Chromosome-Level Genome Assembly of the Butter Clam Saxidomus purpuratus SCIE SCOPUS

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Title
Chromosome-Level Genome Assembly of the Butter Clam Saxidomus purpuratus
Author(s)
Kim, Jungeun; Kim, Hui-Su; Choi, Jae-Pil; Kim, Min Sun; Woo, Seonock; Kim, Yeonghye; Jo, Yejin; Yum, Seungshic; Bhak, Jong
KIOST Author(s)
Woo, Seon Ock(우선옥)Jo, Ye Jin(조예진)Yum, Seung Shic(염승식)
Alternative Author(s)
우선옥; 조예진; 염승식
Publication Year
2022-07
Abstract
Herein, we provide the first whole-genome sequence of the purple butter clam (Saxidomus purpuratus), an economically important bivalve shellfish. Specifically, we sequenced and de novo assembled the genome of Sa. purpuratus based on PromethION long reads and Hi-C data. The 978-Mb genome of Sa. purpuratus comprises 19 chromosomes with 36,591 predicted protein-coding genes. The N50 length of Sa. purpuratus genome is 52 Mb, showing the highest continuous assembly among bivalve genomes. The Benchmarking by Universal Single-Copy Orthologs assessment indicated that 95.07% of complete metazoan universal single-copy orthologs (n = 954) were present in the assembly. Approximately 51% of Sa. purpuratus genome comprises repetitive sequences. Based on the high-quality Sa. purpuratus genome, we resolved half of the immune-associated genes, namely, scavenger receptor (SR) proteins, which are collinear to those in the closely related Cyclina sinensis genome. This finding suggested a high degree of conservation among immune-associated genes. Twenty-two (19%) SR proteins are tandemly duplicated in Sa. purpuratus genome, suggesting putative convergence evolution. Overall, Sa. purpuratus genome provides a new resource for the discovery of economically important traits and immune-response genes.
ISSN
1759-6653
URI
https://sciwatch.kiost.ac.kr/handle/2020.kiost/43125
DOI
10.1093/gbe/evac106
Bibliographic Citation
Genome Biology and Evolution, v.14, no.7, 2022
Publisher
Oxford University Press
Keywords
butter clam; Saxidomus purpuratus; genome; chromosome level
Type
Article
Language
English
Document Type
Article
Publisher
Oxford University Press
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