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Article

A High-Quality Chromosome-Level Genome Assembly of a Snail Cipangopaludina cathayensis (Gastropoda: Viviparidae)

by
Benhe Ma
1,2,†,
Wu Jin
3,4,†,
Huiyun Fu
1,
Bing Sun
5,
Su Yang
5,
Xueyan Ma
3,4,
Haibo Wen
3,4,
Xiaoping Wu
2,
Haihua Wang
1,* and
Xiaojuan Cao
5,*
1
Jiangxi Fisheries Research Institute, Nanchang 330039, China
2
College of Life Science, Nanchang University, Nanchang 330031, China
3
Key Laboratory of Integrated Rice-Fish Farming Ecology, Ministry of Agriculture and Rural Affairs, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, China
4
Wuxi Fisheries College, Nanjing Agricultural University, Wuxi 214128, China
5
Engineering Research Center of Green Development for Conventional Aquatic Biological Industry in the Yangtze River Economic Belt, Ministry of Education, College of Fisheries, Huazhong Agricultural University, Wuhan 430070, China
*
Authors to whom correspondence should be addressed.
†
These authors contributed equally to this work.
Genes 2023, 14(7), 1365; https://doi.org/10.3390/genes14071365
Submission received: 1 June 2023 / Revised: 21 June 2023 / Accepted: 26 June 2023 / Published: 28 June 2023
(This article belongs to the Special Issue Genetic Improvement of Aquatic Species)
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Abstract

Cipangopaludina cathayensis (Gastropoda: Prosobranchia; Mesogastropoda; Viviparidae) is widely distributed in the freshwater habitats of China. It is an economically important snail with high edible and medicinal value. However, the genomic resources and the reference genome of this snail are lacking. In this study, we assembled the first chromosome-level genome of C. cathayensis. The preliminary assembly genome was 1.48 Gb in size, with a contig N50 size of 93.49 Mb. The assembled sequences were anchored to nine pseudochromosomes using Hi-C data. The final genome after Hi-C correction was 1.48 Gb, with a contig N50 of 98.49 Mb and scaffold N50 of 195.21 Mb. The anchored rate of the chromosome was 99.99%. A total of 22,702 protein-coding genes were predicted. Phylogenetic analyses indicated that C. cathayensis diverged with Bellamya purificata approximately 158.10 million years ago. There were 268 expanded and 505 contracted gene families in C. cathayensis when compared with its most recent common ancestor. Five putative genes under positive selection in C. cathayensis were identified (false discovery rate <0.05). These genome data provide a valuable resource for evolutionary studies of the family Viviparidae, and for the genetic improvement of C. cathayensis.
Keywords: genome assembly; Cipangopaludina cathayensis; comparative genomics genome assembly; Cipangopaludina cathayensis; comparative genomics

Share and Cite

MDPI and ACS Style

Ma, B.; Jin, W.; Fu, H.; Sun, B.; Yang, S.; Ma, X.; Wen, H.; Wu, X.; Wang, H.; Cao, X. A High-Quality Chromosome-Level Genome Assembly of a Snail Cipangopaludina cathayensis (Gastropoda: Viviparidae). Genes 2023, 14, 1365. https://doi.org/10.3390/genes14071365

AMA Style

Ma B, Jin W, Fu H, Sun B, Yang S, Ma X, Wen H, Wu X, Wang H, Cao X. A High-Quality Chromosome-Level Genome Assembly of a Snail Cipangopaludina cathayensis (Gastropoda: Viviparidae). Genes. 2023; 14(7):1365. https://doi.org/10.3390/genes14071365

Chicago/Turabian Style

Ma, Benhe, Wu Jin, Huiyun Fu, Bing Sun, Su Yang, Xueyan Ma, Haibo Wen, Xiaoping Wu, Haihua Wang, and Xiaojuan Cao. 2023. "A High-Quality Chromosome-Level Genome Assembly of a Snail Cipangopaludina cathayensis (Gastropoda: Viviparidae)" Genes 14, no. 7: 1365. https://doi.org/10.3390/genes14071365

APA Style

Ma, B., Jin, W., Fu, H., Sun, B., Yang, S., Ma, X., Wen, H., Wu, X., Wang, H., & Cao, X. (2023). A High-Quality Chromosome-Level Genome Assembly of a Snail Cipangopaludina cathayensis (Gastropoda: Viviparidae). Genes, 14(7), 1365. https://doi.org/10.3390/genes14071365

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