Working Paper Article Version 1 This version is not peer-reviewed

Synchronized Oscillations in Double-Helix B-DNA Molecules with Mirror-Symmetric Codons

Version 1 : Received: 2 January 2021 / Approved: 4 January 2021 / Online: 4 January 2021 (16:35:40 CET)

How to cite: Maciá, E. Synchronized Oscillations in Double-Helix B-DNA Molecules with Mirror-Symmetric Codons. Preprints 2021, 2021010063 Maciá, E. Synchronized Oscillations in Double-Helix B-DNA Molecules with Mirror-Symmetric Codons. Preprints 2021, 2021010063

Abstract

A fully analytical treatment of the base-pair and codon dynamics in double-stranded DNA molecules is introduced, by means of a realistic treatment which considers different mass values for G, A, T, and C nucleotides and takes into account the intrinsic three-dimensional, helicoidal geometry of DNA in terms of a Hamitonian in cylindrical coordinates. Within the framework of the Peyrard-Dauxois-Bishop model we consider the coupling between stretching and stacking radial oscillations as well as the twisting motion of each base pair around the helix axis. By comparing the linearized dynamical equations for the angular and radial variables when going from the bp local scale to the longer triplet codon scale, we report an underlying hierarchical symmetry. The existence of synchronized collective oscillations of the base-pairs and their related codon triplet units are disclosed from the study of their coupled dynamical equations. The possible biological role of these correlated, long-range oscillation effects in double standed DNA molecules containing mirror-symmetric codons of the form XXX, XX’X, X’XX’, YXY, and XYX is discussed in terms of the dynamical equations solutions and their related dispersion relations.

Subject Areas

double-stranded DNA; DNA dynamical models; correlated oscillations in macromolecules; epigenetic changes

Comments (0)

We encourage comments and feedback from a broad range of readers. See criteria for comments and our diversity statement.

Leave a public comment
Send a private comment to the author(s)
Views 0
Downloads 0
Comments 0
Metrics 0


×
Alerts
Notify me about updates to this article or when a peer-reviewed version is published.
We use cookies on our website to ensure you get the best experience.
Read more about our cookies here.