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Molecules 2015, 20(9), 17645-17658; doi:10.3390/molecules200917645

Comparative Incorporation of PNA into DNA Nanostructures

1
Department of Chemistry, Duke University, 124 Science Drive, Durham, NC 27708-0354, USA
2
Department of Chemistry, Carnegie Mellon University, Pittsburgh, PA 15213, USA
3
Department of Materials Science and Engineering, North Carolina State University, 911 Partners Way, Raleigh, NC 27695-7907, USA
*
Authors to whom correspondence should be addressed.
Academic Editor: Ramon Eritja
Received: 6 August 2015 / Revised: 13 September 2015 / Accepted: 21 September 2015 / Published: 23 September 2015
(This article belongs to the Special Issue Frontiers in Nucleic Acid Chemistry)
View Full-Text   |   Download PDF [2450 KB, uploaded 23 September 2015]   |  

Abstract

DNA has shown great promise as a building material for self-assembling nanoscale structures. To further develop the potential of this technology, more methods are needed for functionalizing DNA-based nanostructures to increase their chemical diversity. Peptide nucleic acid (PNA) holds great promise for realizing this goal, as it conveniently allows for inclusion of both amino acids and peptides in nucleic acid-based structures. In this work, we explored incorporation of a positively charged PNA within DNA nanostructures. We investigated the efficiency of annealing a lysine-containing PNA probe with complementary, single-stranded DNA sequences within nanostructures, as well as the efficiency of duplex invasion and its dependence on salt concentration. Our results show that PNA allows for toehold-free strand displacement and that incorporation yield depends critically on binding site geometry. These results provide guidance for the design of PNA binding sites on nucleic acid nanostructures with an eye towards optimizing fabrication yield. View Full-Text
Keywords: peptide nucleic acid; oligonucleotide conjugates; modified oligonucleotides; DNA nanobiotechnology; nanomaterials peptide nucleic acid; oligonucleotide conjugates; modified oligonucleotides; DNA nanobiotechnology; nanomaterials
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This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. (CC BY 4.0).

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MDPI and ACS Style

Pedersen, R.O.; Kong, J.; Achim, C.; LaBean, T.H. Comparative Incorporation of PNA into DNA Nanostructures. Molecules 2015, 20, 17645-17658.

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