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<p><i>Chanodichthys mongolicus</i>, a carnivorous fish belonging to the Cyprinidae family (Erythroculter), is widely distributed in reservoirs and lakes across China. However, the lack of research on whole genome assembly has impeded advancements in genetic studies for this species. In this study, we employed PacBio sequencing and Hi-C technology to assemble high-quality genomes for both female and male <i>Chanodichthys mongolicus</i> at the chromosome level. The assembly results revealed a male genome size of 1.10 GB with a scaffold N50 of 43 Mb, while the female genome was 1.09 GB with a scaffold N50 of 42 Mb. Both assemblies consist of 24 chromosomes and demonstrate an average genome integrity of 98.5%, as assessed by BUSCO. We annotated the male genome using a combination of <i>ab initio</i> predictions, protein homology comparisons, and RNAseq data, resulting in the identification of 33,581 genes, of which 88.15% were predicted to have functional roles. These findings provide a valuable resource for future research on the genetic breeding and genome evolution of <i>Chanodichthys mongolicus</i>.</p>

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Assembling chromosome-level genomes of male and female Chanodichthys mongolicus using PacBio HiFi reads and Hi-C technologies

  • 期刊论文

  • 出版模式：

    开放获取

  • 发表日期：

    2025年6月6日

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  • Qi Liu,
  • Xiaopeng Wang,
  • Dinaer Yekefenhazi,
  • Jingyu Wang,
  • Keer Zhong,
  • Ying Zhang,
  • Huiyun Fu,
  • Zhiyong Zhou,
  • Jiangfeng Huang,
  • Wanbo Li,
  • Xiandong Xu

摘要

Chanodichthys mongolicus, a carnivorous fish belonging to the Cyprinidae family (Erythroculter), is widely distributed in reservoirs and lakes across China. However, the lack of research on whole genome assembly has impeded advancements in genetic studies for this species. In this study, we employed PacBio sequencing and Hi-C technology to assemble high-quality genomes for both female and male Chanodichthys mongolicus at the chromosome level. The assembly results revealed a male genome size of 1.10 GB with a scaffold N50 of 43 Mb, while the female genome was 1.09 GB with a scaffold N50 of 42 Mb. Both assemblies consist of 24 chromosomes and demonstrate an average genome integrity of 98.5%, as assessed by BUSCO. We annotated the male genome using a combination of ab initio predictions, protein homology comparisons, and RNAseq data, resulting in the identification of 33,581 genes, of which 88.15% were predicted to have functional roles. These findings provide a valuable resource for future research on the genetic breeding and genome evolution of Chanodichthys mongolicus.