比较基因组分析揭示了昆虫 Adar 基因中适应性 A 到 I RNA 编辑的证据。

IF 2.9 3区 生物学 Q3 BIOCHEMISTRY & MOLECULAR BIOLOGY
Epigenetics Pub Date : 2024-12-01 Epub Date: 2024-03-25 DOI:10.1080/15592294.2024.2333665
Caiqing Zheng, Ling Ma, Fan Song, Li Tian, Wanzhi Cai, Hu Li, Yuange Duan
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引用次数: 0

摘要

尽管A-to-I RNA编辑会导致与A-to-G DNA突变类似的效应,但非同义RNA编辑(重新编码)被认为是通过 "表观遗传学 "调节蛋白质组多样性的时空方式赋予其适应性,从而避免基因组突变的多生物效应。最近发现的昆虫阿达尔基因中 Ser>Gly 自动编辑位点的进化轨迹表明,与不可编辑的密码子相比,可编辑的密码子具有选择性优势。然而,除了纯粹的观察之外,还缺乏定量方法来证明单个 RNA 编辑位点的适应性。我们对 113 个双翅目物种进行了基因组比较分析,重点研究了果蝇的 Adar Ser>Gly 自动编码位点。我们只发现一个物种在相应的位点上有衍生的 Gly,而且这一发生率明显低于全基因组的随机预期。这表明阿达尔 Ser>Gly 位点不太可能在进化过程中被基因组中的 G 所取代,从而表明可编辑状态比硬连接基因组等位基因更有优势。在基因 Syt1 的 Ile>Met 重编码中也观察到了类似的趋势。从进化的角度来看,我们建立了一种比较基因组学方法,用于定量证明单个编辑位点的适应性。在未来的功能研究中,应优先考虑这类适应性编辑位点。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Comparative genomic analyses reveal evidence for adaptive A-to-I RNA editing in insect Adar gene.

Although A-to-I RNA editing leads to similar effects to A-to-G DNA mutation, nonsynonymous RNA editing (recoding) is believed to confer its adaptiveness by 'epigenetically' regulating proteomic diversity in a temporospatial manner, avoiding the pleiotropic effect of genomic mutations. Recent discoveries on the evolutionary trajectory of Ser>Gly auto-editing site in insect Adar gene demonstrated a selective advantage to having an editable codon compared to uneditable ones. However, apart from pure observations, quantitative approaches for justifying the adaptiveness of individual RNA editing sites are still lacking. We performed a comparative genomic analysis on 113 Diptera species, focusing on the Adar Ser>Gly auto-recoding site in Drosophila. We only found one species having a derived Gly at the corresponding site, and this occurrence was significantly lower than genome-wide random expectation. This suggests that the Adar Ser>Gly site is unlikely to be genomically replaced with G during evolution, and thus indicating the advantage of editable status over hardwired genomic alleles. Similar trends were observed for the conserved Ile>Met recoding in gene Syt1. In the light of evolution, we established a comparative genomic approach for quantitatively justifying the adaptiveness of individual editing sites. Priority should be given to such adaptive editing sites in future functional studies.

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来源期刊
Epigenetics
Epigenetics 生物-生化与分子生物学
CiteScore
6.80
自引率
2.70%
发文量
82
审稿时长
3-8 weeks
期刊介绍: Epigenetics publishes peer-reviewed original research and review articles that provide an unprecedented forum where epigenetic mechanisms and their role in diverse biological processes can be revealed, shared, and discussed. Epigenetics research studies heritable changes in gene expression caused by mechanisms others than the modification of the DNA sequence. Epigenetics therefore plays critical roles in a variety of biological systems, diseases, and disciplines. Topics of interest include (but are not limited to): DNA methylation Nucleosome positioning and modification Gene silencing Imprinting Nuclear reprogramming Chromatin remodeling Non-coding RNA Non-histone chromosomal elements Dosage compensation Nuclear organization Epigenetic therapy and diagnostics Nutrition and environmental epigenetics Cancer epigenetics Neuroepigenetics
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