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A review on nonlinear DNA physics

The study and the investigation of structural and dynamical properties of complex systems have attracted considerable interest among scientists in general and physicists and biologists in particular. The present review paper represents a broad overview of the research performed over the nonlinear dy...

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Autores principales: Chevizovich, Dalibor, Michieletto, Davide, Mvogo, Alain, Zakiryanov, Farit, Zdravković, Slobodan
Formato: Online Artículo Texto
Lenguaje:English
Publicado: The Royal Society 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7735367/
https://www.ncbi.nlm.nih.gov/pubmed/33391787
http://dx.doi.org/10.1098/rsos.200774
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author Chevizovich, Dalibor
Michieletto, Davide
Mvogo, Alain
Zakiryanov, Farit
Zdravković, Slobodan
author_facet Chevizovich, Dalibor
Michieletto, Davide
Mvogo, Alain
Zakiryanov, Farit
Zdravković, Slobodan
author_sort Chevizovich, Dalibor
collection PubMed
description The study and the investigation of structural and dynamical properties of complex systems have attracted considerable interest among scientists in general and physicists and biologists in particular. The present review paper represents a broad overview of the research performed over the nonlinear dynamics of DNA, devoted to some different aspects of DNA physics and including analytical, quantum and computational tools to understand nonlinear DNA physics. We review in detail the semi-discrete approximation within helicoidal Peyrard–Bishop model and show that localized modulated solitary waves, usually called breathers, can emerge and move along the DNA. Since living processes occur at submolecular level, we then discuss a quantum treatment to address the problem of how charge and energy are transported on DNA and how they may play an important role for the functioning of living cells. While this problem has attracted the attention of researchers for a long time, it is still poorly understood how charge and energy transport can occur at distances comparable to the size of macromolecules. Here, we review a theory based on the mechanism of ‘self-trapping’ of electrons due to their interaction with mechanical (thermal) oscillation of the DNA structure. We also describe recent computational models that have been developed to capture nonlinear mechanics of DNA in vitro and in vivo, possibly under topological constraints. Finally, we provide some conjectures on potential future directions for this field.
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spelling pubmed-77353672020-12-31 A review on nonlinear DNA physics Chevizovich, Dalibor Michieletto, Davide Mvogo, Alain Zakiryanov, Farit Zdravković, Slobodan R Soc Open Sci Physics and Biophysics The study and the investigation of structural and dynamical properties of complex systems have attracted considerable interest among scientists in general and physicists and biologists in particular. The present review paper represents a broad overview of the research performed over the nonlinear dynamics of DNA, devoted to some different aspects of DNA physics and including analytical, quantum and computational tools to understand nonlinear DNA physics. We review in detail the semi-discrete approximation within helicoidal Peyrard–Bishop model and show that localized modulated solitary waves, usually called breathers, can emerge and move along the DNA. Since living processes occur at submolecular level, we then discuss a quantum treatment to address the problem of how charge and energy are transported on DNA and how they may play an important role for the functioning of living cells. While this problem has attracted the attention of researchers for a long time, it is still poorly understood how charge and energy transport can occur at distances comparable to the size of macromolecules. Here, we review a theory based on the mechanism of ‘self-trapping’ of electrons due to their interaction with mechanical (thermal) oscillation of the DNA structure. We also describe recent computational models that have been developed to capture nonlinear mechanics of DNA in vitro and in vivo, possibly under topological constraints. Finally, we provide some conjectures on potential future directions for this field. The Royal Society 2020-11-25 /pmc/articles/PMC7735367/ /pubmed/33391787 http://dx.doi.org/10.1098/rsos.200774 Text en © 2020 The Authors. http://creativecommons.org/licenses/by/4.0/ http://creativecommons.org/licenses/by/4.0/http://creativecommons.org/licenses/by/4.0/Published by the Royal Society under the terms of the Creative Commons Attribution License http://creativecommons.org/licenses/by/4.0/, which permits unrestricted use, provided the original author and source are credited.
spellingShingle Physics and Biophysics
Chevizovich, Dalibor
Michieletto, Davide
Mvogo, Alain
Zakiryanov, Farit
Zdravković, Slobodan
A review on nonlinear DNA physics
title A review on nonlinear DNA physics
title_full A review on nonlinear DNA physics
title_fullStr A review on nonlinear DNA physics
title_full_unstemmed A review on nonlinear DNA physics
title_short A review on nonlinear DNA physics
title_sort review on nonlinear dna physics
topic Physics and Biophysics
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7735367/
https://www.ncbi.nlm.nih.gov/pubmed/33391787
http://dx.doi.org/10.1098/rsos.200774
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