Chromosomal-level genome assembly of an allotetraploid oyster
Tetraploid oysters are used to cross with diploids to produce triploid oysters that have become an important part of the oyster aquaculture industry worldwide. Although most tetraploid oysters are artificially induced autotetraploids, allotetraploids can be produced between closely related species, providing new opportunities for polyploid breeding and studying genome interactions. Using PacBio sequencing, Illumina sequencing, and high-throughput chromosome conformation capture scaffolding, we produced a high-quality genome assembly of an artificially induced allotetraploid between the Pacific oyster Crassostrea gigas and Portuguese oyster Crassostrea angulata. The assembled genome is 1.23 Gb, with a contig N50 of 2.56 Mb and a scaffold N50 of 57.22 Mb, and anchored to 20 chromosomes. The assembly contains 58,330 protein-coding genes, 98.34% of which are functionally annotated. The heterozygosity and the ratio of repetitive sequences is 5.50% and 46.43%, respectively. This chromosomal-level genome assembly of an allotetraploid oyster provides a valuable genetic resource for studying genome biology, especially genome reorganization after hybridization and duplication, and for advanced breeding of polyploids that are critical for the oyster aquaculture industry.
Authors
- Mengshi Zhang (ORCID: https://orcid.org/0000-0002-0603-5525)
- M.‐R. Huo (ORCID: https://orcid.org/0009-0004-4676-9242)
- Ximing Guo (ORCID: https://orcid.org/0000-0002-6758-2709)
- Guofan Zhang (ORCID: https://orcid.org/0000-0001-9890-2659)
- Ao Li (ORCID: https://orcid.org/0000-0002-7130-2386)
- Li Li (ORCID: https://orcid.org/0000-0002-5913-4447)
- Wei Wang (ORCID: https://orcid.org/0000-0002-1614-0759)
- Xiaoyu Li (ORCID: https://orcid.org/0000-0001-5619-9838)
- Yalin Li (ORCID: https://orcid.org/0009-0008-5785-7845)
- Luping Wang (ORCID: https://orcid.org/0000-0003-4119-4799)
- Mingjie Zhao
- Zhe Xu (ORCID: https://orcid.org/0000-0002-9876-6519)
- Jinlong Zhao (ORCID: https://orcid.org/0000-0002-1086-7631)
- Xin Guo (ORCID: https://orcid.org/0000-0002-6451-0478)
- Haigang Qi (ORCID: https://orcid.org/0000-0002-5077-9775)
- Jingying Deng (ORCID: https://orcid.org/0009-0002-1685-0846)
- J.X. Fu (ORCID: https://orcid.org/0000-0002-7081-7150)
Institutions
- Rutgers, The State University of New Jersey (US)
- Chinese Academy of Sciences (CN)
- Rutgers Sexual and Reproductive Health and Rights (NL)
- Institute of Oceanology (CN)
- Central People's Hospital of Zhanjiang (CN)
- Qingdao National Laboratory for Marine Science and Technology (CN)
- Zhanjiang Experimental Station (CN)
- University of Chinese Academy of Sciences (CN)
- Ocean University of China (CN)
- Shandong University of Science and Technology (CN)
Publication Details
- Journal
- Scientific Data
- Published
- 2025-08-26
- DOI
- https://doi.org/10.1038/s41597-025-05775-2
- Primary Topic
- Aquaculture disease management and microbiota
- Type
- article
- Field-Weighted Citation Impact
- 0.00
Funders
- National Natural Science Foundation of China
- Chinese Academy of Sciences
- Youth Innovation Promotion Association of the Chinese Academy of Sciences
- Youth Innovation Promotion Association