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微小RNA转录组揭示斑马鱼个体发育过程中罕见及物种特异性臂转换事件的普遍性。

MicroRNA Transcriptomes Reveal Prevalence of Rare and Species-Specific Arm Switching Events During Zebrafish Ontogenesis.

作者信息

de Oliveira Arthur Casulli, Bovolenta Luiz Augusto, Figueiredo Lucas, Ribeiro Amanda De Oliveira, Pereira Beatriz Jacinto Alves, de Almeida Talita Roberto Aleixo, Campos Vinicius Farias, Patton James G, Pinhal Danillo

机构信息

Department of Chemical and Biological Sciences, Institute of Biosciences of Botucatu, São Paulo State University-UNESP, Botucatu, São Paulo, Brazil.

Department of Structural and Functional Biology, Institute of Biosciences of Botucatu, São Paulo State University-UNESP, Botucatu, São Paulo, Brazil.

出版信息

Evol Bioinform Online. 2024 Jul 24;20:11769343241263230. doi: 10.1177/11769343241263230. eCollection 2024.

DOI:10.1177/11769343241263230
PMID:39055772
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11271096/
Abstract

In metazoans, microRNAs (miRNAs) are essential regulators of gene expression, affecting critical cellular processes from differentiation and proliferation, to homeostasis. During miRNA biogenesis, the miRNA strand that loads onto the RNA-induced Silencing Complex (RISC) can vary, leading to changes in gene targeting and modulation of biological pathways. To investigate the impact of these "arm switching" events on gene regulation, we analyzed a diverse range of tissues and developmental stages in zebrafish by comparing 5p and 3p arms accumulation dynamics between embryonic developmental stages, adult tissues, and sexes. We also compared variable arm usage patterns observed in zebrafish to other vertebrates including arm switching data from fish, birds, and mammals. Our comprehensive analysis revealed that variable arm usage events predominantly take place during embryonic development. It is also noteworthy that isomiR occurrence correlates to changes in arm selection evidencing an important role of microRNA distinct isoforms in reinforcing and modifying gene regulation by promoting dynamics switches on miRNA 5p and 3p arms accumulation. Our results shed new light on the emergence and coordination of gene expression regulation and pave the way for future investigations in this field.

摘要

在多细胞动物中，微小RNA（miRNA）是基因表达的重要调节因子，影响从分化、增殖到体内平衡等关键细胞过程。在miRNA生物合成过程中，加载到RNA诱导沉默复合体（RISC）上的miRNA链可能会有所不同，从而导致基因靶向的变化和生物途径的调控。为了研究这些“臂转换”事件对基因调控的影响，我们通过比较斑马鱼胚胎发育阶段、成体组织和不同性别之间5p和3p臂的积累动态，分析了斑马鱼多种组织和发育阶段的情况。我们还将在斑马鱼中观察到的可变臂使用模式与其他脊椎动物进行了比较，包括来自鱼类、鸟类和哺乳动物的臂转换数据。我们的综合分析表明，可变臂使用事件主要发生在胚胎发育期间。同样值得注意的是，异源miRNA的出现与臂选择的变化相关，这证明了微小RNA不同异构体通过促进miRNA 5p和3p臂积累的动态转换，在加强和修饰基因调控中发挥重要作用。我们的研究结果为基因表达调控的出现和协调提供了新的线索，并为该领域的未来研究铺平了道路。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d171/11271096/b6947383d9f5/10.1177_11769343241263230-fig6.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d171/11271096/1bfc346ab228/10.1177_11769343241263230-fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d171/11271096/4bb47ccd7004/10.1177_11769343241263230-fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d171/11271096/7573dccce1ed/10.1177_11769343241263230-fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d171/11271096/6ac8aad95681/10.1177_11769343241263230-fig4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d171/11271096/452f49588e6b/10.1177_11769343241263230-fig5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d171/11271096/b6947383d9f5/10.1177_11769343241263230-fig6.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d171/11271096/1bfc346ab228/10.1177_11769343241263230-fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d171/11271096/4bb47ccd7004/10.1177_11769343241263230-fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d171/11271096/7573dccce1ed/10.1177_11769343241263230-fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d171/11271096/6ac8aad95681/10.1177_11769343241263230-fig4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d171/11271096/452f49588e6b/10.1177_11769343241263230-fig5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d171/11271096/b6947383d9f5/10.1177_11769343241263230-fig6.jpg

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