Wang Chenghui, Chen Qin, Lu Guoqing, Xu Jiawei, Yang Qinling, Li Sifa
Key Laboratory of Aquatic Genetic Resources and Aquacultural Ecosystems, Ministry of Agriculture, Shanghai Ocean University, Shanghai, 200090, China.
Gene. 2008 Nov 15;424(1-2):96-101. doi: 10.1016/j.gene.2008.07.011. Epub 2008 Jul 18.
Genome comparison has shed light on many fields of both basic and applied research, including the study of species phylogeny. Grass carp (Ctenopharyngodon idella) belongs to Cyprinidae, the largest freshwater fish family; but which subfamily it belongs to remains a controversial issue. In this study, the complete mitochondrial genome (mitogenome) sequence of grass carp was determined and phylogenetic analyses of all mitochondrial protein-coding genes and a nuclear gene (RAG 2) were conducted to explore the evolutionary relationship of grass carp with other cyprinid species. The mitogenome of grass carp is 16,609 bp in length. As with most other vertebrates, it contains the same gene order and an identical number of genes or regions, including 13 protein-coding genes, two rRNA genes, 22 tRNA genes and one putative control region. Phylogenetic analyses using two different datasets (mitochondrial and nuclear) and three different computational algorithms (Bayesian, MP and ML) all revealed two distinct groups with high statistical support, indicating that Cyprininae and Leuciscinae are two separate, valid subfamilies. Importantly, our phylogenetic result provides strong molecular evidence in support of the placement of Ctenopharyngodon in Leuciscinae rather than in Cyprininae.
基因组比较为基础研究和应用研究的许多领域带来了启示，包括物种系统发育研究。草鱼（Ctenopharyngodon idella）属于鲤科，这是最大的淡水鱼科；但其所属的亚科仍然是一个有争议的问题。在本研究中，测定了草鱼的完整线粒体基因组（线粒体基因组）序列，并对所有线粒体蛋白质编码基因和一个核基因（RAG 2）进行了系统发育分析，以探讨草鱼与其他鲤科物种的进化关系。草鱼的线粒体基因组长度为16,609 bp。与大多数其他脊椎动物一样，它包含相同的基因顺序和相同数量的基因或区域，包括13个蛋白质编码基因、两个rRNA基因、22个tRNA基因和一个假定的控制区域。使用两个不同的数据集（线粒体和核）和三种不同的计算算法（贝叶斯、MP和ML）进行的系统发育分析均揭示了两个具有高统计支持的不同类群，表明鲤亚科和雅罗鱼亚科是两个独立的有效亚科。重要的是，我们的系统发育结果提供了有力的分子证据，支持将草鱼置于雅罗鱼亚科而非鲤亚科。
