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椋鸟科线粒体基因组学:对密码子偏好、选择和系统发育的新见解。

Sturnidae Mitogenomics: Novel Insights into Codon Aversion, Selection, and Phylogeny.

作者信息

Han Shiyun, Ding Hengwu, Peng Hui, Dai Chenwei, Zhang Sijia, Yang Jianke, Gao Jinming, Kan Xianzhao

机构信息

Anhui Provincial Key Laboratory of the Conservation and Exploitation of Biological Resources, College of Life Sciences, Anhui Normal University, Wuhu 241000, China.

Teaching and Research Office of Evidence-Based Medicine, Wannan Medical College, Wuhu 241002, China.

出版信息

Animals (Basel). 2024 Sep 26;14(19):2777. doi: 10.3390/ani14192777.

DOI:10.3390/ani14192777
PMID:39409726
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11475038/
Abstract

The Sturnidae family comprises 123 recognized species in 35 genera. The taxa Mimidae and Buphagidae were formerly treated as subfamilies within Sturnidae. The phylogenetic relationships among the Sturnidae and related taxa (Sturnidae ) remain unresolved due to high rates of morphological change and concomitant morphological homoplasy. This study presents five new mitogenomes of Sturnidae and comprehensive mitogenomic analyses. The investigated mitogenomes exhibit an identical gene composition of 37 genes-including 13 protein-coding genes (PCGs), 2 rRNA genes, and 22 tRNA genes-and one control region (CR). The most important finding of this study is drawn from CAM analyses. The surprisingly unique motifs for each species provide a new direction for the molecular species identification of avian. Furthermore, the pervasiveness of the natural selection of PCGs is found in all examined species when analyzing their nucleotide composition and codon usage. We also determine the structures of mt-tRNA, mt-rRNA, and CR structures of Sturnidae . Lastly, our phylogenetic analyses not only well support the monophyly of Sturnidae, Mimidae, and Buphagidae, but also define nine stable subclades. Taken together, our findings will enable the further elucidation of the evolutionary relationships within Sturnidae .

摘要

椋鸟科包含35个属的123个已确认物种。嘲鸫科和牛椋鸟科分类单元以前被视为椋鸟科的亚科。由于形态变化率高以及随之而来的形态同塑性,椋鸟科及相关分类单元(椋鸟科)之间的系统发育关系仍未解决。本研究展示了五个新的椋鸟科线粒体基因组并进行了全面的线粒体基因组分析。所研究的线粒体基因组具有相同的37个基因组成,包括13个蛋白质编码基因(PCG)、2个rRNA基因和22个tRNA基因,以及一个控制区(CR)。本研究最重要的发现来自于密码子适应指数(CAM)分析。每个物种惊人独特的基序为鸟类的分子物种鉴定提供了新方向。此外,在分析PCG的核苷酸组成和密码子使用情况时,发现所有被检查物种中PCG的自然选择普遍存在。我们还确定了椋鸟科的线粒体tRNA、线粒体rRNA和CR结构。最后,我们的系统发育分析不仅有力地支持了椋鸟科、嘲鸫科和牛椋鸟科的单系性,还定义了九个稳定的亚分支。综上所述,我们的研究结果将有助于进一步阐明椋鸟科内部的进化关系。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b51d/11475038/e29412d91b82/animals-14-02777-g008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b51d/11475038/70dc8ac034ab/animals-14-02777-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b51d/11475038/dbc7185e0fe5/animals-14-02777-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b51d/11475038/91c33a1bc1de/animals-14-02777-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b51d/11475038/9a504de5bdcc/animals-14-02777-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b51d/11475038/d37a5b7a0dd4/animals-14-02777-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b51d/11475038/522a1990825a/animals-14-02777-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b51d/11475038/8944c225ad88/animals-14-02777-g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b51d/11475038/e29412d91b82/animals-14-02777-g008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b51d/11475038/70dc8ac034ab/animals-14-02777-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b51d/11475038/dbc7185e0fe5/animals-14-02777-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b51d/11475038/91c33a1bc1de/animals-14-02777-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b51d/11475038/9a504de5bdcc/animals-14-02777-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b51d/11475038/d37a5b7a0dd4/animals-14-02777-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b51d/11475038/522a1990825a/animals-14-02777-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b51d/11475038/8944c225ad88/animals-14-02777-g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b51d/11475038/e29412d91b82/animals-14-02777-g008.jpg

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