On the origin, evolution, and maintenance of RNA editing.

IF 13.1 2区生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY

Nucleic Acids Research Pub Date : 2025-09-23 DOI:10.1093/nar/gkaf947

Yuange Duan,Qi Cao,Qiuhua Xie,Ling Ma,Wanzhi Cai,Hu Li

{"title":"On the origin, evolution, and maintenance of RNA editing.","authors":"Yuange Duan,Qi Cao,Qiuhua Xie,Ling Ma,Wanzhi Cai,Hu Li","doi":"10.1093/nar/gkaf947","DOIUrl":null,"url":null,"abstract":"A newly published review by Bendich and Rogers (The biological and evolutionary consequences of competition between DNA sequences that benefit the cell and DNA sequences that benefit themselves. Nucleic Acids Research2025;53:gkaf589.) discusses the origin of RNA editing as a defense against mobile genetic elements (MGEs) and points out that many recent reviews, including ours, failed to recognize this fundamental issue. In this article, we expand on this perspective by examining the mechanistic and theoretical gaps regarding whether RNA editing suppresses or tolerates TE proliferation. We highlight the relevance of constructive neutral evolution (CNE) theory, suggesting that regardless of whether the editing machinery has arisen via CNE, specific editing sites do exhibit CNE signals. Additionally, we explore why certain A-to-I recoding sites are selectively maintained without being replaced with genomic G, reinforcing their indispensable regulatory role. Taken together, while acknowledging the plausibility of the MGE-related origin, we advocate for a broader view of RNA editing that includes multiple fascinating functions like proteome diversification and mutation correction.","PeriodicalId":19471,"journal":{"name":"Nucleic Acids Research","volume":"35 1","pages":""},"PeriodicalIF":13.1000,"publicationDate":"2025-09-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Nucleic Acids Research","FirstCategoryId":"99","ListUrlMain":"https://doi.org/10.1093/nar/gkaf947","RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"BIOCHEMISTRY & MOLECULAR BIOLOGY","Score":null,"Total":0}

引用次数: 0

Abstract

A newly published review by Bendich and Rogers (The biological and evolutionary consequences of competition between DNA sequences that benefit the cell and DNA sequences that benefit themselves. Nucleic Acids Research2025;53:gkaf589.) discusses the origin of RNA editing as a defense against mobile genetic elements (MGEs) and points out that many recent reviews, including ours, failed to recognize this fundamental issue. In this article, we expand on this perspective by examining the mechanistic and theoretical gaps regarding whether RNA editing suppresses or tolerates TE proliferation. We highlight the relevance of constructive neutral evolution (CNE) theory, suggesting that regardless of whether the editing machinery has arisen via CNE, specific editing sites do exhibit CNE signals. Additionally, we explore why certain A-to-I recoding sites are selectively maintained without being replaced with genomic G, reinforcing their indispensable regulatory role. Taken together, while acknowledging the plausibility of the MGE-related origin, we advocate for a broader view of RNA editing that includes multiple fascinating functions like proteome diversification and mutation correction.

查看原文本刊更多论文

关于RNA编辑的起源、进化和维持。

本迪奇和罗杰斯最近发表的一篇综述（对细胞有益的DNA序列和对自身有益的DNA序列之间竞争的生物学和进化后果）。核酸研究2025；53:gkaf589.)讨论了RNA编辑作为对移动遗传元件（MGEs）的防御的起源，并指出最近的许多综述，包括我们的综述，未能认识到这一基本问题。在本文中，我们通过研究关于RNA编辑是否抑制或耐受TE增殖的机制和理论差距来扩展这一观点。我们强调了建设性中性进化（CNE）理论的相关性，表明无论编辑机制是否通过CNE产生，特定的编辑位点确实表现出CNE信号。此外，我们探讨了为什么某些A-to-I编码位点被选择性地维持而不被基因组G取代，从而加强了它们不可或缺的调节作用。综上所述，在承认mge相关起源的合理性的同时，我们主张更广泛地看待RNA编辑，包括多种迷人的功能，如蛋白质组多样化和突变纠正。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

求助全文

约1分钟内获得全文求助全文

来源期刊

Nucleic Acids Research 生物-生化与分子生物学

CiteScore

27.10

自引率

4.70%

发文量

1057

审稿时长

2 months

期刊介绍： Nucleic Acids Research (NAR) is a scientific journal that publishes research on various aspects of nucleic acids and proteins involved in nucleic acid metabolism and interactions. It covers areas such as chemistry and synthetic biology, computational biology, gene regulation, chromatin and epigenetics, genome integrity, repair and replication, genomics, molecular biology, nucleic acid enzymes, RNA, and structural biology. The journal also includes a Survey and Summary section for brief reviews. Additionally, each year, the first issue is dedicated to biological databases, and an issue in July focuses on web-based software resources for the biological community. Nucleic Acids Research is indexed by several services including Abstracts on Hygiene and Communicable Diseases, Animal Breeding Abstracts, Agricultural Engineering Abstracts, Agbiotech News and Information, BIOSIS Previews, CAB Abstracts, and EMBASE.