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<p><i>Schizothorax davidi</i>, a cold-water fish endemic to the Qinghai–Tibetan Plateau (QTP), represents an important economic resource in the upper Yangtze River. Regarded as a promising model for studying high-altitude adaptation and polyploidization, this species has still lacked a reference genome. Here, we report a haplotype-resolved, chromosome-scale genome of <i>S.davidi</i> (4n = 98), generated by integrating PacBio HiFi, Oxford Nanopore ultralong, and Hi-C sequencing data. The assembly spans 3.7 Gb across 98 chromosomes with a scaffold N50 of 36.93 Mb, includes 98,079 annotated protein-coding genes, and reveals large-scale regions of lost heterozygosity across 11 chromosomes. This haplotype-resolved genomic resource will advance the study of vertebrate polyploidy and adaptive evolution.</p>

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Haplotype-resolved chromosome-level genome assembly of Schizothorax davidi

  • 期刊论文

  • 出版模式：

    开放获取

  • 发表日期：

    2026年4月30日

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  • Chuanshuai Xie,
  • Yuanhang Li,
  • Yan Zhou,
  • Yili Cui,
  • Haoyu Wang,
  • Luohao Xu,
  • Haiping Liu

摘要

Schizothorax davidi, a cold-water fish endemic to the Qinghai–Tibetan Plateau (QTP), represents an important economic resource in the upper Yangtze River. Regarded as a promising model for studying high-altitude adaptation and polyploidization, this species has still lacked a reference genome. Here, we report a haplotype-resolved, chromosome-scale genome of S.davidi (4n = 98), generated by integrating PacBio HiFi, Oxford Nanopore ultralong, and Hi-C sequencing data. The assembly spans 3.7 Gb across 98 chromosomes with a scaffold N50 of 36.93 Mb, includes 98,079 annotated protein-coding genes, and reveals large-scale regions of lost heterozygosity across 11 chromosomes. This haplotype-resolved genomic resource will advance the study of vertebrate polyploidy and adaptive evolution.