Cited by 269Force Microscopy Techniques and ApplicationsDNA and Nucleic Acid ChemistryRNA and protein synthesis mechanisms

Single-Molecule Measurements of the Persistence Length of Double-Stranded RNA

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Abels, J.A., Moreno-Herrero, F., van der Heijden, T., Dekker, C., Dekker, N.H.·2005·Biophysical Journal

Abstract

Over the past few years, it has become increasingly apparent that double-stranded RNA (dsRNA) plays a far greater role in the life cycle of a cell than previously expected. Numerous proteins, including helicases, polymerases, and nucleases interact specifically with the double helix of dsRNA. To understand the detailed nature of these dsRNA-protein interactions, the (bio)chemical, electrostatic, and mechanical properties of dsRNA need to be fully characterized. We present measurements of the persistence length of dsRNA using two different single-molecule techniques: magnetic tweezers and atomic force microscopy. We deduce a mean persistence length for long dsRNA molecules of 63.8 +/- 0.7 nm from force-extension measurements with the magnetic tweezers. We present atomic force microscopy images of dsRNA and demonstrate a new method for analyzing these, which yields an independent, yet consistent value of 62 +/- 2 nm for the persistence length. The introduction of these single-molecule techniques for dsRNA analysis opens the way for real-time, quantitative analysis of dsRNA-protein interactions.

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Crossref · 10.1529/biophysj.104.052811

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Authors
Abels, J. A., Moreno-Herrero, F., van der Heijden, T., Dekker, C., & Dekker, N. H.
Affiliations
Delft University of Technology (NL)
Corresponding author
Dekker, N.H.
Venue
Biophysical Journal
Publisher
Elsevier BV
Published
2005-04
Volume
88
Issue
4
Pages
2737-2744
ISSN
0006-3495 (ISSN-L)
OpenAlex
W2163558891
Cited by
269
References
34
Citations by year
2026: 9 · 2025: 15 · 2024: 15 · 2023: 9 · 2022: 20 · 2021: 11 · 2020: 12 · 2019: 8 · 2018: 22 · 2017: 13 · 2016: 19 · 2015: 13 · 2014: 16 · 2013: 11 · 2012: 12
FWCI
6.76
Type
journal article
Language
en
Open access
Locations
  • Biophysical Journal (publishedVersion)
  • PubMed Central (publishedVersion)
  • PubMed (publishedVersion)
  • Data Archiving and Networked Services (DANS) (submittedVersion, other-oa)
  • Research Repository (Delft University of Technology) (submittedVersion)
Funders
Nederlandse Organisatie voor Wetenschappelijk Onderzoek
Topics
  • Physical Sciences › Physics and Astronomy › Atomic and Molecular Physics, and Optics › Force Microscopy Techniques and Applications
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › DNA and Nucleic Acid Chemistry
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA and protein synthesis mechanisms
Keywords
double-stranded RNA, persistence length, magnetic tweezers, atomic force microscopy, helicase, nucleases, polymerase
MeSH terms
Biophysics, Buffers, DNA, Electrophoresis, Agar Gel, Kinetics, Magnetics, Models, Biological, Models, Theoretical, Protein Binding, RNA, DNA-Directed RNA Polymerases, RNA, Double-Stranded, Temperature, Transcription, Genetic, Viral Proteins, Models, Statistical, Polymerase Chain Reaction, Microscopy, Atomic Force, Ribonuclease III, Static Electricity

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