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

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...

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Bibliographic Details
Published in:	Evolutionary bioinformatics online Vol. 20; p. 11769343241263230
Main Authors:	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
Format:	Journal Article
Language:	English
Published:	United States SAGE Publications 01-01-2024 SAGE Publishing
Subjects:	Original Research isomiRs arm usage microRNA non-coding RNA gene regulation
Online Access:	Get full text
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Summary:	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.
Bibliography:	ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23
ISSN:	1176-9343 1176-9343
DOI:	10.1177/11769343241263230