Letter

Single-Molecule Kinetics and Super-Resolution Microscopy by Fluorescence Imaging of Transient Binding on DNA Origami

Lehrstuhl für Bioelektronik, Physik-Department, Technische Universität München, James-Franck-Strasse 1, 85748 Garching, Germany
Angewandte Physik−Biophysik, Ludwig-Maximilians-Universität, Amalienstrasse 54, 80799 München, Germany
§ Center for NanoScience, Ludwig-Maximilians-Universität, Schellingstrasse 4, 80799 München, Germany
Physikalische und Theoretische Chemie - NanoBioScience, Technische Universität Braunschweig, Hans-Sommer-Strasse 10, 38106 Braunschweig, Germany
Nano Lett., 2010, 10 (11), pp 4756–4761
DOI: 10.1021/nl103427w
Publication Date (Web): October 19, 2010
Copyright © 2010 American Chemical Society
* To whom correspondence should be addressed, (F.C.S.) simmel@ph.tum.de or (P.T.) philip.tinnefeld@physik.uni-muenchen.de., #

These authors contributed equally to this work.

Abstract

Abstract Image

DNA origami is a powerful method for the programmable assembly of nanoscale molecular structures. For applications of these structures as functional biomaterials, the study of reaction kinetics and dynamic processes in real time and with high spatial resolution becomes increasingly important. We present a single-molecule assay for the study of binding and unbinding kinetics on DNA origami. We find that the kinetics of hybridization to single-stranded extensions on DNA origami is similar to isolated substrate-immobilized DNA with a slight position dependence on the origami. On the basis of the knowledge of the kinetics, we exploit reversible specific binding of labeled oligonucleotides to DNA nanostructures for PAINT (points accumulation for imaging in nanoscale topography) imaging with <30 nm resolution. The method is demonstrated for flat monomeric DNA structures as well as multimeric, ribbon-like DNA structures.

Detailed description of materials and methods and additional figures and tables. This material is available free of charge via the Internet at http://pubs.acs.org.

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Received 29 September 2010
Published online 19 October 2010
Published in print 10 November 2010
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