Bo & Shurong Zhang & Shengqiang Mao & Yucheng Liao & Simeng Cui & Zhaolu Zhu & Xueyu Wang & Fanling Li & Donghai Peng & Jinshui Zheng & Ming Sun, 2023. "Unzipped chromosome-level genomes reveal allopolyploid nematode origin pattern as unreduced gamete hybridization," Nature Communications, Nature, vol. 14(1), pages 1-18, December.
    • Handle: RePEc:nat:natcom:v:14:y:2023:i:1:d:10.1038_s41467-023-42700-w
    DOI: 10.1038/s41467-023-42700-w
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    Cited by:

    1. Ana Paula Zotta Mota & Georgios D. Koutsovoulos & Laetitia Perfus-Barbeoch & Evelin Despot-Slade & Karine Labadie & Jean-Marc Aury & Karine Robbe-Sermesant & Marc Bailly-Bechet & Caroline Belser & Art, 2024. "Unzipped genome assemblies of polyploid root-knot nematodes reveal unusual and clade-specific telomeric repeats," Nature Communications, Nature, vol. 15(1), pages 1-18, December.

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