DNA confined in a two-dimensional strip geometry
Abstract
Semiflexible polymers characterized by the contour length and persistent length confined in a spatial region have been described as a series of ``{\em spherical blobs}'' and ``{\em deflecting lines}'' by de Gennes and Odjik for and respectively. Recently new intermediate regimes ({\em extended de Gennes} and {\em Gauss-de Gennes}) have been investigated by Tree {\em et al.} [Phys. Rev. Lett. {\bf 110}, 208103 (2013)]. In this letter we derive scaling relations to characterize these transitions in terms of universal scaled fluctuations in -dimension as a function of , and , and show that the Gauss-de Gennes regime is absent and extended de Gennes regime is vanishingly small for polymers confined in a 2D strip. We validate our claim by extensive Brownian dynamics (BD) simulation which also reveals that the prefactor used to describe the chain extension in the Odjik limit is independent of physical dimension and is the same as previously found by Yang {\em et al.}[Y. Yang, T. W. Burkhardt, G. Gompper, Phys. Rev. E {\bf 76}, 011804 (2007)]. Our studies are relevant for optical maps of DNA stretched inside a nano-strip.
Keywords
Cite
@article{arxiv.1312.1298,
title = {DNA confined in a two-dimensional strip geometry},
author = {Aiqun Huang and Aniket Bhattacharya},
journal= {arXiv preprint arXiv:1312.1298},
year = {2015}
}
Comments
6 pages, 4 figures