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Nanopore Technology

Methods and Protocols

  • Book
  • © 2021

Overview

Editors:
  1. Monifa A.V. Fahie

    1. Molecular and Cellular Biology Program, University of Massachusetts Amherst, Amherst, USA

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  • Includes cutting-edge techniques
  • Provides step-by-step detail essential for reproducible results
  • Contains key implementation advice from the experts

Part of the book series: Methods in Molecular Biology (MIMB, volume 2186)

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Table of contents (16 protocols)

  1. Front Matter

    Pages i-x
    Download chapter PDF

  2. Design and Preparation of Biological Based Nanopores

    1. Front Matter

      Pages 1-1
      Download chapter PDF

    2. Preparation of Fragaceatoxin C (FraC) Nanopores

      • Natalie Lisa Mutter, Gang Huang, Nieck Jordy van der Heide, Florian Leonardus Rudolfus Lucas, Nicole Stéphanie Galenkamp, Giovanni Maglia et al.
      Pages 3-10

    3. Preparation of Cytolysin A (ClyA) Nanopores

      • Nicole Stéphanie Galenkamp, Veerle Van Meervelt, Natalie Lisa Mutter, Nieck Jordy van der Heide, Carsten Wloka, Giovanni Maglia
      Pages 11-18

    4. Building Synthetic Transmembrane Peptide Pores

      • Kozhinjampara R. Mahendran
      Pages 19-32

    5. Design and Assembly of Membrane-Spanning DNA Nanopores

      • Kerstin Göpfrich, Alexander Ohmann, Ulrich F. Keyser
      Pages 33-48

  3. Single Molecule Detection and Analysis of Protein Analytes

    1. Front Matter

      Pages 49-49
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    2. Determining the Orientation of Porins in Planar Lipid Bilayers

      • Sandra A. Ionescu, Sejeong Lee, Hagan Bayley
      Pages 51-62

    3. Revelation of Function and Inhibition of Wza Through Single-Channel Studies

      • Lingbing Kong
      Pages 63-76

    4. Protein Analyte Sensing with an Outer Membrane Protein G (OmpG) Nanopore

      • Monifa A. V. Fahie, Bib Yang, Christina M. Chisholm, Min Chen
      Pages 77-94

    5. Nanopore Enzymology to Study Protein Kinases and Their Inhibition by Small Molecules

      • Leon Harrington, Leila T. Alexander, Stefan Knapp, Hagan Bayley
      Pages 95-114

    6. A Selective Activity-Based Approach for Analysis of Enzymes with an OmpG Nanopore

      • Monifa A. V. Fahie, Bach Pham, Fanjun Li, Min Chen
      Pages 115-133

    7. Oligonucleotide-Directed Protein Threading Through a Rigid Nanopore

      • Garbiñe Celaya, David Rodriguez-Larrea
      Pages 135-144

    8. Unfolding and Translocation of Proteins Through an Alpha-Hemolysin Nanopore by ClpXP

      • Jeff Nivala, Logan Mulroney, Qing Luan, Robin Abu-Shumays, Mark Akeson
      Pages 145-155

  4. Computational Analysis of Nanopore Behavior

    1. Front Matter

      Pages 157-157
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    2. Simulation of pH-Dependent, Loop-Based Membrane Protein Gating Using Pretzel

      • Alan Perez-Rathke, Monifa A. V. Fahie, Christina M. Chisholm, Min Chen, Jie Liang
      Pages 159-169

    3. Free Energy Minimization for Vesicle Translocation Through a Narrow Pore

      • Hamid R. Shojaei, Ahad Khaleghi Ardabili, Murrugappan Muthukumar
      Pages 171-183
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Keywords

About this book

This detailed collection explores techniques involved in the main strategies of nanopore sensing, such as translocation, analyte trapping, and interactions with external binding sites. Opening with a section on nanopore design and nanopore production, the book continues with parts devoted to various biological nanopores, nanopore engineering, and their uses in single molecule sensing, computational methods to study intrinsic nanopore behavior, characterizing the specific translocation activity of a vesicle particle through a nanopore, as well as the use of the technique droplet interface bilayer (DIB) in nanopore and membrane biophysical studies. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. 

Authoritative and practical, Nanopore Technology: Methods and Protocols, with its focus on nanopore technology and biomolecule characterization, will hold the interest of the biophysicists, biochemists, bioengineers, and molecular biologists who are working toward further understanding this key field of research.

Editors and Affiliations

  • Molecular and Cellular Biology Program, University of Massachusetts Amherst, Amherst, USA

    Monifa A.V. Fahie

Bibliographic Information

  • Book Title: Nanopore Technology

  • Book Subtitle: Methods and Protocols

  • Editors: Monifa A.V. Fahie

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-0716-0806-7

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media, LLC, part of Springer Nature 2021

  • Hardcover ISBN: 978-1-0716-0805-0Published: 13 September 2020

  • Softcover ISBN: 978-1-0716-0808-1Published: 14 September 2021

  • eBook ISBN: 978-1-0716-0806-7Published: 12 September 2020

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: X, 231

  • Number of Illustrations: 14 b/w illustrations, 43 illustrations in colour

  • Topics: Protein Science, Biological and Medical Physics, Biophysics, Biotechnology

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