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Background <p>High-quality reference genomes are fundamental for selective breeding and genetic engineering to improve aquaculture productivity. Here, we report an improved chromosome-level genome assembly of Pacific bluefin tuna (<i>Thunnus orientalis</i>), a commercially valuable species consumed worldwide. By integrating genetic linkage information from interspecific hybrids of <i>Euthynnus affinis</i> and <i>T. orientalis</i>, we anchored and oriented <i>T. orientalis</i> scaffolds into 24 pseudochromosomes.</p> Results <p>The updated assembly achieved a scaffold N50 of 34.19&#xa0;Mb, representing a notable improvement from 13.3&#xa0;Mb, and contained 22,640 predicted protein-coding genes.</p> Conclusions <p>This resource provides a robust genomic foundation for future genetic and genomic studies to advance the selective breeding of <i>T. orientalis</i> in aquaculture.</p>

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Genome refinement in Pacific bluefin tuna (Thunnus orientalis): chromosome-level assembly using hybrid linkage data

  • 期刊论文

  • 出版模式：

    开放获取

  • 发表日期：

    2026年4月20日

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  • Xi Fu,
  • Daiki Saka,
  • Kazutoshi Yoshitake,
  • Taiju Saito,
  • Milos Havelka,
  • Osamu Nishimiya,
  • Takahiro Matsubara,
  • Rie Goto,
  • Toshinao Ineno,
  • Shuichi Asakawa

摘要

Background

High-quality reference genomes are fundamental for selective breeding and genetic engineering to improve aquaculture productivity. Here, we report an improved chromosome-level genome assembly of Pacific bluefin tuna (Thunnus orientalis), a commercially valuable species consumed worldwide. By integrating genetic linkage information from interspecific hybrids of Euthynnus affinis and T. orientalis, we anchored and oriented T. orientalis scaffolds into 24 pseudochromosomes.

Results

The updated assembly achieved a scaffold N50 of 34.19 Mb, representing a notable improvement from 13.3 Mb, and contained 22,640 predicted protein-coding genes.

Conclusions

This resource provides a robust genomic foundation for future genetic and genomic studies to advance the selective breeding of T. orientalis in aquaculture.