Literature DB >> 18414737

The importance of surfaces in single-molecule bioscience.

Mari-Liis Visnapuu1, Daniel Duzdevich, Eric C Greene.   

Abstract

The last ten years have witnessed an explosion of new techniques that can be used to probe the dynamic behavior of individual biological molecules, leading to discoveries that would not have been possible with more traditional biochemical methods. A common feature among these single-molecule approaches is the need for the biological molecules to be anchored to a solid support surface. This must be done under conditions that minimize nonspecific adsorption without compromising the biological integrity of the sample. In this review we highlight why surface attachments are a critical aspect of many single-molecule studies and we discuss current methods for anchoring biomolecules. Finally, we provide a detailed description of a new method developed by our laboratory for anchoring and organizing hundreds of individual DNA molecules on a surface, allowing "high-throughput" studies of protein-DNA interactions at the single-molecule level.

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Year:  2008        PMID: 18414737      PMCID: PMC3033744          DOI: 10.1039/b800444g

Source DB:  PubMed          Journal:  Mol Biosyst        ISSN: 1742-2051


  103 in total

1.  Chi-sequence recognition and DNA translocation by single RecBCD helicase/nuclease molecules.

Authors:  K M Dohoney; J Gelles
Journal:  Nature       Date:  2001-01-18       Impact factor: 49.962

2.  Single molecules.

Authors:  T Basché; S Nie; J M Fernandez
Journal:  Proc Natl Acad Sci U S A       Date:  2001-09-11       Impact factor: 11.205

3.  Watching proteins fold one molecule at a time.

Authors:  Elizabeth Rhoades; Eugene Gussakovsky; Gilad Haran
Journal:  Proc Natl Acad Sci U S A       Date:  2003-02-28       Impact factor: 11.205

4.  Reverse engineering of the giant muscle protein titin.

Authors:  Hongbin Li; Wolfgang A Linke; Andres F Oberhauser; Mariano Carrion-Vazquez; Jason G Kerkvliet; Hui Lu; Piotr E Marszalek; Julio M Fernandez
Journal:  Nature       Date:  2002-08-29       Impact factor: 49.962

5.  The unfolding kinetics of ubiquitin captured with single-molecule force-clamp techniques.

Authors:  Michael Schlierf; Hongbin Li; Julio M Fernandez
Journal:  Proc Natl Acad Sci U S A       Date:  2004-04-27       Impact factor: 11.205

6.  Friction and torque govern the relaxation of DNA supercoils by eukaryotic topoisomerase IB.

Authors:  Daniel A Koster; Vincent Croquette; Cees Dekker; Stewart Shuman; Nynke H Dekker
Journal:  Nature       Date:  2005-03-31       Impact factor: 49.962

7.  DNA primase acts as a molecular brake in DNA replication.

Authors:  Jong-Bong Lee; Richard K Hite; Samir M Hamdan; X Sunney Xie; Charles C Richardson; Antoine M van Oijen
Journal:  Nature       Date:  2006-02-02       Impact factor: 49.962

8.  Direct observation of individual RecA filaments assembling on single DNA molecules.

Authors:  Roberto Galletto; Ichiro Amitani; Ronald J Baskin; Stephen C Kowalczykowski
Journal:  Nature       Date:  2006-09-20       Impact factor: 49.962

9.  Single-molecule studies reveal dynamics of DNA unwinding by the ring-shaped T7 helicase.

Authors:  Daniel S Johnson; Lu Bai; Benjamin Y Smith; Smita S Patel; Michelle D Wang
Journal:  Cell       Date:  2007-06-29       Impact factor: 41.582

10.  Direct observation of kinesin stepping by optical trapping interferometry.

Authors:  K Svoboda; C F Schmidt; B J Schnapp; S M Block
Journal:  Nature       Date:  1993-10-21       Impact factor: 49.962

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  11 in total

Review 1.  Towards physiological complexity with in vitro single-molecule biophysics.

Authors:  Daniel Duzdevich; Eric C Greene
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2012-12-24       Impact factor: 6.237

2.  Supported lipid bilayers and DNA curtains for high-throughput single-molecule studies.

Authors:  Ilya J Finkelstein; Eric C Greene
Journal:  Methods Mol Biol       Date:  2011

3.  Improved Glass Surface Passivation for Single-Molecule Nanoarrays.

Authors:  Haogang Cai; Shalom J Wind
Journal:  Langmuir       Date:  2016-09-26       Impact factor: 3.882

4.  Enzymatic digestion of single DNA molecules anchored on nanogold-modified surfaces.

Authors:  Junhong Lü; Ming Ye; Na Duan; Bin Li
Journal:  Nanoscale Res Lett       Date:  2009-05-31       Impact factor: 4.703

5.  Single-molecule imaging of Bacteroides fragilis AddAB reveals the highly processive translocation of a single motor helicase.

Authors:  Marcel Reuter; Frances Parry; David T F Dryden; Garry W Blakely
Journal:  Nucleic Acids Res       Date:  2010-02-25       Impact factor: 16.971

Review 6.  Single molecule studies of homologous recombination.

Authors:  Ilya J Finkelstein; Eric C Greene
Journal:  Mol Biosyst       Date:  2008-09-29

7.  Oriented Soft DNA Curtains for Single-Molecule Imaging.

Authors:  Aurimas Kopu Stas; Šaru Nė Ivanovaitė; Tomas Rakickas; Ernesta Pocevičiu Tė; Justė Paksaitė; Tautvydas Karvelis; Mindaugas Zaremba; Elena Manakova; Marijonas Tutkus
Journal:  Langmuir       Date:  2021-03-09       Impact factor: 3.882

8.  High-throughput single-molecule analysis of DNA-protein interactions by tethered particle motion.

Authors:  Thomas Plénat; Catherine Tardin; Philippe Rousseau; Laurence Salomé
Journal:  Nucleic Acids Res       Date:  2012-03-15       Impact factor: 16.971

Review 9.  Enhancing single molecule imaging in optofluidics and microfluidics.

Authors:  Andreas E Vasdekis; Gregoire P J Laporte
Journal:  Int J Mol Sci       Date:  2011-08-12       Impact factor: 5.923

10.  Sample preparation for single virion atomic force microscopy and super-resolution fluorescence imaging.

Authors:  Jeffery A Hodges; Saveez Saffarian
Journal:  J Vis Exp       Date:  2014-01-02       Impact factor: 1.355

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