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Plasmonic Nanopores for Trapping, Controlling Displacement, and Sequencing of DNA
University of Illinois, IL 61801 USA.
University of Illinois, IL 61801 USA.
Linköping University, Department of Science and Technology, Physics and Electronics. Linköping University, Faculty of Science & Engineering. Delft University of Technology, Netherlands.ORCID iD: 0000-0002-3002-3639
Delft University of Technology, Netherlands.
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2015 (English)In: ACS Nano, ISSN 1936-0851, E-ISSN 1936-086X, Vol. 9, no 11, 10598-10611 p.Article in journal (Refereed) PublishedText
Abstract [en]

With the aim of developing a DNA sequencing methodology, we theoretically examine the feasibility of using nanoplasmonics to control the translocation of a DNA molecule through a solid-state nanopore and to read off sequence information using surface-enhanced Raman spectroscopy. Using molecular dynamics simulations, we show that high-intensity optical hot spots produced by a metallic nanostructure can arrest DNA translocation through a solid-state nanopore, thus providing a physical knob for controlling the DNA speed. Switching the plasmonic field on and off can displace the DNA molecule in discrete steps, sequentially exposing neighboring fragments of a DNA molecule to the pore as well as to the plasmonic hot spot. Surface-enhanced Raman scattering from the exposed DNA fragments contains information about their nucleotide composition, possibly allowing the identification of the nucleotide sequence of a DNA molecule transported through the hot spot. The principles of plasmonic nanopore sequencing can be extended to detection of DNA modifications and RNA characterization.

Place, publisher, year, edition, pages
AMER CHEMICAL SOC , 2015. Vol. 9, no 11, 10598-10611 p.
Keyword [en]
nanopore; DNA sequencing; nanoplasmonics; molecular dynamics; plasmonic tweezers
National Category
Electrical Engineering, Electronic Engineering, Information Engineering
URN: urn:nbn:se:liu:diva-123826DOI: 10.1021/acsnano.5b04173ISI: 000365464800008PubMedID: 26401685OAI: diva2:892878

Funding Agencies|National Institutes of Health [R01-HG007406, P41-RR005969]; National Science Foundation [DMR-0955959]; Wenner-Gren Foundations; Netherlands Organisation for Scientific Research; XSEDE Allocation Grant [MCA05S028]

Available from: 2016-01-11 Created: 2016-01-11 Last updated: 2016-02-04

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