Key Laboratory of Sichuan Province for Fishes Conservation and Utilization in the Upper Reaches of the Yangtze River, Neijiang Normal University, Neijiang, 641100, China.
College of Life Science, Neijiang Normal University, Neijiang, 641100, China.
Sci Data. 2024 Aug 24;11(1):924. doi: 10.1038/s41597-024-03789-w.
Endemic to the upper and middle reaches of the Yangtze River in China, elongate loach (Leptobotia elongata) has become a vulnerable species mainly due to overfishing and habitat destruction. Thus far, no genome data of this species are reported. As a result, lacking of such genomic information has restricted practical conservation and utilization of this economic fish. Here, we constructed chromosome-level genome assemblies for both male and female elongate loach by integration of MGI, PacBio HiFi and Hi-C sequencing technologies. Two primary genome assemblies (586-Mb and 589-Mb) were obtained for female and male fishes, respectively. Indeed, 98.22% and 98.61% of the contig sequences were anchored onto 25 chromosomes, with identification of 26.22% and 25.92% repeat contents in both assembled genomes. Meanwhile, a total of 25,215 and 25,253 protein-coding genes were annotated, of which 97.41% and 98.8% could be predicted with functions. Taken together, our genome data presented here provide a valuable genomic resource for in-depth evolutionary and functional research, as well as molecular breeding and conservation of this economic fish species.
分布于中国长江中上游的长薄鳅（Leptobotia elongata）已成为一种脆弱物种，主要原因是过度捕捞和栖息地破坏。迄今为止，尚未报道该物种的基因组数据。因此，缺乏这种基因组信息限制了对这种经济鱼类的实际保护和利用。在这里，我们通过整合 MGI、PacBio HiFi 和 Hi-C 测序技术，为雄性和雌性长薄鳅构建了染色体水平的基因组图谱。分别为雌性和雄性鱼类获得了两个主要的基因组图谱（586-Mb 和 589-Mb）。实际上，98.22%和 98.61%的拼接序列被锚定在 25 条染色体上，两个组装基因组中分别鉴定出 26.22%和 25.92%的重复序列含量。同时，共注释了 25215 个和 25253 个蛋白质编码基因，其中 97.41%和 98.8%的基因可以预测具有功能。总之，我们在这里提供的基因组数据为深入的进化和功能研究，以及该经济鱼类的分子育种和保护提供了有价值的基因组资源。
