Methods and Protocols, Volume 3

  • Martha R.J. Clokie
  • Andrew M. Kropinski
  • Rob Lavigne

Part of the Methods in Molecular Biology book series (MIMB, volume 1681)

Table of contents

  1. Front Matter
    Pages i-xi
  2. Key Basics of Phage Biology

    1. Front Matter
      Pages 1-1
    2. Stephen T. Abedon, Tena I. Katsaounis
      Pages 3-30
    3. Andrew M. Kropinski
      Pages 41-47
    4. Bonnie T. Poulos, Seth G. John, Matthew B. Sullivan
      Pages 49-57
    5. Dieter Vandenheuvel, Sofie Rombouts, Evelien M. Adriaenssens
      Pages 59-69
    6. Hanie Ahmadi, Qi Wang, Loong-Tak Lim, S. Balamurugan
      Pages 89-95
  3. Sequencing Analysis of Bacteriophages

  4. Phage-Related Bioinformatics Tools

    1. Front Matter
      Pages 195-195
    2. Ramy Karam Aziz, Hans-Wolfgang Ackermann, Nicola K. Petty, Andrew M. Kropinski
      Pages 197-215
    3. Welkin H. Pope, Deborah Jacobs-Sera
      Pages 217-229
    4. Katelyn McNair, Ramy Karam Aziz, Gordon D. Pusch, Ross Overbeek, Bas E. Dutilh, Robert Edwards
      Pages 231-238
    5. Dann Turner, J. Mark Sutton, Darren M. Reynolds, Eby M. Sim, Nicola K. Petty
      Pages 239-260
  5. Bacteriophage Genetics

  6. Back Matter
    Pages 315-316

About this book


This book expands on the previous volumes with new chapters exploring emerging themes and methodologies in bacterial virus research. The chapters in this book are divided into 4 parts and cover topics such as: iron chloride flocculation of bacteriophages from seawater; encapsulation of Listeria phage A511 by alginate; examining genome termini of bacteriophage through high-throughput sequencing; genome sequencing of dsDNA-containing bacteriophages directly from a single plaque; characterizing bacteriophages by biology, taxonomy, and genome analysis; phage genome annotation using the RAST pipeline; and the use of RP4::mini-Mu for gene transfer. Written in the highly successful Methods in Molecular Biology series format, 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.

Cutting edge and authoritative, Bacteriophages: Methods and Protocols, Volume III is a valuable resource for both established and novice phage scientists.


bacterial virus research genome sequences high-throughput sequencing gene predictions CRISPR/cas genome editing synthetic biology systematic transcriptome analysis RNAseq

Editors and affiliations

  • Martha R.J. Clokie
    • 1
  • Andrew M. Kropinski
    • 2
  • Rob Lavigne
    • 3
  1. 1.Department Infection, Immunity & InflammationUniversity of Leicester School of MedicineLeicesterUnited Kingdom
  2. 2.University of GuelphGuelphCanada
  3. 3.KU Leuven, Laboratory of Gene TechnologyLeuvenBelgium

Bibliographic information

  • DOI
  • Copyright Information Springer Science+Business Media LLC 2018
  • Publisher Name Humana Press, New York, NY
  • eBook Packages Springer Protocols
  • Print ISBN 978-1-4939-7341-5
  • Online ISBN 978-1-4939-7343-9
  • Series Print ISSN 1064-3745
  • Series Online ISSN 1940-6029
  • Buy this book on publisher's site
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