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Plasmonic Nanopores for Trapping, Controlling Displacement, and Sequencing of DNA

[Image: see text] 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. Us...

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Autores principales: Belkin, Maxim, Chao, Shu-Han, Jonsson, Magnus P., Dekker, Cees, Aksimentiev, Aleksei
Formato: Online Artículo Texto
Lenguaje:English
Publicado: American Chemical Society 2015
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4660389/
https://www.ncbi.nlm.nih.gov/pubmed/26401685
http://dx.doi.org/10.1021/acsnano.5b04173
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author Belkin, Maxim
Chao, Shu-Han
Jonsson, Magnus P.
Dekker, Cees
Aksimentiev, Aleksei
author_facet Belkin, Maxim
Chao, Shu-Han
Jonsson, Magnus P.
Dekker, Cees
Aksimentiev, Aleksei
author_sort Belkin, Maxim
collection PubMed
description [Image: see text] 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.
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spelling pubmed-46603892015-11-27 Plasmonic Nanopores for Trapping, Controlling Displacement, and Sequencing of DNA Belkin, Maxim Chao, Shu-Han Jonsson, Magnus P. Dekker, Cees Aksimentiev, Aleksei ACS Nano [Image: see text] 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. American Chemical Society 2015-09-24 2015-11-24 /pmc/articles/PMC4660389/ /pubmed/26401685 http://dx.doi.org/10.1021/acsnano.5b04173 Text en Copyright © 2015 American Chemical Society This is an open access article published under an ACS AuthorChoice License (http://pubs.acs.org/page/policy/authorchoice_termsofuse.html) , which permits copying and redistribution of the article or any adaptations for non-commercial purposes.
spellingShingle Belkin, Maxim
Chao, Shu-Han
Jonsson, Magnus P.
Dekker, Cees
Aksimentiev, Aleksei
Plasmonic Nanopores for Trapping, Controlling Displacement, and Sequencing of DNA
title Plasmonic Nanopores for Trapping, Controlling Displacement, and Sequencing of DNA
title_full Plasmonic Nanopores for Trapping, Controlling Displacement, and Sequencing of DNA
title_fullStr Plasmonic Nanopores for Trapping, Controlling Displacement, and Sequencing of DNA
title_full_unstemmed Plasmonic Nanopores for Trapping, Controlling Displacement, and Sequencing of DNA
title_short Plasmonic Nanopores for Trapping, Controlling Displacement, and Sequencing of DNA
title_sort plasmonic nanopores for trapping, controlling displacement, and sequencing of dna
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4660389/
https://www.ncbi.nlm.nih.gov/pubmed/26401685
http://dx.doi.org/10.1021/acsnano.5b04173
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