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Design and characterization of programmable DNA nanotubes

Rothemund, Paul W. K. and Ekani-Nkodo, Axel and Papadakis, Nick and Kumar, Ashish and Fygenson, Deborah Kuchnir and Winfree, Erik (2004) Design and characterization of programmable DNA nanotubes. Journal of the American Chemical Society, 126 (50). pp. 16344-16352. ISSN 0002-7863. doi:10.1021/ja044319l.

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DNA self-assembly provides a programmable bottom-up approach for the synthesis of complex structures from nanoscale components. Although nanotubes are a fundamental form encountered in tile-based DNA self-assembly, the factors governing tube structure remain poorly understood. Here we report and characterize a new type of nanotube made from DNA double-crossover molecules (DAE-E tiles). Unmodified tubes range from 7 to 20 nm in diameter (4 to 10 tiles in circumference), grow as long as 50 μm with a persistence length of ~4 μm, and can be programmed to display a variety of patterns. A survey of modifications (1) confirms the importance of sticky-end stacking, (2) confirms the identity of the inside and outside faces of the tubes, and (3) identifies features of the tiles that profoundly affect the size and morphology of the tubes. Supported by these results, nanotube structure is explained by a simple model based on the geometry and energetics of B-form DNA.

Item Type:Article
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URLURL TypeDescription DOIArticle
Rothemund, Paul W. K.0000-0002-1653-3202
Winfree, Erik0000-0002-5899-7523
Additional Information:© 2004 American Chemical Society. Received September 17, 2004. Publication Date (Web): November 24, 2004. For useful discussions we thank Matthew Cook and Hideo Mabuchi. We thank the Caltech Molecular Materials Research Center for use of their AFM scanners. P.W.K.R. was supported by a Beckman Fellowship. This work was supported in part by National Science Foundation CAREER Grant No. 0093486 and MRSEC Award DMR00-80034, DARPA BioComputation Contract F30602-01-2-0561, NASA NRA2-37143, an Army Research Office/UCSB Institute for Collaborative Biotechnologies Grant, an Alfred P. Sloan Foundation Fellowship (D.K.F.), and a grant from GenTel Corporation.
Funding AgencyGrant Number
Arnold and Mabel Beckman FoundationUNSPECIFIED
Defense Advanced Research Projects Agency (DARPA)F30602-01-2-0561
Army Research Office (ARO)UNSPECIFIED
Alfred P. Sloan FoundationUNSPECIFIED
GenTel CorporationUNSPECIFIED
Issue or Number:50
Record Number:CaltechAUTHORS:20110309-104202496
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Official Citation:Design and Characterization of Programmable DNA Nanotubes Paul W. K. Rothemund, Axel Ekani-Nkodo, Nick Papadakis, Ashish Kumar, Deborah Kuchnir Fygenson, and Erik Winfree Journal of the American Chemical Society 2004 126 (50), 16344-16352
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:22765
Deposited By: Lucinda Acosta
Deposited On:21 Oct 2011 22:24
Last Modified:09 Nov 2021 16:07

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