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Springer Protocols Handbooks Hydrocarbon and Lipid Microbiology Protocols

Hydrocarbon and Lipid Microbiology Protocols

Synthetic and Systems Biology - Tools

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

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  • ISBN 978-3-662-50432-1
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  • ISBN 978-3-662-57058-6
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About this book

This Volume presents generic protocols for wet experimental and computer-based systems and synthetic biology approaches relevant to the field of hydrocarbon and lipid microbiology. It complements a second Volume that describes protocols for systems and synthetic biology applications. The wet experimental tools presented in this Volume include protocols for the standardisation of transcriptional measurements, application of uracil excision-based DNA editing for, inter alia, multi-gene assembly, the use of fluxomics to optimise “reducing power availability”, and the incorporation of non-canonical amino acids into proteins for optimisation of activities. Phenome-ing microbes, using a combination of RNA-seq and bioinformatic algorithms, is presented, as is an illustration, using methylotrophs as an example, of how the different key omics approaches constitute a pipeline for functional analysis, acquisition of a systems overview, and metabolic optimisation. Complementary computational tools that are presented include protocols for probing the genome architecture of regulatory networks, genome-scale metabolic reconstruction, and bioinformatic approaches to guide metabolic engineering. The Volume also includes an overview of how synthetic biology approaches can be used to improve biocontainment. Hydrocarbon and Lipid Microbiology ProtocolsThere 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 (11 chapters)

Table of contents (11 chapters)
  • Systems and Synthetic Biology in Hydrocarbon Microbiology: Tools

    Pages 1-7

    Lorenzo, Víctor

  • Protocol for the Standardisation of Transcriptional Measurements

    Pages 9-26

    Hirst, Christopher D. (et al.)

  • Uracil Excision for Assembly of Complex Pathways

    Pages 27-37

    Cavaleiro, Ana Mafalda (et al.)

  • Quantitative Physiology Approaches to Understand and Optimize Reducing Power Availability in Environmental Bacteria

    Pages 39-70

    Nikel, Pablo I. (et al.)

  • Design of Orthogonal Pairs for Protein Translation: Selection Systems for Genetically Encoding Noncanonical Amino Acids in E. coli

    Pages 71-82

    Jaric, Jelena (et al.)

Buy this book

eBook $89.00
price for USA in USD (gross)
  • ISBN 978-3-662-50432-1
  • Digitally watermarked, DRM-free
  • Included format: EPUB, PDF
  • ebooks can be used on all reading devices
  • Immediate eBook download after purchase
Hardcover $159.99
price for USA in USD
  • ISBN 978-3-662-50430-7
  • Free shipping for individuals worldwide
  • Usually dispatched within 3 to 5 business days.
Softcover $119.00
price for USA in USD
  • ISBN 978-3-662-57058-6
  • 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
Synthetic and Systems Biology - Tools
Editors
  • Terry J. McGenity
  • Kenneth N. Timmis
  • Balbina Nogales Fernandez
Series Title
Springer Protocols Handbooks
Copyright
2016
Publisher
Springer-Verlag Berlin Heidelberg
Copyright Holder
Springer-Verlag Berlin Heidelberg
eBook ISBN
978-3-662-50432-1
DOI
10.1007/978-3-662-50432-1
Hardcover ISBN
978-3-662-50430-7
Softcover ISBN
978-3-662-57058-6
Series ISSN
1949-2448
Edition Number
1
Number of Pages
X, 199
Topics