The persistence length and length per base of single-stranded DNA obtained from fluorescence correlation spectroscopy measurements using mean field theory

Qingjia Chi, Guixue Wang and Jiahuan Jiang

Physica A: Statistical Mechanics and its Applications, 2013, vol. 392, issue 5, 1072-1079

Abstract: A dynamical mean field theory is used to predict the end-monomer mean square displacement of single-stranded DNA and finally estimate two important parameters—the persistence length lp and the length per base ld. Both parameters are set free, and finally reach optimum values by fitting the theoretical data to the experimental data of Shusterman et al. [R. Shusterman, S. Alon, T. Gavrinyov, O. Krichevsky, Monomer dynamics in double- and single-stranded DNA polymers, Phys. Rev. Lett. 92 (2004) 048303]. Three optimization methods, global optimization, individual optimization and selected optimization are performed with the Monte Carlo method. All the optimization methods can faithfully reproduce the experimental data. In selected optimization for 2400 and 6700 bases ssDNA, lp=2.223nm and ld=0.676nm are obtained. The theoretical results show a larger persistence length for ssDNA than ordinary synthetic polymers, and the obtained length per base is larger than the reported value obtained from single molecule force measurements. The lp and ld obtained from mean field theory complement the current data previously measured for different salt concentrations in solution.

Keywords: Single-stranded DNA; Persistence length; Length per base; Mean square displacement; Mean field theory (search for similar items in EconPapers)
Date: 2013
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Citations: View citations in EconPapers (5)

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Persistent link: https://EconPapers.repec.org/RePEc:eee:phsmap:v:392:y:2013:i:5:p:1072-1079

DOI: 10.1016/j.physa.2012.09.022

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