Springer Protocols Handbooks Hydrocarbon and Lipid Microbiology Protocols

Hydrocarbon and Lipid Microbiology Protocols

Genetic, Genomic and System Analyses of Pure Cultures

Editors: McGenity, Terry J., Timmis, Kenneth N., Fernandez, Balbina Nogales (Eds.)

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About this book

This Volume presents a comprehensive series of generic protocols for the genetic and genomic analysis of prokaryotic isolates. Genetic methods for functional analyses employ the latest cloning vectors, gene fusion methods and transposon mutagenesis systems, as well as systems for introducing protease-cleavage sequences into permissive sites in proteins under investigation. Genomic methods described include protocols for transcriptomics, shotgun proteomics, interactomics, metabolic profiling, and lipidomics. Bioinformatic tools for genome annotation, transcriptome display and the integration of transcriptomic data into genome-scale metabolic reconstructions are described. Protocols for 13C-based metabolic flux determinations and analysis of the hierarchical and metabolic regulation of fluxes through pathways are included. The Volume thus enables investigators to functionally analyse an isolate over the entire cellular range spanning the gene, the genome, the transcript repertoire, the proteome, the interactome, the metabolic network with its nodes and their regulatory hierarchies, and the metabolic fluxes and their physiological controls.

Hydrocarbon and Lipid Microbiology Protocols

There are tens of thousands of structurally different hydrocarbons, hydrocarbon derivatives and lipids, and a wide array of these molecules are required for cells to function. The global hydrocarbon cycle, which is largely driven by microorganisms, has a major impact on our environment and climate. Microbes are responsible for cleaning up the environmental pollution caused by the exploitation of hydrocarbon reservoirs and will also be pivotal in reducing our reliance on fossil fuels by providing biofuels, plastics and industrial chemicals. Gaining an understanding of the relevant functions of the wide range of microbes that produce, consume and modify hydrocarbons and related compounds will be key to responding to these challenges. This comprehensive collection of current and emerging protocols will facilitate acquisition of this understanding and exploitation of useful activities of such microbes.

Table of contents (14 chapters)

Table of contents (14 chapters)
  • Introduction to Genetic, Genomic and System Analyses of Pure Cultures

    Lorenzo, Víctor

    Pages 1-7

  • Broadening the SEVA Plasmid Repertoire to Facilitate Genomic Editing of Gram-Negative Bacteria

    Aparicio, Tomás (et al.)

    Pages 9-27

  • Protocols on Regulation of Gene Expression

    Hernández-Arranz, Sofía (et al.)

    Pages 29-50

  • Genetic, Genomic, and System Analyses for Pure Cultures and Communities: Protocol – Ultra-High-Throughput Transposon Scanning of Bacterial Genomes

    Roggo, Clémence (et al.)

    Pages 51-70

  • Knock-In-Leave-Behind (KILB): Genetic Grafting of Protease-Cleaving Sequences into Permissive Sites of Proteins with a Tn5-Based Transposition System

    Calles, Belén (et al.)

    Pages 71-85

Buy this book

eBook $89.00
price for USA in USD (gross)
  • ISBN 978-3-662-50435-2
  • Digitally watermarked, DRM-free
  • Included format: PDF, EPUB
  • ebooks can be used on all reading devices
  • Immediate eBook download after purchase
Hardcover $159.99
price for USA in USD
  • ISBN 978-3-662-50433-8
  • Free shipping for individuals worldwide
  • Usually dispatched within 3 to 5 business days.
Softcover $119.99
price for USA in USD
  • ISBN 978-3-662-57059-3
  • Free shipping for individuals worldwide
  • Usually dispatched within 3 to 5 business days.
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Bibliographic Information

Bibliographic Information
Book Title
Hydrocarbon and Lipid Microbiology Protocols
Book Subtitle
Genetic, Genomic and System Analyses of Pure Cultures
Editors
  • Terry J. McGenity
  • Kenneth N. Timmis
  • Balbina Nogales Fernandez
Series Title
Springer Protocols Handbooks
Copyright
2017
Publisher
Springer-Verlag Berlin Heidelberg
Copyright Holder
Springer-Verlag Berlin Heidelberg
eBook ISBN
978-3-662-50435-2
DOI
10.1007/978-3-662-50435-2
Hardcover ISBN
978-3-662-50433-8
Softcover ISBN
978-3-662-57059-3
Series ISSN
1949-2448
Edition Number
1
Number of Pages
X, 258
Number of Illustrations
21 b/w illustrations, 29 illustrations in colour
Topics