Single Molecule Tools, Part B: Super-Resolution, Particle Tracking, Multiparameter, and Force Based Methods book cover

Single Molecule Tools, Part B: Super-Resolution, Particle Tracking, Multiparameter, and Force Based Methods

Single molecule tools have begun to revolutionize the molecular sciences, from biophysics to chemistry to cell biology. They hold the promise to be able to directly observe previously unseen molecular heterogeneities, quantitatively dissect complex reaction kinetics, ultimately miniaturize enzyme assays, image components of spatially distributed samples, probe the mechanical properties of single molecules in their native environment, and "just look at the thing" as anticipated by the visionary Richard Feynman already half a century ago. This volume captures a snapshot of this vibrant, rapidly expanding field, presenting articles from pioneers in the field intended to guide both the newcomer and the expert through the intricacies of getting single molecule tools.

Audience

Biochemists, geneticists, molecular biologists, cell biologists, and biophysicists.

Included in series
Methods in Enzymology

Hardbound, 720 Pages

Published: August 2010

Imprint: Academic Press

ISBN: 978-0-12-381482-1

Contents

  • 1. Watching single DNA replication loops under flow extension

    Antoine Van Oijen

    2. Star polymer surface passivation for single molecule detection

    Jürgen Groll , Martin Möller

    3. Ultrahigh resolution detection of single active motor proteins in live cells

    Paul Selvin, Erdal Toprak & Comert Kural

    4. Molecules and Methods for Superresolution Imaging

    W.E. Moerner, Michael Thompson, Sam Lord, Julie Biteen, and Nick Conley +…

    5. Aqueous nanodroplets for studying single molecules

    Lori Goldner

    6. High-speed atomic force microscopy techniques for visualizing dynamic behavior of biological macromolecules

    Toshio Ando

    7. Single-Biomolecule Spectroscopy Using Microfluidic Platforms

    Richard Zare, Dr. Olga Dudko, Dr. Jérôme Mathé

    8. DNA Looping Kinetics Analyzed by Tethered Particle Microscopy

    Laura Finzi

    9. Single molecule observation of proteins in vivo

    Shimon Weiss, Gopal Iyer

    10. DNA curtains as a high-throughput approach to single molecule imaging

    Eric Greene

    11. Single-molecule enzymology of protein synthesis

    Ruben Gonzalez

    12. Single molecule fluorescence studies of intrinsically disordered proteins

    Ashok Deniz

    13. Nanovesicle trapping for studying transient protein-protein interactions by single molecule FRET

    Peng Chen

    14. Tracking single motor proteins in the cytoplasm of mammalian cells

    Edgar Meyhöfer

    15. Conformational States of F1-ATPase by Single-Molecule Rotation

    Hiroyuki Noji

    16. Single Molecule Sequencing by Fluorescence Imaging

    Patrice Milos

    17. Real-Time DNA Sequencing from Single Polymerase Molecules

    Jonas Korlach

    18. Micropatterning and single molecule imaging for quantitative analysis of protein-protein interactions in living cells

    Gerhard Schütz

    19. Probing virus-receptor interactions by atomic force spectroscopy

    Peter Hinterdorfer

    20. Single-Molecule Fluorescence Spectroscopy of Cytochrome P450 in Nanodiscs

    Elizabeth Rhoades, William M. Atkins

    21. Analysis of complex single molecule FRET time traces

    Nils Walter, Mario Blanco

    22. Application of super-resolution imaging to single particle tracking in nanotechnology

    Nils Walter, Chamaree de Silva & Anthony Manzo

    23. Scanning FCS for the characterization of protein dynamics in live cells

    Petra Schwille

    24. Single mRNA molecule tracking in live cells

    Rob Singer

    25. Single-molecule high-resolution colocalization (SHREC) or Single-molecule optical-trap analyses of protein structure

    James Spudich

    26. Nanopore force Spectroscopy tools for analyzing single bio-complexes

    Amit Meller

    27. Use of plasmon coupling to reveal DNA dynamics at the single molecule level

    Jan Liphardt

    28. "Fluorescence-force spectroscopy" or "Suppression of fluorophore blinking and bleaching" or "Spontaneous intersubunit rotation of the ribosome"

    Taekjip Ha

    29. Multiplexed single mRNA imaging in fixed cells

    Sanjay Tyagi, Arjun Raj

    30. Size-Minimized Quantum Dots for Single-Molecule and Intracellular Imaging

    Shuming Nie

    31. The ABEL trap

    Adam Cohen, Alex Fields

    32. An optical torque wrench

    Steve Block, Arthur La Porta

    33. Determining the Stoichiometry of Protein Hetero-complexes in Living Cells with Fluorescence Fluctuation Spectroscopy

    Joachim Mueller

    34. Fluorescent Visualization of Single Protein-DNA Complexes

    Steve Kowalzcykowski

    35. Direct Measurement of Tertiary Contact Cooperativity in RNA Folding by single molecule FRET

    Daniel Herschlag

    36. Nanometer-localized multiple single-molecule (NALMS) or Single-molecule nonequilibrium periodic Mg2+-concentration jump experiments

    Norbert Scherer

    37. Multiparameter single molecule fluorescence detection with applications to FRET

    Claus Seidel

    38. single-particle tracking-photoactivated localization microscopy (sptPALM) within live cells

    Jennifer Lippincott-Schwartz, Suliana Manley

    39. Site-specific incoporation of fluorescent probes into RNA polymerase

    Richard Ebright

    40. Quantitative single-molecule imaging by confocal laser scanning microscopy

    Rudolph Rigler

    41. Studies of DNA-replication at the single molecule level using magnetic tweezers

    David Bensimon, Vincent Croquette

    42. RNA labeled for single molecule FRET analysis from ligation with T4 RNA ligases

    John Abelson

    43. Combining optical tweezers, single-molecule fluorescence microscopy and microfluidics for studying reversible protein-DNA interactions

    Gijs Wuite, G. Farge, P. Gross & E.J.G. Peterman

    44. How dwell time distributions and other such observables in single molecule analysis can be used to extract information from molecular systems

    Carlos Bustamante, Jeff Moffitt & Yann Robert Chemla

    45. Atomic force microscopy studies of human rhinovirus: topology and molecular forces

    Peter Hinterdorfer

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