Literature DB >> 15342914

DNA heterogeneity and phosphorylation unveiled by single-molecule electrophoresis.

Hui Wang1, James E Dunning, Albert P-H Huang, Jacqueline A Nyamwanda, Daniel Branton.   

Abstract

Broad-spectrum analysis of DNA and RNA samples is of increasing importance in the growing field of biotechnology. We show that nanopore measurements may be used to assess the purity, phosphorylation state, and chemical integrity of nucleic acid preparations. In contrast with gel electrophoresis and mass spectrometry, an unprecedented dynamic range of DNA sizes and concentrations can be evaluated in a single data acquisition process that spans minutes. Because the molecule information is quantized and digitally recorded with single-molecule resolution, the sensitivity of the system can be adjusted in real time to detect trace amounts of a particular DNA species.

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Year:  2004        PMID: 15342914      PMCID: PMC518781          DOI: 10.1073/pnas.0405568101

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  11 in total

1.  Microsecond time-scale discrimination among polycytidylic acid, polyadenylic acid, and polyuridylic acid as homopolymers or as segments within single RNA molecules.

Authors:  M Akeson; D Branton; J J Kasianowicz; E Brandin; D W Deamer
Journal:  Biophys J       Date:  1999-12       Impact factor: 4.033

Review 2.  Stochastic sensors inspired by biology.

Authors:  H Bayley; P S Cremer
Journal:  Nature       Date:  2001-09-13       Impact factor: 49.962

3.  Sequence-specific detection of individual DNA strands using engineered nanopores.

Authors:  S Howorka; S Cheley; H Bayley
Journal:  Nat Biotechnol       Date:  2001-07       Impact factor: 54.908

4.  Rapid nanopore discrimination between single polynucleotide molecules.

Authors:  A Meller; L Nivon; E Brandin; J Golovchenko; D Branton
Journal:  Proc Natl Acad Sci U S A       Date:  2000-02-01       Impact factor: 11.205

5.  Single-stranded oligomers and polymers of cytidylic and 2'-deoxycytidylic acids: comparative optical rotatory studies.

Authors:  B A Adler; L Grossman; G D Fasman
Journal:  Proc Natl Acad Sci U S A       Date:  1967-02       Impact factor: 11.205

6.  Macrodipoles. Unusual electric properties of biological macromolecules.

Authors:  D Porschke
Journal:  Biophys Chem       Date:  1997-06-30       Impact factor: 2.352

7.  Labeling efficiency of oligonucleotides by T4 polynucleotide kinase depends on 5'-nucleotide.

Authors:  V van Houten; F Denkers; M van Dijk; M van den Brekel; R Brakenhoff
Journal:  Anal Biochem       Date:  1998-12-15       Impact factor: 3.365

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.  Structure of staphylococcal alpha-hemolysin, a heptameric transmembrane pore.

Authors:  L Song; M R Hobaugh; C Shustak; S Cheley; H Bayley; J E Gouaux
Journal:  Science       Date:  1996-12-13       Impact factor: 47.728

10.  Monte Carlo description of oligoelectrolyte properties of DNA oligomers: range of the end effect and the approach of molecular and thermodynamic properties to the polyelectrolyte limits.

Authors:  M C Olmsted; C F Anderson; M T Record
Journal:  Proc Natl Acad Sci U S A       Date:  1989-10       Impact factor: 11.205

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  19 in total

1.  Determination of RNA orientation during translocation through a biological nanopore.

Authors:  Tom Z Butler; Jens H Gundlach; Mark A Troll
Journal:  Biophys J       Date:  2005-10-07       Impact factor: 4.033

2.  Orientation discrimination of single-stranded DNA inside the alpha-hemolysin membrane channel.

Authors:  Jérôme Mathé; Aleksei Aksimentiev; David R Nelson; Klaus Schulten; Amit Meller
Journal:  Proc Natl Acad Sci U S A       Date:  2005-08-19       Impact factor: 11.205

3.  Ionic current blockades from DNA and RNA molecules in the alpha-hemolysin nanopore.

Authors:  Tom Z Butler; Jens H Gundlach; Mark Troll
Journal:  Biophys J       Date:  2007-08-03       Impact factor: 4.033

4.  Exploring transmembrane transport through alpha-hemolysin with grid-steered molecular dynamics.

Authors:  David B Wells; Volha Abramkina; Aleksei Aksimentiev
Journal:  J Chem Phys       Date:  2007-09-28       Impact factor: 3.488

5.  Single-molecule DNA detection with an engineered MspA protein nanopore.

Authors:  Tom Z Butler; Mikhail Pavlenok; Ian M Derrington; Michael Niederweis; Jens H Gundlach
Journal:  Proc Natl Acad Sci U S A       Date:  2008-12-19       Impact factor: 11.205

6.  Enhanced translocation of single DNA molecules through alpha-hemolysin nanopores by manipulation of internal charge.

Authors:  Giovanni Maglia; Marcela Rincon Restrepo; Ellina Mikhailova; Hagan Bayley
Journal:  Proc Natl Acad Sci U S A       Date:  2008-12-05       Impact factor: 11.205

7.  Single-nucleotide discrimination in immobilized DNA oligonucleotides with a biological nanopore.

Authors:  David Stoddart; Andrew J Heron; Ellina Mikhailova; Giovanni Maglia; Hagan Bayley
Journal:  Proc Natl Acad Sci U S A       Date:  2009-04-20       Impact factor: 11.205

8.  Translocation of a heterogeneous polymer.

Authors:  Stephen Mirigian; Yanbo Wang; Murugappan Muthukumar
Journal:  J Chem Phys       Date:  2012-08-14       Impact factor: 3.488

9.  On the Lubensky-Nelson model of polymer translocation through nanopores.

Authors:  Peter Reimann; Andreas Meyer; Sebastian Getfert
Journal:  Biophys J       Date:  2012-09-05       Impact factor: 4.033

10.  Stochastic detection of Pim protein kinases reveals electrostatically enhanced association of a peptide substrate.

Authors:  Leon Harrington; Stephen Cheley; Leila T Alexander; Stefan Knapp; Hagan Bayley
Journal:  Proc Natl Acad Sci U S A       Date:  2013-11-05       Impact factor: 11.205

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