Skip to main content
SpringerLink
Log in
Book cover

Metagenomics

Methods and Protocols

  • Book
  • © 2017

Overview

Editors:
  1. Wolfgang R. Streit

    1. Mikrobiologie & Biotechnologie Biocenter Klein Flottbek, University of Hamburg, Hamburg, Germany

    View editor publications

    You can also search for this editor in PubMed   Google Scholar

  2. Rolf Daniel

    1. Göttingen Genomics Laboratory Department of Genomic and Applied Microbiology Institut für Mikrobiologie und Genetik, Georg-August-Universität Göttingen, Göttingen, Germany

    View editor publications

    You can also search for this editor in PubMed   Google Scholar

  • Includes cutting-edge methods and protocols
  • Provides step-by-step detail essential for reproducible results
  • Contains key notes and implementation advice from the experts
  • Includes supplementary material: sn.pub/extras

Part of the book series: Methods in Molecular Biology (MIMB, volume 1539)

This is a preview of subscription content, log in via an institution to check access.

Access this book

Log in via an institution
eBook USD 79.99
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book USD 99.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book USD 139.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Other ways to access

Licence this eBook for your library

Institutional subscriptions

Table of contents (20 protocols)

  1. Front Matter

    Pages i-xi
    Download chapter PDF

  2. Construction of Small-Insert and Large-Insert Metagenomic Libraries

    • Carola Simon, Rolf Daniel
    Pages 1-12

  3. Extraction of Total DNA and RNA from Marine Filter Samples and Generation of a cDNA as Universal Template for Marker Gene Studies

    • Dominik Schneider, Franziska Wemheuer, Birgit Pfeiffer, Bernd Wemheuer
    Pages 13-22

  4. Construction and Screening of Marine Metagenomic Large Insert Libraries

    • Nancy Weiland-Bräuer, Daniela Langfeldt, Ruth A. Schmitz
    Pages 23-42

  5. Constructing and Screening a Metagenomic Library of a Cold and Alkaline Extreme Environment

    • Mikkel A. Glaring, Jan K. Vester, Peter Stougaard
    Pages 43-55

  6. DNA-, RNA-, and Protein-Based Stable-Isotope Probing for High-Throughput Biomarker Analysis of Active Microorganisms

    • Eleanor Jameson, Martin Taubert, Sara Coyotzi, Yin Chen, Özge Eyice, Hendrik Schäfer et al.
    Pages 57-74

  7. Assessing Bacterial and Fungal Diversity in the Plant Endosphere

    • Bernd Wemheuer, Franziska Wemheuer
    Pages 75-84

  8. Shotgun Metagenomic Sequencing Analysis of Soft-Rot Enterobacteriaceae in Polymicrobial Communities

    • James Doonan, Sandra Denman, James E. McDonald, Peter N. Golyshin
    Pages 85-97

  9. Cloning and Expression of Metagenomic DNA in Streptomyces lividans and Subsequent Fermentation for Optimized Production

    • Yuriy Rebets, Jan Kormanec, Andriy Luzhetskyy, Kristel Bernaerts, Jozef Anné
    Pages 99-144

  10. Degradation Network Reconstruction Guided by Metagenomic Data

    • Rafael Bargiela, Manuel Ferrer
    Pages 145-157

  11. Novel Tools for the Functional Expression of Metagenomic DNA

    • Nadine Katzke, Andreas Knapp, Anita Loeschcke, Thomas Drepper, Karl-Erich Jaeger
    Pages 159-196

  12. A Microtiter Plate-Based Assay to Screen for Active and Stereoselective Hydrolytic Enzymes in Enzyme Libraries

    • Dominique Böttcher, Patrick Zägel, Marlen Schmidt, Uwe T. Bornscheuer
    Pages 197-204

  13. Screening for Cellulase Encoding Clones in Metagenomic Libraries

    • Nele Ilmberger, Wolfgang R. Streit
    Pages 205-217

  14. Liquid Phase Multiplex High-Throughput Screening of Metagenomic Libraries Using p-Nitrophenyl-Linked Substrates for Accessory Lignocellulosic Enzymes

    • Mariette Smart, Robert J. Huddy, Don A. Cowan, Marla Trindade
    Pages 219-228

  15. Screening Glycosyltransferases for Polyphenol Modifications

    • Nele Ilmberger, Ulrich Rabausch
    Pages 229-236

  16. Methods for the Isolation of Genes Encoding Novel PHA Metabolism Enzymes from Complex Microbial Communities

    • Jiujun Cheng, Ricardo Nordeste, Maria A. Trainer, Trevor C. Charles
    Pages 237-248

  17. Function-Based Metagenomic Library Screening and Heterologous Expression Strategy for Genes Encoding Phosphatase Activity

    • Genis A. Castillo Villamizar, Heiko Nacke, Rolf Daniel
    Pages 249-260

  18. Activity-Based Screening of Metagenomic Libraries for Hydrogenase Enzymes

    • Nicole Adam, Mirjam Perner
    Pages 261-270

  19. Screening for N-AHSL-Based-Signaling Interfering Enzymes

    • Stéphane Uroz, Phil M. Oger
    Pages 271-286

  20. Mining Microbial Signals for Enhanced Biodiscovery of Secondary Metabolites

    • F. Jerry Reen, Jose A. Gutiérrez-Barranquero, Fergal O’Gara
    Pages 287-300
Back to top

Keywords

About this book

This second edition explores up-to-date tools in various function-based technologies currently used in metagenomics. The chapters in this book discuss all of the working steps involved in these technologies, such as: DNA isolation from soils and marine samples followed by the construction and screening of libraries for diverse enzymes and biomolecules; current methods used to isolate DNA and construct large- and small-insert libraries from terrestrial and marine habitats; methods for establishing metagenome libraries in none-E.coli hosts; new molecular tools used for function-driven mining of metagenomic DNA; and screening protocols for a wide array of different genes encoding enzymes with relevance to biotechnology and ecology. Metagenomics: Methods and Protocols, Second Edition also provides detailed screening protocols for phosphatases, poly-hydroxyalkanoate, metabolism-related enzymes, stereoselective hydrolases, and microbial signals for the discovery of secondary metabolites. 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.


Comprehensive and cutting-edge, Metagenomics: Methods and Protocols, Second Edition is a collection of up-to-date metagenome protocols and tools for the recovery of numerous major types of biocatalysts, and allows researchers to easily setup these screens in any microbiology laboratory.

 

Editors and Affiliations

  • Mikrobiologie & Biotechnologie Biocenter Klein Flottbek, University of Hamburg, Hamburg, Germany

    Wolfgang R. Streit

  • Göttingen Genomics Laboratory Department of Genomic and Applied Microbiology Institut für Mikrobiologie und Genetik, Georg-August-Universität Göttingen, Göttingen, Germany

    Rolf Daniel

Bibliographic Information

  • Book Title: Metagenomics

  • Book Subtitle: Methods and Protocols

  • Editors: Wolfgang R. Streit, Rolf Daniel

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-4939-6691-2

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media LLC 2017

  • Hardcover ISBN: 978-1-4939-6689-9Published: 30 November 2016

  • Softcover ISBN: 978-1-4939-8274-5Published: 06 July 2018

  • eBook ISBN: 978-1-4939-6691-2Published: 25 November 2016

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 2

  • Number of Pages: XI, 303

  • Number of Illustrations: 24 b/w illustrations, 24 illustrations in colour

  • Topics: Human Genetics

Publish with us

Policies and ethics

Back to top

Search

Navigation