Chromosome-level analysis of the Crassostrea hongkongensis genome reveals extensive duplication of immune-related genes in bivalves.
Crassostrea hongkongensis
adaptation
bivalve
genome
gonad development
transcriptome
Journal
Molecular ecology resources
ISSN: 1755-0998
Titre abrégé: Mol Ecol Resour
Pays: England
ID NLM: 101465604
Informations de publication
Date de publication:
Jul 2020
Jul 2020
Historique:
received:
10
08
2019
revised:
09
03
2020
accepted:
16
03
2020
pubmed:
22
3
2020
medline:
5
6
2021
entrez:
22
3
2020
Statut:
ppublish
Résumé
Crassostrea hongkongensis is a popular and important native oyster species that is cultured mainly along the coast of the South China Sea. However, the absence of a reference genome has restricted genetic studies and the development of molecular breeding schemes for this species. Here, we combined PacBio and 10 × Genomics technologies to create a C. hongkongensis genome assembly, which has a size of 610 Mb, and is close to that estimated by flow cytometry (~650 Mb). Contig and scaffold N50 are 2.57 and 4.99 Mb, respectively, and BUSCO analysis indicates that 95.8% of metazoan conserved genes are completely represented. Using a high-density linkage map of its closest related species, C. gigas, a total of 521 Mb (85.4%) was anchored to 10 haploid chromosomes. Comparative genomic analyses with other molluscs reveal that several immune- or stress response-related genes extensively expanded in bivalves by tandem duplication, including C1q, Toll-like receptors and Hsp70, which are associated with their adaptation to filter-feeding and sessile lifestyles in shallow sea and/or deep-sea ecosystems. Through transcriptome sequencing, potential genes and pathways related to sex determination and gonad development were identified. The genome and transcriptome of C. hongkongensis provide valuable resources for future molecular studies, genetic improvement and genome-assisted breeding of oysters.
Identifiants
pubmed: 32198971
doi: 10.1111/1755-0998.13157
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
980-994Subventions
Organisme : The Science and Technology Major Project of Guangxi
ID : GuiAA17204080-4
Organisme : The Science and Technology Major Project of Guangxi
ID : GuiAA17204089-3
Organisme : The Science and Technology Major Project of Guangxi
ID : GuiAA17204095-10
Organisme : the China agriculture Research System
ID : CARS-49
Organisme : Guangxi academician workstation special project
Informations de copyright
© 2020 John Wiley & Sons Ltd.
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