Single-stranded DNA Curtains for Real-Time Single-Molecule Visualization of Protein-Nucleic Acid Interactions

Anal Chem. 2012 Sep 18;84(18):7607-12. doi: 10.1021/ac302117z. Epub 2012 Sep 6.

Abstract

Single-molecule imaging of biological macromolecules has dramatically impacted our understanding of many types of biochemical reactions. To facilitate these studies, we have established new strategies for anchoring and organizing DNA molecules on the surfaces of microfluidic sample chambers that are otherwise coated with fluid lipid bilayers. This previous work was reliant upon the use of double-stranded DNA, precluding access to information on biological processes involving single-stranded nucleic acid substrates. Here, we present procedures for aligning and visualizing single-stranded DNA molecules along the leading edges of nanofabricated barriers to lipid diffusion, in both "single-tethered" and "double-tethered" experimental formats. This new single-molecule approach provides long-awaited access to critical biological reactions involving single-stranded DNA binding proteins.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • DNA / metabolism*
  • DNA, Single-Stranded / chemistry
  • DNA, Single-Stranded / metabolism*
  • DNA-Binding Proteins / metabolism
  • Diffusion
  • Lipid Bilayers / chemistry
  • Lipid Bilayers / metabolism
  • Microfluidic Analytical Techniques
  • Microscopy*
  • Nucleic Acid Amplification Techniques
  • Protein Binding
  • Proteins / metabolism*
  • Replication Protein A / metabolism

Substances

  • DNA, Single-Stranded
  • DNA-Binding Proteins
  • Lipid Bilayers
  • Proteins
  • Replication Protein A
  • DNA