Theoretical models for single-molecule DNA and RNA experiments: from elasticity to unzipping

Simona Cocco; John F. Marko; Rémi Monasson

doi:10.1016/S1631-0705(02)01345-2

Biophysique à l'échelle de la molécule unique/Single molecule biophysics

Theoretical models for single-molecule DNA and RNA experiments: from elasticity to unzipping
[Modélisation théorique des expériences de molécules uniques sur l'ADN et l'ARN : de l'élasticité au dégraffage des bases]

Simona Cocco ¹ ; John F. Marko ² ; Rémi Monasson ³

¹ CNRS–Laboratoire de dynamique des fluides complexes, 3, rue de l'Université, 67000 Strasbourg, France
² Department of Physics, The University of Illinois at Chicago, 845 W. Taylor St., Chicago, IL 60607, USA
³ CNRS–Laboratoire de physique théorique de l'ENS, 24, rue Lhomond, 75005 Paris, France

Comptes Rendus. Physique, Volume 3 (2002) no. 5, pp. 569-584.

Résumé
Abstract

Les travaux théoriques portant sur les expériences sur molécules uniques sont ici passés en revue. Tout d'abord, nous introduisons les modèles simples de polymères élastiques. Ensuite, nous expliquons comment ces modèles peuvent être utilisés pour interpréter les mesures de force-extension effectuées sur une molécule unique d'ADN (simple brin ou double brin), mesures qui mettent en évidence tantôt le caractère élastique de cette molécule, tantôt des transitions structurelles brutales. Dans une troisième partie, nous montrons qu'en associant les propriétes élastiques des brins d'acides nucléiques à une description de leurs interactions d'appariement, l'essentiel de la phénomènologie et de la cinétique de dégraffage de l'ARN et l'ADN peut être expliqué.

We review statistical-mechanical theories of single-molecule micromanipulation experiments on nucleic acids. Firstly, models for describing polymer elasticity are introduced. We then review how these models are used to interpret single-molecule force-extension experiments on single-stranded and double-stranded DNA. Depending on the force and the molecules used, both smooth elastic behavior and abrupt structural transitions are observed. Thirdly, we show how combining the elasticity of two single nucleic acid strands with a description of the base-pairing interactions between them explains much of the phenomenology and kinetics of RNA and DNA ‘unzipping’ experiments.

Reçu le : 2002-03-28
Accepté le : 2002-05-15
Publié le : 2002-01-01

DOI : 10.1016/S1631-0705(02)01345-2

Keywords: micromanipulation, polymer elasticity, DNA, RNAs
Mot clés : micromanipulation, élasticité des polymères, ADN, ARNs

Affiliations des auteurs :

Simona Cocco ¹ ; John F. Marko ² ; Rémi Monasson ³

¹ CNRS–Laboratoire de dynamique des fluides complexes, 3, rue de l'Université, 67000 Strasbourg, France
² Department of Physics, The University of Illinois at Chicago, 845 W. Taylor St., Chicago, IL 60607, USA
³ CNRS–Laboratoire de physique théorique de l'ENS, 24, rue Lhomond, 75005 Paris, France

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     title = {Theoretical models for single-molecule {DNA} and {RNA} experiments: from elasticity to unzipping},
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Simona Cocco; John F. Marko; Rémi Monasson. Theoretical models for single-molecule DNA and RNA experiments: from elasticity to unzipping. Comptes Rendus. Physique, Volume 3 (2002) no. 5, pp. 569-584. doi : 10.1016/S1631-0705(02)01345-2. https://comptes-rendus.academie-sciences.fr/physique/articles/10.1016/S1631-0705(02)01345-2/

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