Mao Weihua, Xu Ziyi, Liu Qi, Li Na, Liu Lu, Ren Biyan, Gao Tianxiang, Liu Chuan
Chongqing Key Laboratory of Big Data for Bio Intelligence, Chongqing University of Posts and Telecommunications, Chongqing 400065, China.
College of Resources and Environment, Southwest University, Chongqing 400716, China.
Animals (Basel). 2024 Nov 13;14(22):3257. doi: 10.3390/ani14223257.
, a deep-sea snake fish, is primarily found in the Indo-west Pacific region, including India, Korea, Japan, and the South China Sea. The taxonomic classification of based on morphological characteristics remains inaccurate and unclear. In this study, we utilized next-generation sequencing to generate comprehensive genomic data for . The estimated genome size of was 422.95 Mb, with a heterozygosity ratio of 1.02% and a sequence repeat ratio of 22.43%. Our analysis suggested that is diploid, and the draft genome assembly consists of 1,059,784 contigs with a contig N50 of 1942 bp. We identified a total of 444,728 simple sequence repeats in the genome of . Furthermore, we successfully assembled the complete mitochondrial genome (16,439 bp) of , which included 13 protein-coding genes, 22 tRNA genes and 2 rRNA genes. Phylogenetic analysis based on mitochondrial genomes revealed that is closely related to and , providing evidence that the family Cepolidae belongs to the order Priacanthiformes. Population size dynamics analysis indicated that experienced a bottleneck effect during the Pleistocene Glacial Epoch, likely due to the changes in glacial cycles and sea level fluctuations since ~800 Kya.
一种深海蛇鱼，主要分布在印度 - 西太平洋地区，包括印度、韩国、日本和中国南海。基于形态特征对其进行的分类学分类仍然不准确且不清晰。在本研究中，我们利用下一代测序技术为其生成了全面的基因组数据。该鱼的估计基因组大小为422.95兆碱基对，杂合率为1.02%，序列重复率为22.43%。我们的分析表明它是二倍体，基因组草图组装由1,059,784个重叠群组成，重叠群N50为1942碱基对。我们在其基因组中总共鉴定出444,728个简单序列重复。此外，我们成功组装了该鱼完整的线粒体基因组（16,439碱基对），其中包括13个蛋白质编码基因、22个tRNA基因和2个rRNA基因。基于线粒体基因组的系统发育分析表明，该鱼与[其他两种鱼名称未给出]关系密切，这为线鳚科属于大眼鲷目提供了证据。种群大小动态分析表明，该鱼在更新世冰期经历了瓶颈效应，可能是由于自约80万年前以来冰川周期和海平面波动的变化所致。
