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Conformational Transitions and Stop-and-Go Nanopore Transport of Single Stranded DNA on Charged Graphene

Control over interactions with biomolecules holds the key to applications of graphene in biotechnology. One such application is nanopore sequencing, where a DNA molecule is electrophoretically driven through a graphene nanopore. Here, we investigate how interactions of single-stranded DNA and a grap...

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Detalles Bibliográficos
Autores principales: Shankla, Manish, Aksimentiev, Aleksei
Formato: Online Artículo Texto
Lenguaje:English
Publicado: 2014
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4236004/
https://www.ncbi.nlm.nih.gov/pubmed/25296960
http://dx.doi.org/10.1038/ncomms6171
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author Shankla, Manish
Aksimentiev, Aleksei
author_facet Shankla, Manish
Aksimentiev, Aleksei
author_sort Shankla, Manish
collection PubMed
description Control over interactions with biomolecules holds the key to applications of graphene in biotechnology. One such application is nanopore sequencing, where a DNA molecule is electrophoretically driven through a graphene nanopore. Here, we investigate how interactions of single-stranded DNA and a graphene membrane can be controlled by electrically biasing the membrane. The results of our molecular dynamics simulations suggest that electric charge on graphene can force a DNA homopolymer to adopt a range of strikingly different conformations. The conformational response is sensitive to even very subtle nucleotide modifications, such as DNA methylation. The speed of DNA motion through a graphene nanopore is strongly affected by the graphene charge: a positive charge accelerates the motion whereas a negative charge arrests it. As a possible application of the effect, we demonstrate stop-and-go transport of DNA controlled by the charge of graphene. Such on-demand transport of DNA is essential for realizing nanopore sequencing.
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spelling pubmed-42360042015-04-09 Conformational Transitions and Stop-and-Go Nanopore Transport of Single Stranded DNA on Charged Graphene Shankla, Manish Aksimentiev, Aleksei Nat Commun Article Control over interactions with biomolecules holds the key to applications of graphene in biotechnology. One such application is nanopore sequencing, where a DNA molecule is electrophoretically driven through a graphene nanopore. Here, we investigate how interactions of single-stranded DNA and a graphene membrane can be controlled by electrically biasing the membrane. The results of our molecular dynamics simulations suggest that electric charge on graphene can force a DNA homopolymer to adopt a range of strikingly different conformations. The conformational response is sensitive to even very subtle nucleotide modifications, such as DNA methylation. The speed of DNA motion through a graphene nanopore is strongly affected by the graphene charge: a positive charge accelerates the motion whereas a negative charge arrests it. As a possible application of the effect, we demonstrate stop-and-go transport of DNA controlled by the charge of graphene. Such on-demand transport of DNA is essential for realizing nanopore sequencing. 2014-10-09 /pmc/articles/PMC4236004/ /pubmed/25296960 http://dx.doi.org/10.1038/ncomms6171 Text en http://www.nature.com/authors/editorial_policies/license.html#terms Users may view, print, copy, and download text and data-mine the content in such documents, for the purposes of academic research, subject always to the full Conditions of use:http://www.nature.com/authors/editorial_policies/license.html#terms
spellingShingle Article
Shankla, Manish
Aksimentiev, Aleksei
Conformational Transitions and Stop-and-Go Nanopore Transport of Single Stranded DNA on Charged Graphene
title Conformational Transitions and Stop-and-Go Nanopore Transport of Single Stranded DNA on Charged Graphene
title_full Conformational Transitions and Stop-and-Go Nanopore Transport of Single Stranded DNA on Charged Graphene
title_fullStr Conformational Transitions and Stop-and-Go Nanopore Transport of Single Stranded DNA on Charged Graphene
title_full_unstemmed Conformational Transitions and Stop-and-Go Nanopore Transport of Single Stranded DNA on Charged Graphene
title_short Conformational Transitions and Stop-and-Go Nanopore Transport of Single Stranded DNA on Charged Graphene
title_sort conformational transitions and stop-and-go nanopore transport of single stranded dna on charged graphene
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4236004/
https://www.ncbi.nlm.nih.gov/pubmed/25296960
http://dx.doi.org/10.1038/ncomms6171
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