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淡水鱼类(鲤形目,鲤科)完整线粒体基因组:基因组特征与系统进化分析。

The Complete Mitochondrial Genome of the Freshwater Fish (Cypriniformes, Cyprinidae): Genome Characterization and Phylogenetic Analysis.

机构信息

School of Life Sciences, Guizhou Normal University, Guiyang 550025, China.

出版信息

Genes (Basel). 2023 Jun 6;14(6):1227. doi: 10.3390/genes14061227.

Abstract

In this study, we sequenced and characterized the complete mitochondrial genome (mitogenome) of . The mitogenome of was 16,602 bp in length with 13 protein-coding genes (PCGs), 22 transfer RNA (tRNA) genes, 2 ribosomal RNA (rRNA) genes, and a control region. The nucleotide composition of the mitogenome was 31.47% A, 24.07% T, 15.92% G, and 28.54% C, with a higher A + T content (55.54%) than G + C content (44.46%). All PCGs began with the standard ATG codon, except for the cytochrome c oxidase subunit 1 () gene and the NADH dehydrogenase 3 () gene with GTG, while six PCGs ended with incomplete termination codons (TA or T). The Ka/Ks ratios of 13 PCGs were all less than one, indicating that they were under purifying selection. All tRNA genes were folded into the typical cloverleaf secondary structures with the exception of , whose dihydrouridine (DHU) arm was absent. The phylogenetic trees showed that and were classified into three clades. There was a mosaic relationship between and . Moreover, the phylogenetic tree analysis showed that was the closest species to . This study can provide a useful resource for further phylogeny and population genetic analyses of and .

摘要

在这项研究中,我们对. 的完整线粒体基因组(mitogenome)进行了测序和特征分析。. 的线粒体基因组长度为 16602bp,包含 13 个蛋白编码基因(PCGs)、22 个转移 RNA(tRNA)基因、2 个核糖体 RNA(rRNA)基因和一个控制区。. 的线粒体基因组核苷酸组成 31.47%A、24.07%T、15.92%G 和 28.54%C,A+T 含量(55.54%)高于 G+C 含量(44.46%)。所有 PCGs 均以标准的 ATG 密码子起始,除细胞色素 c 氧化酶亚基 1(COX1)基因和 NADH 脱氢酶 3(ND3)基因以 GTG 起始外,其余均以 TAA 或 TAG 作为终止密码子。13 个 PCGs 的 Ka/Ks 比值均小于 1,表明它们受到纯化选择的影响。所有 tRNA 基因均折叠成典型的三叶草二级结构,除. 外,其双氢尿嘧啶(DHU)臂缺失。系统发育树显示,. 和. 分为三个分支。. 与. 之间存在镶嵌关系。此外,系统发育树分析表明,. 与. 最为接近。本研究可为进一步研究. 和. 的系统发育和群体遗传学提供有用资源。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f48b/10298739/e0ece5bd24e3/genes-14-01227-g001.jpg

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