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| 海南万泉河口尖鳍鲤线粒体基因组测序与结构特征分析 |
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蒙雨1, 宋一清1,2, 谢青颖1, 蔡杏伟3,4, 张清凤3,4, 董杨3,4, 李芳远3,4, 谢松光1,2, 申志新3,4
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1.海南大学海洋生物与水产学院, 海南 海口 570228;2.海南大学南海海洋资源利用国家重点实验室, 海南 海口 570228;3.海南省海洋与渔业科学院, 海南 海口 571126;4.海南淡水生物资源及生态环境保护研究中心, 海南 海口 571126
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| 摘要: |
| 为了解海南尖鳍鲤(Cyprinus acutidorsalis)线粒体基因组结构特征及其与鲤科(Cyprinidae)鱼类的进化关系, 本文通过二代测序获得海南万泉河口尖鳍鲤线粒体基因组全序列, 并对结构特征进行分析, 结果显示具有典型的环状闭环双链分子, 全长16 581 bp, 碱基组成为A (31.96%)、G(15.69%)、C(27.53%)和T(24.82%), 包含13个蛋白质编码基因(protein-coding genes, PCGs)、2个rRNA基因、22个tRNA基因和1个可变控制区D环。对碱基含量分析发现尖鳍鲤的碱基组成中具有较高AT含量的偏向性, 13个PCGs中有不少的偏好性密码子, 如CGA(RSCU>3.506)、CCA(RSCU>2.208)等。除tRNAGln、tRNAAla、tRNAAsn、tRNACys、tRNALeu(CUN)、tRNATyr、tRNASer(UCN)、tRNAPro和ND6外, 其余基因的排列于H链上。比较海南与广西海域尖鳍鲤线粒体基因组发现, 两者PCGs相似性在96%~100%, ND4、CO II、Cytb基因在起始位置、长度以及起始密码子存在不同程度的差异。另外, 将与尖鳍鲤同属的的鲤(C.carpio)、鲫(C.auratus)的13个PCGs进行两两比较表明, 3种鲤属鱼类的PCGs相似性在85%~99%。通过与其他鲤科鱼类的线粒体基因组序列构建系统发育树, 发现尖鳍鲤和鲤亲缘关系最近。本研究结果有助于理解不同鲤科鱼类的亲缘关系, 为尖鳍鲤线粒体进化分析和种质资源研究提供参考依据。 |
| 关键词: 尖鳍鲤(Cyprinus acutidorsalis) 线粒体基因组 系统发育 序列分析 |
| DOI：10.11759//hykx20230720001 |
| 分类号: |
| 基金项目:海南省科技专项项目(ZDYF2023SHFZ101,ZDYF2021XDNY299);海南省教育厅项目(Hnkyzc2022-4);海南大学科研启动基金项目(KYQD(ZR)21130) |
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| Mitochondrial genome sequencing and structural characteristic analysis of Cyprinus acutidorsalis from Wanquan Estuary, Hainan |
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MENG Yu1, SONG Yi-qing1,2, XIE Qing-ying1, CAI Xing-wei3,4, ZHANG Qing-feng3,4, DONG Yang3,4, LI Fang-yuan3,4, XIE Song-guang1,2, SHEN Zhi-xin3,4
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1.College of Marine Biology and Fisheries in Hainan University, Haikou 570228, China;2.State Key Laboratory of Marine Resources Utilization in South China Sea, Haikou 570228, China;3.Hainan Academy of Ocean and Fisheries Sciences, Haikou 571126, China;4.Hainan Freshwater Biological Resources and Ecological Environment Protection Research Center, Haikou 571226, China
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| Abstract: |
| In this study, the complete mitochondrial genome sequence of Cyprinus acutidorsalis from the Wanquan River Estuary of Hainan Province is obtained using second-generation sequencing. Their structural characteristics are also analyzed. The results show a typical circular closed-loop double-stranded molecule with a total length of 16 581 bp. The base composition is A (31.96%), G (15.69%), C (27.53%), and T (24.82%), which contains 13 protein-coding genes (PCGs), two rRNA genes, 22 tRNA genes, and one variable control region D ring. The base content analysis reveals that the base composition of the carp has a high AT content bias. Furthermore, the 13 PCGs have many favorable codons, such as CGA (RSCU > 3.506) and CCA (RSCU > 2.208). Except for the tRNAGln, tRNAAla, tRNAAsn, tRNACys, tRNALeu (CUN), tRNATyr, tRNASer (UCN), tRNAPro, and ND6, the remaining genes are arranged on the H chain. The mitochondrial genome comparison between Hainan and Guangxi depicts that the similarity of the PCGs between them is between 96% and 100%. ND4, CO II, and Cytb differ in their starting positions, lengths, and starting codons in varying degrees. In the pound-to-pair comparison of 13 PCGs from C. carpio and Carassius auratus, which belong to the same genus, the similarity of the PCGs among the three species of Cyprinus fish is between 85% and 99%. Constructing phylogenetic trees with the mitochondrial genome sequences of other cyprinids demonstrates the close relationship between C. acutidorsalis and C. carpio. The results will help us understand the relatives of different Cyprinidae and provide a reference for mitochondrial evolution analysis and germplasm resource research of C. acutidorsalis. |
| Key words: Cyprinus acutidorsalis mitochondrial genome phylogeny sequence analysis |
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