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Optimized Assembly and Covalent Coupling of Single-Molecule DNA Origami Nanoarrays

Gopinath, Ashwin and Rothemund, Paul W. K. (2014) Optimized Assembly and Covalent Coupling of Single-Molecule DNA Origami Nanoarrays. ACS Nano, 8 (12). pp. 12030-12040. ISSN 1936-0851.

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Artificial DNA nanostructures, such as DNA origami, have great potential as templates for the bottom-up fabrication of both biological and nonbiological nanodevices at a resolution unachievable by conventional top-down approaches. However, because origami are synthesized in solution, origami-templated devices cannot easily be studied or integrated into larger on-chip architectures. Electrostatic self-assembly of origami onto lithographically defined binding sites on Si/SiO_2 substrates has been achieved, but conditions for optimal assembly have not been characterized, and the method requires high Mg^(2+) concentrations at which most devices aggregate. We present a quantitative study of parameters affecting origami placement, reproducibly achieving single-origami binding at 94 ± 4% of sites, with 90% of these origami having an orientation within ±10° of their target orientation. Further, we introduce two techniques for converting electrostatic DNA–surface bonds to covalent bonds, allowing origami arrays to be used under a wide variety of Mg^(2+)-free solution conditions.

Item Type:Article
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URLURL TypeDescription Information
Rothemund, Paul W. K.0000-0002-1653-3202
Additional Information:© 2014 American Chemical Society. ACS Editors' Choice - This is an open access article published under an ACS AuthorChoice License, which permits copying and redistribution of the article or any adaptations for non-commercial purposes. Received for review October 21, 2014 and accepted November 20, 2014. Publication Date (Web): November 20, 2014. We acknowledge financial support from the Army Research Office award W911NF-11-1-0117 and the U.S. National Science Foundation for Expeditions in Computing funding for the Molecular Programming Project (Nos. 0832824 and 1317694, and Office of Naval Research Award N000141410702. We acknowledge the gift of aminopropyl silatrane from G. Lovely. We thank S. Guo of Bruker Nano Surfaces for fast scan AFM movies. We thank D. Fygenson, J. Sorensen, T. del Bonis-O'Donnell, S. Woo, and members of Winfree lab for discussions. E-beam lithography was performed in the Kavli Nanoscience Institute at Caltech; nanoimprinting was performed in the UCSB Nanofabrication Facility.
Group:Kavli Nanoscience Institute
Funding AgencyGrant Number
Army Research Office (ARO)W911NF-11-1-0117
Office of Naval Research (ONR)N000141410702
Subject Keywords:DNA nanotechnology, directed self-assembly, single molecule, nanoarray, surface diffusion
Issue or Number:12
Record Number:CaltechAUTHORS:20141215-115723204
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Official Citation:Optimized Assembly and Covalent Coupling of Single-Molecule DNA Origami Nanoarrays Ashwin Gopinath and Paul W. K. Rothemund ACS Nano 2014 8 (12), 12030-12040
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:52814
Deposited By: Ruth Sustaita
Deposited On:15 Dec 2014 23:20
Last Modified:03 Oct 2019 07:44

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