DNA nanoswitches: a quantitative platform for gel-based biomolecular interaction analysis.

Mounir A Koussa, Ken Halvorsen, Andrew Ward, Wesley P Wong

Journal: Nature methods 2015;12(2):123-126

PMID: 25486062

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Abstract

We introduce a nanoscale experimental platform that enables kinetic and equilibrium measurements of a wide range of molecular interactions using a gel electrophoresis readout. Programmable, self-assembled DNA nanoswitches serve both as templates for positioning molecules and as sensitive, quantitative reporters of molecular association and dissociation. We demonstrated this low-cost, versatile, 'lab-on-a-molecule' system by characterizing ten different interactions, including a complex four-body interaction with five discernible states.

Address: Program in Neuroscience, Department of Neurobiology, Harvard Medical School, Boston, MA, United States.; The RNA Institute, University at Albany, Albany, NY, United States.; Program in Cellular and Molecular Medicine, Boston Children's Hospital, Boston, MA, United States.; Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA, United States.; Wyss Institute for Biologically Inspired Engineering, Harvard University, Boston, MA, United States.

DOI: 10.1038/nmeth.3209

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MeSH Terms: Biotin, DNA, Circular, DNA, Single-Stranded, Electrophoresis, Polyacrylamide Gel, Kinetics, Ligands, Microfluidics, Models, Biological, Nanotechnology, Protein Binding, Proteins, Streptavidin