English

Unzipping DNA by a periodic force: Hysteresis loop area and its scaling

Soft Condensed Matter 2015-01-15 v2 Statistical Mechanics Biological Physics

Abstract

Using Monte Carlo simulations, we study the hysteresis in unzipping of a double stranded DNA whose ends are subjected to a time dependent periodic force with frequency (ω\omega) and amplitude (GG). For the static force, i.e., ω0\omega \to 0, the DNA is in equilibrium with no hysteresis. On increasing ω\omega, the area of the hysteresis loop initially increases and becomes maximum at frequency ω(G)\omega^{*}(G), which depends on the force amplitude GG. If the frequency is further increased, we find that for lower amplitudes the loop area decreases monotonically to zero, but for higher amplitudes it has an oscillatory component. The height of subsequent peaks decrease and finally the loop area becomes zero at very high frequencies. The number of peaks depends on the length of the DNA. We give a simple analysis to estimate the frequencies at which maxima and minima occurs in the loop area. We find that the area of the hysteresis loop scales as 1/ω1/\omega in high-frequency regime whereas, it scales as GαωβG^{\alpha} \omega^{\beta} with exponents α=1\alpha =1 and β=5/4\beta = 5/4 at low-frequencies. The values of the exponents α\alpha and β\beta are different from the exponents reported earlier based on the hysteresis of small hairpins.

Keywords

Cite

@article{arxiv.1409.8392,
  title  = {Unzipping DNA by a periodic force: Hysteresis loop area and its scaling},
  author = {Rajeev Kapri},
  journal= {arXiv preprint arXiv:1409.8392},
  year   = {2015}
}

Comments

9 pages, 6 figures, Published Version