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Functional Metagenomics: Tools and Applications

  • Book
  • © 2017

Overview

Editors:
  1. Trevor C. Charles

    1. Department of Biology, University of Waterloo , Waterloo, Canada

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  2. Mark R. Liles

    1. Department of Biological Sciences, Auburn University , Auburn, USA

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    You can also search for this editor in PubMed   Google Scholar

  3. Angela Sessitsch

    1. Biorescources, AIT Austrian Institute of Technology Biorescources, Tulln, Austria

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    You can also search for this editor in PubMed   Google Scholar

  • Highlights ?latest metagenomics research
  • Provides multiple approaches for investigating metagenomes
  • Summarizes all of the functional metagenomics literature on specific habitats, such as plant, animal, and human microbiomes and more

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Table of contents (14 chapters)

  1. Front Matter

    Pages i-viii
    Download chapter PDF

  2. Metagenomic Cosmid Libraries Suitable for Functional Screening in Proteobacteria

    • Jiujun Cheng, Kathy N. Lam, Katja Engel, Michael Hall, Josh D. Neufeld, Trevor C. Charles
    Pages 1-11

  3. Expression Platforms for Functional Metagenomics: Emerging Technology Options Beyond Escherichia coli

    • Anna Lewin, Rahmi Lale, Alexander Wentzel
    Pages 13-44

  4. Engineering of E. coli for Heterologous Expression of Secondary Metabolite Biosynthesis Pathways Recovered from Metagenomics Libraries

    • Lei Fang, Guojian Zhang, Blaine A. Pfeifer
    Pages 45-63

  5. Functional Analysis in Metagenomics Using MEGAN 6

    • Sina Beier, Rewati Tappu, Daniel H. Huson
    Pages 65-74

  6. Enhancing Metagenomic Approaches Through Synthetic Biology

    • Luana de Fátima Alves, Rafael Silva-Rocha, María-Eugenia Guazzaroni
    Pages 75-94

  7. Metagenomics for the Discovery of Novel Biosurfactants

    • Wesley Williams, Marla Trindade
    Pages 95-117

  8. Challenges and Opportunities in Discovery of Secondary Metabolites Using a Functional Metagenomic Approach

    • Alinne L. R. Santana-Pereira, Mark R. Liles
    Pages 119-138

  9. Enhancing Functional Metagenomics of Complex Microbial Communities Using Stable Isotopes

    • Marcela Hernández, Josh D. Neufeld, Marc G. Dumont
    Pages 139-150

  10. Metagenome Assembly and Functional Annotation

    • Adina Howe, Fan Yang, Qingpeng Zhang
    Pages 151-159

  11. Human Gut Metagenomics: Success and Limits of the Activity-Based Approaches

    • Alexandra S. Tauzin, Elisabeth Laville, Davide Cecchini, Hervé M. Blottière, Marion Leclerc, Joël Doré et al.
    Pages 161-178

  12. Metagenomics of Plant Microbiomes

    • G. Brader, E. Corretto, A. Sessitsch
    Pages 179-200

  13. Metagenome Analyses of Multispecies Microbial Biofilms: First Steps Toward Understanding Diverse Microbial Systems on Surfaces

    • Christel Schmeisser, Ines Krohn-Molt, Wolfgang R. Streit
    Pages 201-215

  14. Functional Metagenomics of a Replicase from a Novel Hyperthermophilic Aquificales Virus

    • David A. Mead, Scott Monsma, Baigen Mei, Krishne Gowda, Michael Lodes, Thomas W. Schoenfeld
    Pages 217-242

  15. Functional Metagenomics and Antimicrobial Resistance

    • Fiona Walsh
    Pages 243-253
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Keywords

About this book

In this book, the latest tools available for functional metagenomics research are described.This research enables scientists to directly access the genomes from diverse microbial genomes at one time and study these “metagenomes”. Using the modern tools of genome sequencing and cloning, researchers have now been able to harness this astounding metagenomic diversity to understand and exploit the diverse functions of microorganisms. Leading scientists from around the world demonstrate how these approaches have been applied in many different settings, including aquatic and terrestrial habitats, microbiomes, and many more environments. This is a highly informative and carefully presented book, providing microbiologists with a summary of the latest functional metagenomics literature on all specific habitats.

Editors and Affiliations

  • Department of Biology, University of Waterloo , Waterloo, Canada

    Trevor C. Charles

  • Department of Biological Sciences, Auburn University , Auburn, USA

    Mark R. Liles

  • Biorescources, AIT Austrian Institute of Technology Biorescources, Tulln, Austria

    Angela Sessitsch

About the editors

Trevor C. Charles is a Professor in the Department of Biology at the University of Waterloo, Ontario, Canada. His general research area is bacterial molecular genetics. He has a particular interest in members of the Rhizobiales order of the Alphaproteobacteria. His research on microbial communities is directed towards functional metagenomics, which includes the design and implementation of metagenomic library screens for metabolic functions of interest. Some of the metagenome derived genes are being used to develop bacterial strains for bioproducts such as polyhydroxyalkanoate bioplastics. Dr. Charles has published over 80 peer-reviewed papers. 



Mark R. Liles is a Professor in the Department of Biological Sciences at Auburn University. As a postdoctoral scientist, Liles worked with Profs. Jo Handelsman and Robert Goodman at the University of Wisconsin-Madison on developing technology for soil metagenomic research. Ongoing research in Liles’ laboratory focuses on the use of functional metagenomics for the discovery of natural products, and the use of microorganisms for the prevention of disease in aquaculture and agriculture. He has published over 90 peer-reviewed manuscripts.



Angela Sessitsch heads the Bioresources Unit of the AIT Austrian Institute of Technology, Austria’s largest non-university research centre. She is an expert in plant-microbe interactions and microbiome research and ongoing research makes use of metagenomic approaches to obtain functional information of plant microbiomes. A. Sessitsch has published about 150 peer-reviewed papers.

Bibliographic Information

  • Book Title: Functional Metagenomics: Tools and Applications

  • Editors: Trevor C. Charles, Mark R. Liles, Angela Sessitsch

  • DOI: https://doi.org/10.1007/978-3-319-61510-3

  • Publisher: Springer Cham

  • eBook Packages: Biomedical and Life Sciences, Biomedical and Life Sciences (R0)

  • Copyright Information: Springer International Publishing AG 2017

  • Hardcover ISBN: 978-3-319-61508-0Published: 23 October 2017

  • Softcover ISBN: 978-3-319-87096-0Published: 24 August 2018

  • eBook ISBN: 978-3-319-61510-3Published: 09 October 2017

  • Edition Number: 1

  • Number of Pages: VIII, 253

  • Number of Illustrations: 5 b/w illustrations, 28 illustrations in colour

  • Topics: Microbial Genetics and Genomics, Microbial Ecology, Applied Microbiology

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