loading page

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

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.

Peer review status:IN REVISION

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