Soliton Propagation in Homogeneous and Inhomogeneous Models for DNA Torsion Dynamics

DOI

10.1142/S1402925111001544How to use a DOI?

Keywords

Nonlinear mechanical models of DNA; soliton propagation in DNA chains

Abstract

The existence of solitonic excitations is a generic feature of a broad class of homogeneous models for nonlinear DNA internal torsional dynamics, but many properties of solitonic propagation depend on the actual model one is considering. In this paper we perform a detailed and comparative numerical investigation of the profiles and time evolution of solitons for two different models, the Yakushevich one and the more recent "composite" model of [1], and for two different choices of the potential describing the pairing interaction between bases (harmonic and Morse potential). We consider not only homogeneous DNA chains but also inhomogeneous ones (with sequence of bases corresponding to a real organism, the Human Adenovirus 2). We show that twist solitons can propagate in inhomogeneous chains over biologically significant distances. It is also shown that stable soliton propagation is possible for inhomogeneous chains when dissipation and an external force are present. On a more general level, our results indicate that solitonic propagation can take place in highly inhomogeneous nonlinear media.

Copyright

© 2011 The Authors. Published by Atlantis Press and Taylor & Francis

Open Access

This is an open access article distributed under the CC BY-NC 4.0 license (http://creativecommons.org/licenses/by-nc/4.0/).

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TY  - JOUR
AU  - Mariano Cadoni
AU  - Roberto de Leo
AU  - Sergio Demelio
PY  - 2021
DA  - 2021/01/07
TI  - Soliton Propagation in Homogeneous and Inhomogeneous Models for DNA Torsion Dynamics
JO  - Journal of Nonlinear Mathematical Physics
SP  - 287
EP  - 319
VL  - 18
IS  - Supplement 2
SN  - 1776-0852
UR  - https://doi.org/10.1142/S1402925111001544
DO  - 10.1142/S1402925111001544
ID  - Cadoni2021
ER  -