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Related Experiment Video

Updated: Jul 12, 2026

Studying DNA Looping by Single-Molecule FRET

Studying DNA Looping by Single-Molecule FRET

Published on: June 28, 2014

Monomer dynamics in single- and double-stranded DNA coils.

J Tothova¹, B Brutovsky, V Lisy

¹Institute of Physics, P.J. Safarik University, Jesenna 5, 041 54 Kosice, Slovakia.

The European Physical Journal. E, Soft Matter

|September 4, 2007

Summary

This study refines polymer physics models for DNA dynamics. New data confirm that double- and single-stranded DNA predominantly follow Zimm-type kinetics, not Rouse kinetics, improving theoretical agreement.

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Area of Science:

Polymer Physics
Biophysics
Statistical Mechanics

Background:

Previous work interpreted polymer monomer kinetics using bead-spring theory and the Rouse-Zimm model.
Experimental data on DNA dynamics were recently corrected, necessitating a re-evaluation of theoretical fits.

Purpose of the Study:

To fit the Rouse-Zimm model to newly corrected experimental data for DNA dynamics.
To re-evaluate the kinetic behavior of double- and single-stranded DNA based on updated measurements.

Main Methods:

Utilized fluorescence correlation spectroscopy data.
Optimized the joint Rouse-Zimm polymer model to experimental measurements.
Analyzed monomer dynamics, including draining effects and scaling laws.

Main Results:

The updated data show significantly better agreement with the Rouse-Zimm theory than previous data.
Confirmed that double-stranded DNA (dsDNA) primarily exhibits Zimm-type kinetics.
Single-stranded DNA (ssDNA) also predominantly behaves as a Zimm polymer.

Conclusions:

The main conclusions from the prior study are upheld, though some polymer parameters have been refined.
The findings support the dominance of Zimm-type kinetics for both dsDNA and ssDNA, challenging prior proposals.
Analysis of draining effects and scaling laws (t^1/2 for Rouse, t^2/3 for Zimm) further supports the Zimm model's applicability.