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Related Experiment Videos

Fast DNA translocation through a solid-state nanopore.

Arnold J Storm1, Cornelis Storm, Jianghua Chen

  • 1Kavli Institute of Nanoscience, Delft University of Technology, Lorentzweg 1, 22628 CJ Delft, The Netherlands.

Nano Letters
|September 24, 2005
PubMed
Summary
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DNA translocation through silicon oxide nanopores shows a nonlinear power-law scaling with length. This differs from protein pores and is explained by a model including hydrodynamic drag on the DNA outside the pore.

Area of Science:

  • Nanotechnology
  • Biophysics
  • Polymer Science

Background:

  • DNA translocation through nanopores is crucial for sequencing and analysis.
  • Previous studies on protein nanopores showed linear scaling of translocation time with DNA length.
  • Silicon oxide nanopores offer an alternative platform for DNA manipulation.

Purpose of the Study:

  • To investigate the translocation dynamics of double-strand DNA (dsDNA) through silicon oxide nanopores.
  • To compare the translocation behavior of dsDNA in silicon oxide nanopores with that in protein nanopores.
  • To develop a theoretical model explaining the observed translocation scaling.

Main Methods:

  • Electrophoretic driving of dsDNA molecules (6.5–97 kilobase pairs) through a 10 nm silicon oxide nanopore.

Related Experiment Videos

  • Experimental observation and measurement of DNA translocation times.
  • Development and application of a theoretical model incorporating hydrodynamic drag.

    • Main Results:

    • Observed a power-law scaling of translocation time with dsDNA length, with an experimentally determined exponent of 1.27.
    • Demonstrated that this nonlinear scaling differs significantly from the linear scaling seen in protein nanopores.
    • A theoretical model predicted a power-law scaling exponent of 1.22, aligning well with experimental data.

    Conclusions:

    • Hydrodynamic drag on the DNA segment outside the nanopore is the primary force opposing electrophoretic translocation in silicon oxide nanopores.
    • The nonlinear scaling observed is characteristic of dsDNA translocation in solid-state nanopores.
    • The developed model provides a robust explanation for the translocation dynamics in this system.