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<p><i>Ditylenchus destructor</i>, commonly known as the potato rot nematode, is a significant plant-parasitic pathogen affecting over 120 plant species globally. Effective control measures for <i>D. destructor</i> are limited, underscoring the need a high-quality reference genome to understand its pathogenic mechanisms. Herein, we combined Illumina short reads, PacBio long reads, and Hi-C mapping technology to construct a chromosome-scale reference genome assembly for <i>D. destructor</i>. The genome assembly totals 133.86 Mb, with 129.51 Mb (96.74%) of sequences anchored onto 4 pseudo-chromosomes, achieving a scaffold N50 of 32.25 Mb. The assembled genome contains 28.14% repeat sequences and identifies 19,165 protein-coding genes, of which 18,444 (96.24%) are functionally annotated. The genome assembly demonstrates a high level of completeness, with 73.8% complete the nematoda-specifc Benchmarking Universal Single-Copy Orthologs (BUSCO) genes, significantly higher than that of other reported plant-parasitic nematode genomes. This high-quality reference genome will serve as a valuable genomic resource for future research aimed at understanding the pathogenesis of <i>D. destructor</i> and developing effective control strategies.</p>

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Chromosome-level genome assembly of the sweet potato rot nematode Ditylenchus destructor

  • 期刊论文

  • 出版模式：

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  • 发表日期：

    2025年1月29日

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  • Yiwei Yang,
  • Ruirui Feng,
  • Bo Hong,
  • Yuchuan Fang,
  • Chen Liu,
  • Kui Wang,
  • Deliang Peng,
  • Yingmei Li,
  • Huan Peng,
  • Qing Chang

摘要

Ditylenchus destructor, commonly known as the potato rot nematode, is a significant plant-parasitic pathogen affecting over 120 plant species globally. Effective control measures for D. destructor are limited, underscoring the need a high-quality reference genome to understand its pathogenic mechanisms. Herein, we combined Illumina short reads, PacBio long reads, and Hi-C mapping technology to construct a chromosome-scale reference genome assembly for D. destructor. The genome assembly totals 133.86 Mb, with 129.51 Mb (96.74%) of sequences anchored onto 4 pseudo-chromosomes, achieving a scaffold N50 of 32.25 Mb. The assembled genome contains 28.14% repeat sequences and identifies 19,165 protein-coding genes, of which 18,444 (96.24%) are functionally annotated. The genome assembly demonstrates a high level of completeness, with 73.8% complete the nematoda-specifc Benchmarking Universal Single-Copy Orthologs (BUSCO) genes, significantly higher than that of other reported plant-parasitic nematode genomes. This high-quality reference genome will serve as a valuable genomic resource for future research aimed at understanding the pathogenesis of D. destructor and developing effective control strategies.