Scholarlink

<p><i>Hemibarbus maculatus</i>, a keystone cyprinid species widely distributed across Asian freshwater ecosystems, holds dual significance as an economically valuable food fish and an ecological regulator. In this study we present its first chromosome-level genome assembly by integrating PacBio HiFi reads and Hi-C scaffolding. The 1.08 Gb assembly achieves exceptional continuity with a scaffold N50 of 43.84 Mb, where 98.23% sequences are anchored to 25 pseudochromosomes. BUSCO assessment confirmed 99.1% completeness, with 30.02% repetitive elements and 23,892 predicted protein-coding genes. High-resolution Hi-C interaction maps and cross-species synteny analyses validated chromosomal-scale assembly accuracy. The phylogenetic reconstruction of 10 Cyprinidae species resolves the divergence time framework within the Gobioninae subfamily, revealing that <i>H. maculatus</i> diverged from <i>Rhinogobio nasutus</i> ~12.3 Mya and shares a common ancestor with <i>Pseudorasbora parva</i> at ~18.3 Mya during mid-Miocene freshwater habitat radiation. This resource establishes foundational infrastructure for decoding population genomics, ecological adaptations, and precision aquaculture of <i>H. maculatus</i>, while facilitating evolutionary studies within Cyprinidae.</p>

错误：搜索内容不能为空，请输入英文关键词
错误：关键词超出字数限制，请精简
高级检索

A chromosome-level genome assembly of Hemibarbus maculatus

  • 期刊论文

  • 出版模式：

    开放获取

  • 发表日期：

    2026年2月26日

查看全文
  • Qingping Lian,
  • Pengcheng Sheng,
  • Aihuan Guo,
  • Huan Chen,
  • Zou Meng,
  • Rui Wu,
  • JiaJia Xia,
  • Guangmei Chen,
  • Julin Yuan

摘要

Hemibarbus maculatus, a keystone cyprinid species widely distributed across Asian freshwater ecosystems, holds dual significance as an economically valuable food fish and an ecological regulator. In this study we present its first chromosome-level genome assembly by integrating PacBio HiFi reads and Hi-C scaffolding. The 1.08 Gb assembly achieves exceptional continuity with a scaffold N50 of 43.84 Mb, where 98.23% sequences are anchored to 25 pseudochromosomes. BUSCO assessment confirmed 99.1% completeness, with 30.02% repetitive elements and 23,892 predicted protein-coding genes. High-resolution Hi-C interaction maps and cross-species synteny analyses validated chromosomal-scale assembly accuracy. The phylogenetic reconstruction of 10 Cyprinidae species resolves the divergence time framework within the Gobioninae subfamily, revealing that H. maculatus diverged from Rhinogobio nasutus ~12.3 Mya and shares a common ancestor with Pseudorasbora parva at ~18.3 Mya during mid-Miocene freshwater habitat radiation. This resource establishes foundational infrastructure for decoding population genomics, ecological adaptations, and precision aquaculture of H. maculatus, while facilitating evolutionary studies within Cyprinidae.