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<p>The Tibetan loach genus <i>Triplophysa</i> exhibits distinct adaptive traits to cope with the unique environmental pressures of the Qinghai-Xizang Plateau. To decipher the molecular mechanisms underlying adaptation to extreme plateau environments, this study constructed the first gapless telomere-to-telomere (T2T) genome of <i>Triplophysa stoliczkae</i>, by integrating PacBio HiFi, Oxford Nanopore ultra-long read, and Hi-C sequencing technologies. The assembly spans 659.99 Mb with a contig N50 of 25.8 Mb and has been fully scaffolded into 25 chromosome-scale sequences, with all centromeres and telomeres completely resolved. Our annotation identified 251.33 Mb (38.08%) of repetitive sequences and 29,030 protein-coding genes. Comparative genomic analyses with related species confirmed the high completeness, contiguity, and accuracy of this assembly. Further supporting the assembly quality, we calculated a quality value (QV) of 41.64 and a BUSCO completeness score of 98.50%. This chromosome-level T2T genome serves as a high-value genomic resource for the genus <i>Triplophysa</i> and provides a critical reference for future studies aimed at elucidating the genetic basis of high-altitude adaptation in plateau fishes.</p>

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A telomere-to-telomere gapfree genome assembly of Triplophysa stoliczkae (Tibetan stone loach, family Nemacheilidae)

  • 期刊论文

  • 出版模式：

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  • 发表日期：

    2026年6月23日

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  • Anmin Wang,
  • Shengxue Chen,
  • Huichun Xie,
  • Nan Sun,
  • Guogang Li

摘要

The Tibetan loach genus Triplophysa exhibits distinct adaptive traits to cope with the unique environmental pressures of the Qinghai-Xizang Plateau. To decipher the molecular mechanisms underlying adaptation to extreme plateau environments, this study constructed the first gapless telomere-to-telomere (T2T) genome of Triplophysa stoliczkae, by integrating PacBio HiFi, Oxford Nanopore ultra-long read, and Hi-C sequencing technologies. The assembly spans 659.99 Mb with a contig N50 of 25.8 Mb and has been fully scaffolded into 25 chromosome-scale sequences, with all centromeres and telomeres completely resolved. Our annotation identified 251.33 Mb (38.08%) of repetitive sequences and 29,030 protein-coding genes. Comparative genomic analyses with related species confirmed the high completeness, contiguity, and accuracy of this assembly. Further supporting the assembly quality, we calculated a quality value (QV) of 41.64 and a BUSCO completeness score of 98.50%. This chromosome-level T2T genome serves as a high-value genomic resource for the genus Triplophysa and provides a critical reference for future studies aimed at elucidating the genetic basis of high-altitude adaptation in plateau fishes.