The length dependence of translational diffusion, free solution electrophoretic mobility, and electrophoretic tether force of rigid rod-like model duplex DNA

Biophysical Journal
S A AllisonD Stigter

Abstract

In this work, boundary element modeling is used to study the transport of highly charged rod-like model polyions of various length under a variety of different aqueous salt conditions. Transport properties considered include free solution electrophoretic mobility, translational diffusion, and the components of the "tether force" tensor. The model parameters are chosen to coincide with transport measurements of duplex DNA carried out under six different salt/temperature conditions. The focus of the analysis is on the length dependence of the free solution electrophoretic mobility. In a solution containing 0.04 M Tris-acetate buffer at 25 degrees C, calculated mobilities using straight rod models show a stronger dependence on fragment length than that observed experimentally. By carrying out model studies on curved rod models, it is concluded that the "leveling off" of mobility with fragment length is due, in part at least, to the finite curvature of DNA. Experimental mobilities of long duplex DNA in monovalent alkali salts are reasonably well explained once account is taken of long-range bending and the simplifying assumptions of the model studies.

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Citations

Apr 11, 2003·Journal of Colloid and Interface Science·Mikael RasmussonStaffan Wall
Dec 19, 2002·Biophysical Chemistry·Jennifer A DurantStuart A Allison
Feb 4, 2010·Journal of Molecular Biology·Philip SerwerWen Jiang
Aug 2, 2016·Langmuir : the ACS Journal of Surfaces and Colloids·Georg RempferJoost de Graaf
Dec 3, 2008·The Journal of Chemical Physics·O Gonzalez, J Li
Nov 21, 2007·The Journal of Chemical Physics·Ambarish Nag, R Stephen Berry
Jan 4, 2017·Langmuir : the ACS Journal of Surfaces and Colloids·Henriëtte E BakkerArnout Imhof
May 13, 2017·Soft Matter·Tobias RauChristian Holm
Jun 2, 2005·Journal of Colloid and Interface Science·Stuart A Allison, Yao Xin
Jul 15, 2016·Soft Matter·Kyongok Kang
Jun 10, 2010·Journal of Separation Science·Stuart A AllisonHerve Cottet
Apr 17, 2020·The Journal of Chemical Physics·Le Qiao, Gary W Slater
Jan 29, 2009·The Journal of Physical Chemistry. B·Sophie AugéMarc-André Delsuc
Sep 11, 2012·Langmuir : the ACS Journal of Surfaces and Colloids·Johan Buitenhuis
Oct 11, 2017·Langmuir : the ACS Journal of Surfaces and Colloids·Yusuke SatoMotoyoshi Kobayashi
May 27, 2004·Journal of the American Chemical Society·Flaminia Cesare MarincolaBertil Halle
Apr 18, 2008·The Journal of Physical Chemistry. B·Stuart AllisonDaphne Augustin

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