团头鲂的染色体水平基因组组装

Chromosome-level assemblies of the White bream Parabramis pekinensis.

作者信息

Gu Hailong, Zhang Xinhui, Xu Wentao, Yang Zhijing, Xu Ye, Miao Xiaoping, Feng Yaming

机构信息

Taizhou Institute of Agricultural Science, Jiangsu Academy of Agricultural Sciences, Taizhou, 225300, China.

Shenzhen Key Lab of Marine Genomics, Guangdong Provincial Key Lab of Molecular Breeding in Marine Economic Animals, BGI Academy of Marine Sciences, BGI Marine, Shenzhen, 518081, China.

出版信息

Sci Data. 2025 May 27;12(1):871. doi: 10.1038/s41597-025-04821-3.

DOI:10.1038/s41597-025-04821-3

PMID:40425610

Abstract

White bream Parabramis pekinensis is an omnivorous fish belong to Cyprinidae that is widespread in Asia. In this study, we presented chromosome-level genome assemblies of P. pekinensis by using PacBio HiFi long reads and Hi-C technology. We assembled high-quality genome of 1.03 Gb with scaffold N50 length of 40.04 Mb, and a total of 98.31% of the assembled sequences were anchored to 24 chromosomes. BUSCO analysis revealed that the genome assembly has a high-level completeness of 98.35% gene coverage. A total of 26,542 protein-coding genes were predicted, of which 92.61% were functionally annotated. The phylogenetic analysis indicated that the lineage leading to P. pekinensis was diverged from the lineage to Megalobrama amblycephala approximately 7.6 million years ago. The high-quality genome assembly provide valuable resources for evolutionary study and genetic breeding of genus Parabramis.

摘要

团头鲂（Parabramis pekinensis）是一种广泛分布于亚洲的鲤科杂食性鱼类。在本研究中，我们利用PacBio HiFi长读长和Hi-C技术展示了团头鲂的染色体水平基因组组装。我们组装了一个高质量的1.03 Gb基因组，支架N50长度为40.04 Mb，并且总共98.31%的组装序列被锚定到24条染色体上。BUSCO分析表明，基因组组装具有98.35%的基因覆盖率的高水平完整性。总共预测了26,542个蛋白质编码基因，其中92.61%进行了功能注释。系统发育分析表明，导致团头鲂的谱系大约在760万年前与钝吻鲂（Megalobrama amblycephala）的谱系分化。高质量的基因组组装为团头鲂属的进化研究和遗传育种提供了有价值的资源。