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PreprintCited by 4RNA and protein synthesis mechanismsRNA Research and SplicingProtein Structure and Dynamics

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Functional characterization of dynamic nascent RNA folding ensembles in real-time

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Gor, Kavan, Geissen, Eva Maria, Duss, Olivier·2025·Science Advances
DOI 10.1101/2025.10.23.684182

Preprint — published as 10.1126/sciadv.aec4037 · Paper page

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Abstract

RNA structure starts forming co-transcriptionally as the nascent RNA emerges from the RNA polymerase and is dynamically modulated by cellular factors. How individual RNA conformations, out of an ensemble of RNA molecules, relate to function is not well understood. Here, developing multi-color single-molecule fluorescence microscopy experiments, we track in real-time nascent RNA structure formation, functionally characterizing up to 8 different types of RNA molecules. We find that ribosomal proteins, RNA modification enzymes or antisense oligonucleotides specifically modulate a subset of the RNA folding classes. For example, we provide direct evidence that increased local RNA accessibility at specific sites correlates with the chaperoning activity of ribosomal proteins during ribosome assembly. These experiments provide a general framework to study how dynamic RNA folding, and misfolding, relates to function.

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Metadata

Authors
Gor, K., Geissen, E. M., & Duss, O.
Affiliations
European Molecular Biology Laboratory (DE)
Corresponding author
Duss, Olivier
ORCID
Venue
Science Advances
Publisher
openRxiv
Published
2025-10-23
Volume
12
Issue
12
Pages
eaec4037-eaec4037
ISSN
2375-2548 (ISSN-L)
DOI
10.1101/2025.10.23.684182
OpenAlex
W7139960558
Cited by
4
References
1
Citations by year
2026: 4
FWCI
8.17
Type
journal article
Language
en
Open access
Licence
Locations
  • Science Advances (publishedVersion, cc-by-nc)
  • bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by)
  • PubMed Central (publishedVersion, cc-by-nc)
  • PubMed (publishedVersion)
Funders
  • European Molecular Biology Laboratory
  • Deutsche Forschungsgemeinschaft (512397425)
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA and protein synthesis mechanisms
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA Research and Splicing
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Protein Structure and Dynamics
Keywords
ribosomal proteins, ribosome assembly, RNA accessibility, RNA-modifying enzymes, antisense oligonucleotides, RNA misfolding, single-molecule fluorescence microscopy, multicolor imaging
MeSH terms
Microscopy, Fluorescence, Nucleic Acid Conformation, Ribosomal Proteins, Ribosomes, RNA, RNA Folding

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