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Crowding Effects during DNA Translocation in Nanopipettes.

Rand A Al-Waqfi1,2, Cengiz J Khan1, Oliver J Irving1

  • 1University of Birmingham, School of Chemistry, Edgbaston Campus, Birmingham B15 2TT, U.K.

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|April 23, 2025
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Summary
This summary is machine-generated.

Quartz nanopipettes enable advanced single-molecule sensing by exploiting DNA crowding effects. This allows for enhanced biophysical studies and integrated sample processing for biomolecular targets.

Keywords:
DNA translocationconfinementcrowdingnanopipettesnanoporesresistive-pulse sensingtransport

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Area of Science:

  • Biophysics
  • Nanotechnology
  • Analytical Chemistry

Background:

  • Quartz nanopipettes are emerging electric single-molecule sensors for biomolecules.
  • Their asymmetric environment causes direction-dependent ion and biopolymer transport.
  • Nanoconfinement offers unique capabilities for biophysical and bioanalytical studies.

Purpose of the Study:

  • To investigate DNA accumulation and crowding effects within quartz nanopipettes.
  • To explore the exploitation of these effects for single-molecule sensing applications.
  • To demonstrate an integrated sample processing and detection method using nanopipettes.

Main Methods:

  • Experimental analysis of DNA transport and accumulation in quartz nanopipettes under various conditions.
  • Utilizing biotin-functionalized DNA and streptavidin-modified gold nanoparticles as model targets.
  • Employing reverse translocation for the analysis of formed complexes.

Main Results:

  • Observed DNA accumulation within the nanopipette nanochannel, leading to crowding effects.
  • Demonstrated reversible blocking of DNA entry due to nanoconfinement.
  • Successfully utilized crowding and increased residence time for proof-of-concept detection of nanoparticle-DNA complexes.

Conclusions:

  • DNA crowding in nanopipettes enhances single-molecule detection capabilities.
  • Nanopipettes can integrate sample processing and detection for biomolecular analysis.
  • This approach advances the applicability of nanopipettes for complex bioanalytical studies.