Literature DB >> 18511916

Do-it-yourself guide: how to use the modern single-molecule toolkit.

Nils G Walter1, Cheng-Yen Huang, Anthony J Manzo, Mohamed A Sobhy.   

Abstract

Single-molecule microscopy has evolved into the ultimate-sensitivity toolkit to study systems from small molecules to living cells, with the prospect of revolutionizing the modern biosciences. Here we survey the current state of the art in single-molecule tools including fluorescence spectroscopy, tethered particle microscopy, optical and magnetic tweezers, and atomic force microscopy. We also provide guidelines for choosing the right approach from the available single-molecule toolkit for applications as diverse as structural biology, enzymology, nanotechnology and systems biology.

Mesh:

Year:  2008        PMID: 18511916      PMCID: PMC2574008          DOI: 10.1038/nmeth.1215

Source DB:  PubMed          Journal:  Nat Methods        ISSN: 1548-7091            Impact factor:   28.547


  122 in total

1.  Saturated patterned excitation microscopy--a concept for optical resolution improvement.

Authors:  Rainer Heintzmann; Thomas M Jovin; Christoph Cremer
Journal:  J Opt Soc Am A Opt Image Sci Vis       Date:  2002-08       Impact factor: 2.129

2.  Imaging of single-molecule translocation through nuclear pore complexes.

Authors:  Weidong Yang; Jeff Gelles; Siegfried M Musser
Journal:  Proc Natl Acad Sci U S A       Date:  2004-08-11       Impact factor: 11.205

3.  Atomic force microscope.

Authors: 
Journal:  Phys Rev Lett       Date:  1986-03-03       Impact factor: 9.161

4.  Direct observation of steps in rotation of the bacterial flagellar motor.

Authors:  Yoshiyuki Sowa; Alexander D Rowe; Mark C Leake; Toshiharu Yakushi; Michio Homma; Akihiko Ishijima; Richard M Berry
Journal:  Nature       Date:  2005-10-06       Impact factor: 49.962

5.  Under the microscope: single molecule symposium at the University of Michigan, 2006.

Authors:  Nils G Walter; Jens-Christian Meiners; Edgar Meyhofer; Richard R Neubig; Roger K Sunahara; Noel C Perkins; Duncan G Steel; Joel A Swanson
Journal:  Biopolymers       Date:  2007-02-05       Impact factor: 2.505

Review 6.  Nanofluidic structures for single biomolecule fluorescent detection.

Authors:  J T Mannion; H G Craighead
Journal:  Biopolymers       Date:  2007-02-05       Impact factor: 2.505

7.  High-density mapping of single-molecule trajectories with photoactivated localization microscopy.

Authors:  Suliana Manley; Jennifer M Gillette; George H Patterson; Hari Shroff; Harald F Hess; Eric Betzig; Jennifer Lippincott-Schwartz
Journal:  Nat Methods       Date:  2008-01-13       Impact factor: 28.547

8.  Laminar flow cells for single-molecule studies of DNA-protein interactions.

Authors:  Laurence R Brewer; Piero R Bianco
Journal:  Nat Methods       Date:  2008-06       Impact factor: 28.547

9.  Tracking kinesin-driven movements with nanometre-scale precision.

Authors:  J Gelles; B J Schnapp; M P Sheetz
Journal:  Nature       Date:  1988-02-04       Impact factor: 49.962

10.  Observation of internal cleavage and ligation reactions of a ribozyme.

Authors:  Michelle K Nahas; Timothy J Wilson; Sungchul Hohng; Kaera Jarvie; David M J Lilley; Taekjip Ha
Journal:  Nat Struct Mol Biol       Date:  2004-10-10       Impact factor: 15.369

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  93 in total

Review 1.  Single-molecule views of protein movement on single-stranded DNA.

Authors:  Taekjip Ha; Alexander G Kozlov; Timothy M Lohman
Journal:  Annu Rev Biophys       Date:  2012-02-23       Impact factor: 12.981

Review 2.  Beyond DNA origami: the unfolding prospects of nucleic acid nanotechnology.

Authors:  Nicole Michelotti; Alexander Johnson-Buck; Anthony J Manzo; Nils G Walter
Journal:  Wiley Interdiscip Rev Nanomed Nanobiotechnol       Date:  2011-11-30

3.  Intracellular single molecule microscopy reveals two kinetically distinct pathways for microRNA assembly.

Authors:  Sethuramasundaram Pitchiaya; John R Androsavich; Nils G Walter
Journal:  EMBO Rep       Date:  2012-06-12       Impact factor: 8.807

4.  FISHER INFORMATION FOR EMCCD IMAGING WITH APPLICATION TO SINGLE MOLECULE MICROSCOPY.

Authors:  Jerry Chao; E Sally Ward; Raimund J Ober
Journal:  Conf Rec Asilomar Conf Signals Syst Comput       Date:  2010

5.  Free energy calculations reveal rotating-ratchet mechanism for DNA supercoil relaxation by topoisomerase IB and its inhibition.

Authors:  Jeff Wereszczynski; Ioan Andricioaei
Journal:  Biophys J       Date:  2010-08-04       Impact factor: 4.033

Review 6.  Probing cellular events, one quantum dot at a time.

Authors:  Fabien Pinaud; Samuel Clarke; Assa Sittner; Maxime Dahan
Journal:  Nat Methods       Date:  2010-03-30       Impact factor: 28.547

7.  Analysis of complex single-molecule FRET time trajectories.

Authors:  Mario Blanco; Nils G Walter
Journal:  Methods Enzymol       Date:  2010       Impact factor: 1.600

8.  Atomic force microscopy study of DNA conformation in the presence of drugs.

Authors:  Valeria Cassina; Davide Seruggia; Giovanni Luca Beretta; Domenico Salerno; Doriano Brogioli; Stefano Manzini; Franco Zunino; Francesco Mantegazza
Journal:  Eur Biophys J       Date:  2010-09-30       Impact factor: 1.733

9.  Single Quantum Dot Tracking Illuminates Neuroscience at the Nanoscale.

Authors:  Oleg Kovtun; Ian D Tomlinson; Danielle M Bailey; Lucas B Thal; Emily J Ross; Lauren Harris; Michael P Frankland; Riley S Ferguson; Zachary Glaser; Jonathan Greer; Sandra J Rosenthal
Journal:  Chem Phys Lett       Date:  2018-06-19       Impact factor: 2.328

10.  Ultraspecific analyte detection by direct kinetic fingerprinting of single molecules.

Authors:  Tanmay Chatterjee; Zi Li; Kunal Khanna; Karen Montoya; Muneesh Tewari; Nils G Walter; Alexander Johnson-Buck
Journal:  Trends Analyt Chem       Date:  2019-12-04       Impact factor: 12.296

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