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Related Experiment Videos

Internal mechanical response of a polymer in solution.

Adam E Cohen1, W E Moerner

  • 1Department of Physics, Stanford University, Stanford, California 94305, USA. acohen@post.harvard.edu

Physical Review Letters
|May 16, 2007
PubMed
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We studied double-stranded (ds) DNA using an electrokinetic trap, revealing how density changes propagate along the molecule. We found internal hydrodynamic interactions, unlike previous studies on freely diffusing dsDNA.

Area of Science:

  • Biophysics
  • Physical Chemistry
  • Molecular Biology

Background:

  • Understanding the dynamics of double-stranded DNA (dsDNA) is crucial for molecular biology and nanotechnology.
  • Previous studies on freely diffusing dsDNA have provided insights into its behavior, but internal dynamics remain complex.
  • Investigating DNA's response to perturbations requires advanced single-molecule techniques.

Purpose of the Study:

  • To investigate the density-density response function of single, trapped dsDNA molecules.
  • To explore the propagation of density perturbations along the DNA strand.
  • To identify and characterize internal hydrodynamic interactions within dsDNA.

Main Methods:

  • Utilizing an anti-Brownian electrokinetic trap to immobilize fluorescently labeled dsDNA molecules.

Related Experiment Videos

  • Measuring density fluctuations to extract the density-density response function.
  • Analyzing molecular behavior over timescales greater than 4.5 ms and distances greater than 250 nm.

    • Main Results:

    • Observed a nonmonotonic radial dependence of the relaxation time for density perturbations.
    • Detected clear evidence of internal hydrodynamic interactions within the trapped dsDNA.
    • Demonstrated differences in dynamics compared to freely diffusing dsDNA.

    Conclusions:

    • Single-molecule trapping reveals complex internal dynamics of dsDNA.
    • Hydrodynamic interactions play a significant role in the behavior of confined DNA.
    • This study provides new insights into DNA's physical properties and interactions.