Literature DB >> 26986356

Translocation frequency of double-stranded DNA through a solid-state nanopore.

Nicholas A W Bell1, Murugappan Muthukumar1,2, Ulrich F Keyser1.   

Abstract

Solid-state nanopores are single-molecule sensors that measure changes in ionic current as charged polymers such as DNA pass through. Here, we present comprehensive experiments on the length, voltage, and salt dependence of the frequency of double-stranded DNA translocations through conical quartz nanopores with mean opening diameter 15 nm. We observe an entropic barrier-limited, length-dependent translocation frequency at 4M LiCl salt concentration and a drift-dominated, length-independent translocation frequency at 1M KCl salt concentration. These observations are described by a unifying convection-diffusion equation, which includes the contribution of an entropic barrier for polymer entry.

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Year:  2016        PMID: 26986356      PMCID: PMC4985240          DOI: 10.1103/PhysRevE.93.022401

Source DB:  PubMed          Journal:  Phys Rev E        ISSN: 2470-0045            Impact factor:   2.529


  29 in total

1.  Driven DNA transport into an asymmetric nanometer-scale pore.

Authors:  S E Henrickson; M Misakian; B Robertson; J J Kasianowicz
Journal:  Phys Rev Lett       Date:  2000-10-02       Impact factor: 9.161

2.  Determining the electrophoretic mobility and translational diffusion coefficients of DNA molecules in free solution.

Authors:  Earle Stellwagen; Nancy C Stellwagen
Journal:  Electrophoresis       Date:  2002-08       Impact factor: 3.535

3.  Translocation of double-strand DNA through a silicon oxide nanopore.

Authors:  A J Storm; J H Chen; H W Zandbergen; C Dekker
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2005-05-06

4.  Diffusion of isolated DNA molecules: dependence on length and topology.

Authors:  Rae M Robertson; Stephan Laib; Douglas E Smith
Journal:  Proc Natl Acad Sci U S A       Date:  2006-04-28       Impact factor: 11.205

5.  Effect of salt concentration on the electrophoretic speed of a polyelectrolyte through a nanopore.

Authors:  Sandip Ghosal
Journal:  Phys Rev Lett       Date:  2007-06-07       Impact factor: 9.161

6.  Scaling theory of polymer translocation into confined regions.

Authors:  Chiu Tai Andrew Wong; Murugappan Muthukumar
Journal:  Biophys J       Date:  2008-07-11       Impact factor: 4.033

7.  DNA translocation governed by interactions with solid-state nanopores.

Authors:  Meni Wanunu; Jason Sutin; Ben McNally; Andrew Chow; Amit Meller
Journal:  Biophys J       Date:  2008-08-15       Impact factor: 4.033

8.  Characterization of individual polynucleotide molecules using a membrane channel.

Authors:  J J Kasianowicz; E Brandin; D Branton; D W Deamer
Journal:  Proc Natl Acad Sci U S A       Date:  1996-11-26       Impact factor: 11.205

9.  Electrostatic focusing of unlabelled DNA into nanoscale pores using a salt gradient.

Authors:  Meni Wanunu; Will Morrison; Yitzhak Rabin; Alexander Y Grosberg; Amit Meller
Journal:  Nat Nanotechnol       Date:  2009-12-20       Impact factor: 39.213

Review 10.  The potential and challenges of nanopore sequencing.

Authors:  Daniel Branton; David W Deamer; Andre Marziali; Hagan Bayley; Steven A Benner; Thomas Butler; Massimiliano Di Ventra; Slaven Garaj; Andrew Hibbs; Xiaohua Huang; Stevan B Jovanovich; Predrag S Krstic; Stuart Lindsay; Xinsheng Sean Ling; Carlos H Mastrangelo; Amit Meller; John S Oliver; Yuriy V Pershin; J Michael Ramsey; Robert Riehn; Gautam V Soni; Vincent Tabard-Cossa; Meni Wanunu; Matthew Wiggin; Jeffery A Schloss
Journal:  Nat Biotechnol       Date:  2008-10       Impact factor: 54.908

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  9 in total

1.  Digitally encoded DNA nanostructures for multiplexed, single-molecule protein sensing with nanopores.

Authors:  Nicholas A W Bell; Ulrich F Keyser
Journal:  Nat Nanotechnol       Date:  2016-04-04       Impact factor: 39.213

2.  Direction- and Salt-Dependent Ionic Current Signatures for DNA Sensing with Asymmetric Nanopores.

Authors:  Kaikai Chen; Nicholas A W Bell; Jinglin Kong; Yu Tian; Ulrich F Keyser
Journal:  Biophys J       Date:  2017-02-28       Impact factor: 4.033

3.  Translocation of DNA through Ultrathin Nanoslits.

Authors:  Wayne Yang; Boya Radha; Adnan Choudhary; Yi You; Gangaiah Mettela; Andre K Geim; Aleksei Aksimentiev; Ashok Keerthi; Cees Dekker
Journal:  Adv Mater       Date:  2021-02-01       Impact factor: 30.849

4.  Ionic Current-Based Mapping of Short Sequence Motifs in Single DNA Molecules Using Solid-State Nanopores.

Authors:  Kaikai Chen; Matyas Juhasz; Felix Gularek; Elmar Weinhold; Yu Tian; Ulrich F Keyser; Nicholas A W Bell
Journal:  Nano Lett       Date:  2017-08-22       Impact factor: 11.189

5.  Dynamics of DNA Clogging in Hafnium Oxide Nanopores.

Authors:  Shiyu Li; Shuangshuang Zeng; Chenyu Wen; Laurent Barbe; Maria Tenje; Zhen Zhang; Klas Hjort; Shi-Li Zhang
Journal:  J Phys Chem B       Date:  2020-12-14       Impact factor: 2.991

6.  Quantifying Nanomolar Protein Concentrations Using Designed DNA Carriers and Solid-State Nanopores.

Authors:  Jinglin Kong; Nicholas A W Bell; Ulrich F Keyser
Journal:  Nano Lett       Date:  2016-05-03       Impact factor: 11.189

7.  Asymmetric dynamics of DNA entering and exiting a strongly confining nanopore.

Authors:  Nicholas A W Bell; Kaikai Chen; Sandip Ghosal; Maria Ricci; Ulrich F Keyser
Journal:  Nat Commun       Date:  2017-08-30       Impact factor: 14.919

8.  Single Molecule Trapping and Sensing Using Dual Nanopores Separated by a Zeptoliter Nanobridge.

Authors:  Paolo Cadinu; Binoy Paulose Nadappuram; Dominic J Lee; Jasmine Y Y Sze; Giulia Campolo; Yanjun Zhang; Andrew Shevchuk; Sylvain Ladame; Tim Albrecht; Yuri Korchev; Aleksandar P Ivanov; Joshua B Edel
Journal:  Nano Lett       Date:  2017-09-08       Impact factor: 11.189

9.  Length-independent DNA packing into nanopore zero-mode waveguides for low-input DNA sequencing.

Authors:  Joseph Larkin; Robert Y Henley; Vivek Jadhav; Jonas Korlach; Meni Wanunu
Journal:  Nat Nanotechnol       Date:  2017-09-11       Impact factor: 39.213

  9 in total

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