Wang Zhongyi, Ran Miling, Liu Xiaoshuai, Zhou Chuang, Song Zhaobin
Key Laboratory of Bio-Resources and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, China.
Observation and Research Station of Sichuan Province of Fish Resources and Environment in Upper Reaches of the Yangtze River, College of Life Sciences, Sichuan University, Chengdu, 610065, China.
Sci Data. 2025 May 30;12(1):914. doi: 10.1038/s41597-025-05248-6.
Rock carp (Procypris rabaudi) is an endemic fish species distributed in upper reaches of the Yangtze River. Due to anthropogenic influences, such as hydropower development, over-fishing and habitat destruction, the wild populations of the species have dramatically declined in recent decades. To inform effective conservation strategies, it is essential to elucidate the species' adaptive mechanisms through genomic analyses. The present study reported a high-quality genome assembly at the chromosome level of P. rabaudi. The final genome assembly was 1.66 Gb in length, with a contig N50 of 24.95 Mb and a scaffold N50 of 32.60 Mb, and was anchored to 50 chromosomes. The assembled genome achieved a BUSCO completeness score of 97.8%, with 45,784 protein-coding genes identified, of which 94.78% were functionally annotated in at least one protein database. Additionally, 1,305 gene families were found to be expanded, while 14,463 gene families showed contraction. The high-quality reference genome of P. rabaudi served as a valuable genetic resource, providing a foundation for the conservation of wild populations and the exploration of evolutionary mechanisms.
岩原鲤（Procypris rabaudi）是一种分布于长江上游的特有鱼类。由于水电开发、过度捕捞和栖息地破坏等人为影响，该物种的野生种群在近几十年中急剧减少。为制定有效的保护策略，通过基因组分析阐明该物种的适应机制至关重要。本研究报道了岩原鲤染色体水平的高质量基因组组装。最终的基因组组装长度为1.66 Gb，重叠群N50为24.95 Mb，支架N50为32.60 Mb，并锚定到50条染色体上。组装的基因组BUSCO完整性得分达到97.8%，鉴定出45,784个蛋白质编码基因，其中94.78%在至少一个蛋白质数据库中进行了功能注释。此外，发现1,305个基因家族发生了扩张，而14,463个基因家族出现了收缩。岩原鲤的高质量参考基因组作为一种宝贵的遗传资源，为野生种群的保护和进化机制的探索提供了基础。
