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Literature DB >> 24483704

Escape of DNA from a weakly biased thin nanopore: experimental evidence for a universal diffusive behavior.

David P Hoogerheide¹, Fernando Albertorio¹, Jene A Golovchenko².

Abstract

We report experimental escape time distributions of double-stranded DNA molecules initially threaded halfway through a thin solid-state nanopore. We find a universal behavior of the escape time distributions consistent with a one-dimensional first passage formulation notwithstanding the geometry of the experiment and the potential role of complex molecule-liquid-pore interactions. Diffusion constants that depend on the molecule length and pore size are determined. Also discussed are the practical implications of long time diffusive molecule trapping in the nanopore.

Entities: Chemical Gene

Mesh：

Substances：
DNA

Year: 2013 PMID： 24483704 PMCID： PMC4085674 DOI： 10.1103/PhysRevLett.111.248301

Source DB: PubMed Journal: Phys Rev Lett ISSN： 0031-9007 Impact factor: 9.161

26 in total

1. Driven polymer translocation through a narrow pore.

Authors: D K Lubensky; D R Nelson
Journal: Biophys J Date: 1999-10 Impact factor: 4.033

2. Polymer Translocation through a Pore in a Membrane.

Authors:
Journal: Phys Rev Lett Date: 1996-07-22 Impact factor: 9.161

3. Ion-beam sculpting at nanometre length scales.

Authors: J Li; D Stein; C McMullan; D Branton; M J Aziz; J A Golovchenko
Journal: Nature Date: 2001-07-12 Impact factor: 49.962

4. DNA conformation and base number simultaneously determined in a nanopore.

Authors: Daniel Fologea; Eric Brandin; James Uplinger; Daniel Branton; Jiali Li
Journal: Electrophoresis Date: 2007-09 Impact factor: 3.535

5. Recapturing and trapping single molecules with a solid-state nanopore.

Authors: Marc Gershow; J A Golovchenko
Journal: Nat Nanotechnol Date: 2007-12-02 Impact factor: 39.213

Review 6. Single-polymer dynamics under constraints: scaling theory and computer experiment.

Authors: Andrey Milchev
Journal: J Phys Condens Matter Date: 2011-02-18 Impact factor: 2.333

7. 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

8. Effective driving force applied on DNA inside a solid-state nanopore.

Authors: Bo Lu; David P Hoogerheide; Qing Zhao; Dapeng Yu
Journal: Phys Rev E Stat Nonlin Soft Matter Phys Date: 2012-07-23

9. Monitoring the escape of DNA from a nanopore using an alternating current signal.

Authors: Daniel K Lathrop; Eric N Ervin; Geoffrey A Barrall; Michael G Keehan; Ryuji Kawano; Michael A Krupka; Henry S White; Andrew H Hibbs
Journal: J Am Chem Soc Date: 2010-02-17 Impact factor: 15.419

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

9 in total

Escape of DNA from a weakly biased thin nanopore: experimental evidence for a universal diffusive behavior.

1. Driven polymer translocation through a narrow pore.

2. Polymer Translocation through a Pore in a Membrane.

3. Ion-beam sculpting at nanometre length scales.

4. DNA conformation and base number simultaneously determined in a nanopore.

5. Recapturing and trapping single molecules with a solid-state nanopore.

Review 6. Single-polymer dynamics under constraints: scaling theory and computer experiment.

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

8. Effective driving force applied on DNA inside a solid-state nanopore.

9. Monitoring the escape of DNA from a nanopore using an alternating current signal.

Review 10. The potential and challenges of nanopore sequencing.

1. Thermal Motion of DNA in an MspA Pore.

2. Smooth DNA transport through a narrowed pore geometry.

3. Real-Time Nanopore-Based Recognition of Protein Translocation Success.

4. Effect of a post-translational modification mimic on protein translocation through a nanopore.

5. Role of non-equilibrium conformations on driven polymer translocation.

6. Exploring lipid-dependent conformations of membrane-bound α-synuclein with the VDAC nanopore.

7. Pressure-voltage trap for DNA near a solid-state nanopore.

8. Transition state theory demonstrated at the micron scale with out-of-equilibrium transport in a confined environment.

9. Sequence diversity of tubulin isotypes in regulation of the mitochondrial voltage-dependent anion channel.