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PubMed · 40707488

Chromosome-level genome assembly of Qihe gibel carp.

Kaiqi Lian·Jinyan Shan·Jun Ma·Yuling Liu·Xiaolong Li·Meng Lu·Miao Ding·Jie Wei·Li Zhou·Youyi Kuang·Jianfang Gui·Renhai Peng
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Abstract

Qihe gibel carp (Carassius gibelio var. Qihe) is a local population of natural gynogenetic amphitriploid (AAABBB) Carassius gibelio, and has high nutritional and economic value. In this study, we assemble a high-quality chromosome-level genome of Qihe gibel carp through DNBSEQ, PacBio HiFi, and Hi-C sequencing data. The resulting assembly consisted of 350 contigs with the full length of 1.607 Gb and 96.21% (1.515 Gb) of the assembled genome was successfully anchored to 50 chromosomes, with a contig N50 of 28.97 Mb and a scaffold N50 of 29.84 Mb. Repeated sequences accounting for 43.72% (732.494 Mb) of the total were also identified, and gene prediction revealed 46,131 protein-coding genes with an annotation ratio of 96.48%. Furthermore, Benchmarking Universal Single-Copy Orthologue (BUSCO) analysis demonstrated that the genome assembly achieved high completeness, with a score of 97.66%. This high-quality chromosome-level genome lays the foundation for molecular biology research as well as molecular breeding and evolutionary studies of Qihe gibel carp in the future.

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AnimalsCarpsChromosomesGenomeJournal ArticleResearch Support, Non-U.S. Gov't

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Kaiqi Lian, Jinyan Shan, Jun Ma, Yuling Liu, Xiaolong Li, Meng Lu, Miao Ding, Jie Wei, Li Zhou, Youyi Kuang, Jianfang Gui, Renhai Peng. 2025-07-24. Chromosome-level genome assembly of Qihe gibel carp.. https://doi.org/10.1038/s41597-025-05636-y

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