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Chromosome-level genome assembly of Scapharca kagoshimensis reveals the expanded molecular basis of heme biosynthesis in ark shell
  • +13
  • Teng Weiming,
  • Xie Xi,
  • Hongtao Nie,
  • Yamin Sun,
  • Liu Xiangfeng,
  • Yu Zuoan,
  • Zheng Jie,
  • Liu Hongyue,
  • Li Dacheng,
  • Zhang Ming,
  • Wang Zhisong,
  • Zhu Shouwei,
  • Du Shangkun,
  • Du Shaojun,
  • Qi Li,
  • Qingzhi Wang
Teng Weiming
Liaoning Ocean and Fisheries Science Research Institute

Corresponding Author:twming000918@163.com

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Xie Xi
Liaoning Ocean and Fisheries Science Research Institute
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Hongtao Nie
Dalian Ocean University
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Yamin Sun
Tianjin Biochip corporation
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Liu Xiangfeng
Liaoning Ocean and Fisheries Science Research Institute
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Yu Zuoan
Liaoning Ocean and Fisheries Science Research Institute
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Zheng Jie
Liaoning Ocean and Fisheries Science Research Institute
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Liu Hongyue
Liaoning Ocean and Fisheries Science Research Institute
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Li Dacheng
Liaoning Ocean and Fisheries Science Research Institute
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Zhang Ming
Liaoning Ocean and Fisheries Science Research Institute
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Wang Zhisong
Liaoning Ocean and Fisheries Science Research Institute
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Zhu Shouwei
4. Jinzhou Research Institute of Science and Technology
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Du Shangkun
4. Jinzhou Research Institute of Science and Technology
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Du Shaojun
University of Maryland
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Qingzhi Wang
Liaoning Ocean and Fisheries Science Research Institute
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Abstract

Ark shells are commercially important clam species that inhabit in muddy sediments of shallow coasts in East Asia. For a long time, the lack of genome resources has hindered scientific research of ark shells. Here, we reported a high-quality chromosome-level genome assembly of Scapharca kagoshimensis, with an aim to unravel the molecular basis of heme biosynthesis, and develop genomic resources for genetic breeding and population genetics in ark shells. Nineteen scaffolds corresponding to 19 chromosomes were constructed from 938 contigs (contig N50=2.01 Mb) to produce a final high-quality assembly with a total length of 1.11 Gb and scaffold N50 around 60.64 Mb. The genome assembly represents 93.4% completeness via matching 303 eukaryota core conserved genes. A total of 24,908 protein-coding genes were predicted and 24,551 genes (98.56%) of which were functionally annotated. The enrichment analyses suggested that genes in heme biosynthesis pathways were expanded and positive selection of the hemoglobin genes was also found in the genome of S. kagoshimensis, which gives important insights into the molecular mechanisms and evolution of the heme biosynthesis in mollusca. The valuable genome assembly of S. kagoshimensis would provide a solid foundation for investigating the molecular mechanisms that underlie the diverse biological functions and evolutionary adaptations of S. kagoshimensis.
19 May 2021Submitted to Molecular Ecology Resources
21 May 2021Reviewer(s) Assigned
03 Jun 2021Review(s) Completed, Editorial Evaluation Pending
17 Jun 2021Editorial Decision: Revise Minor
23 Jun 2021Review(s) Completed, Editorial Evaluation Pending
23 Jun 20211st Revision Received
25 Jun 2021Editorial Decision: Accept