Publications

Publications Search

Search for publications by author
Search for publications by abstract keyword(s)

Analyses of mRNA structure dynamics identify embryonic gene regulatory programs

Abstract

RNA folding plays a crucial role in RNA function. However, knowledge of the global structure of the transcriptome is limited to cellular systems at steady state, thus hindering the understanding of RNA structure dynamics during biological transitions and how it influences gene function. Here, we characterized mRNA structure dynamics during zebrafish development. We observed that on a global level, translation guides structure rather than structure guiding translation. We detected a decrease in structure in translated regions and identified the ribosome as a major remodeler of RNA structure in vivo. In contrast, we found that 3' untranslated regions (UTRs) form highly folded structures in vivo, which can affect gene expression by modulating microRNA activity. Furthermore, dynamic 3'-UTR structures contain RNA-decay elements, such as the regulatory elements in nanog and ccna1, two genes encoding key maternal factors orchestrating the maternal-to-zygotic transition. These results reveal a central role of RNA structure dynamics in gene regulatory programs.

Type Journal
ISBN 1545-9985 (Electronic) 1545-9985 (Linking)
Authors Beaudoin, J. D.; Novoa, E. M.; Vejnar, C. E.; Yartseva, V.; Takacs, C. M.; Kellis, M.; Giraldez, A. J.
Responsible Garvan Author Dr Eva Maria Novoa Pardo
Publisher Name NAT STRUCT MOL BIOL
Published Date 2018-08-01
Published Volume 25
Published Issue 8
Published Pages 677-686
Status Published in-print
DOI 10.1038/s41594-018-0091-z
URL link to publisher's version http://www.ncbi.nlm.nih.gov/pubmed/30061596