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<p>The giant honeycomb oyster, <i>Hyotissa hyotis</i>, a common bivalve inhabitant of tropical and subtropical coastal waters, holds significant ecological and economic importance due to its shell characteristics, rapid growth, and high-quality adductor muscle. However, the lack of high-quality genome has impeded the genetic study and artificial breeding of this species. In this study, we provided the first chromosomal-level haplotype-resolved assembly for the <i>H. hyotis</i> (2n = 20) by combining PacBio HiFi long-read and Hi-C sequencing. We obtained a haplotype-resolved assembly of 3.39 Gb in size, of which 96.69% were anchored to 20 chromosomes. The haplotype A and B genome (HapA and HapB) was 1,639.90 and 1,643.23 Mb in size, respectively. Accordingly, a total of 28,720 and 29,003 protein-coding genes were annotated from HapA and HapB. Through the BUSCO evaluation, the assembly and annotation results exhibited the completeness value of 94.65% and 94.03% for HapA, while 94.13% and 92.98% for HapB. This high-quality genome assembly provides valuable resource for further genetic studies and genetic improvement of the group of oysters.</p>

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Chromosome-level haplotype-resolved genome assembly of the giant honeycomb oyster, Hyotissa hyotis

  • 期刊论文

  • 出版模式：

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  • 发表日期：

    2025年7月30日

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  • Chenyu Shi,
  • Yi Yang,
  • Ying Tan,
  • Qi Li,
  • Shikai Liu

摘要

The giant honeycomb oyster, Hyotissa hyotis, a common bivalve inhabitant of tropical and subtropical coastal waters, holds significant ecological and economic importance due to its shell characteristics, rapid growth, and high-quality adductor muscle. However, the lack of high-quality genome has impeded the genetic study and artificial breeding of this species. In this study, we provided the first chromosomal-level haplotype-resolved assembly for the H. hyotis (2n = 20) by combining PacBio HiFi long-read and Hi-C sequencing. We obtained a haplotype-resolved assembly of 3.39 Gb in size, of which 96.69% were anchored to 20 chromosomes. The haplotype A and B genome (HapA and HapB) was 1,639.90 and 1,643.23 Mb in size, respectively. Accordingly, a total of 28,720 and 29,003 protein-coding genes were annotated from HapA and HapB. Through the BUSCO evaluation, the assembly and annotation results exhibited the completeness value of 94.65% and 94.03% for HapA, while 94.13% and 92.98% for HapB. This high-quality genome assembly provides valuable resource for further genetic studies and genetic improvement of the group of oysters.