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Microbial Metabolic Engineering

Methods and Protocols

  • Book
  • © 2019

Overview

Editors:
  1. Christine Nicole S. Santos

    1. Manus Bio, Cambridge, USA

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    You can also search for this editor in PubMed   Google Scholar

  2. Parayil Kumaran Ajikumar

    1. Manus Bio, Cambridge, USA

    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

Part of the book series: Methods in Molecular Biology (MIMB, volume 1927)

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Table of contents (16 protocols)

  1. Front Matter

    Pages i-x
    Download chapter PDF

  2. Pathway and Gene Discovery from Natural Hosts and Organisms

    • Jing Ke, Yasuo Yoshikuni
    Pages 1-9

  3. Metabolic In Silico Network Expansions to Predict and Exploit Enzyme Promiscuity

    • James Jeffryes, Jonathan Strutz, Chris Henry, Keith E. J. Tyo
    Pages 11-21

  4. Antisense RNA Elements for Downregulating Expression

    • Yaping Yang, Jian Wang, Ruihua Zhang, Yajun Yan
    Pages 23-35

  5. Chemically Inducible Chromosomal Evolution (CIChE) for Multicopy Metabolic Pathway Engineering

    • Aaron M. Love, Bradley W. Biggs, Keith E. J. Tyo, Parayil Kumaran Ajikumar
    Pages 37-45

  6. Bacterial Expression of Membrane-Associated Cytochrome P450s and Their Activity Assay in Nanodiscs

    • Demetrios Maroutsos, Hannah Huff, Aditi Das
    Pages 47-72

  7. Delta Integration CRISPR-Cas (Di-CRISPR) in Saccharomyces cerevisiae

    • Shuobo Shi, Youyun Liang, Ee Lui Ang, Huimin Zhao
    Pages 73-91

  8. Assembly of Complex Pathways Using Type IIs Restriction Enzymes

    • Sylvestre Marillonnet, Stefan Werner
    Pages 93-109

  9. Combinatorial Assembly of Multigene Pathways by Combining Single-Strand Assembly with Golden Gate Assembly

    • D. Bauwens, P. Coussement, J. Maertens, Marjan De Mey
    Pages 111-123

  10. Checks and Balances with Use of the Keio Collection for Phenotype Testing

    • Sandra J. Aedo, Helena R. Ma, Mark P. Brynildsen
    Pages 125-138

  11. Genetic Engineering of Cyanobacteria: Design, Implementation, and Characterization of Recombinant Synechocystis sp. PCC 6803

    • Jacob Sebesta, Allison Werner, Christie Ann Marie Peebles
    Pages 139-154

  12. Genetic Tools for Streamlined and Accelerated Pathway Engineering in Yarrowia lipolytica

    • Lynn Wong, Benjamin Holdridge, Jake Engel, Peng Xu
    Pages 155-177

  13. Gas Chromatography–Mass Spectrometry Microbial Metabolomics for Applications in Strain Optimization

    • McKenzie L. Smith, April M. Miguez, Mark P. Styczynski
    Pages 179-189

  14. Targeted Mass Spectrometry-Based Proteomics Tools for Strain Optimization

    • Hsien-Chung Tseng, Christine Nicole S. Santos
    Pages 191-201

  15. A Protocol for the Construction and Curation of Genome-Scale Integrated Metabolic and Regulatory Network Models

    • Sriram Chandrasekaran
    Pages 203-214

  16. 13C-Fingerprinting and Metabolic Flux Analysis of Bacterial Metabolisms

    • Whitney Hollinshead, Lian He, Yinjie J. Tang
    Pages 215-230

  17. A Genetic Screen for the Isolation of Mutants with Increased Flux in the Isoprenoid Pathway of Yeast

    • Manisha Wadhwa, Anand K. Bachhawat
    Pages 231-246

  18. Back Matter

    Pages 247-252
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Keywords

About this book

This volume covers a wide array of topics that will aid researchers in the task of engineering complex biological systems. This book is divided into three parts: Part One discusses the discovery and identification of relevant biosynthetic pathways for engineering; Part Two looks at the development of genetic tools for manipulating enzymes, biosynthetic pathways, and whole genomes; and Part Three covers the characterization of engineered microbes using targeted and global systems biology tools, as well as in silico models. Chapters explore topics such as leveraging enzyme promiscuity to construct novel biosynthetic pathways; assembling combinatorial multigene pathways for rapid strain optimization; applying 'omics technologies for identifying bottlenecks; and engineering nontraditional host organisms like cyanobacterium and Yarrowia lipolytica. 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, Microbial Metabolic Engineering: Methods and Protocols is a valuable resource for researchers and scientists interested in engineering and optimizing microbes for a variety of biotechnological applications.

Editors and Affiliations

  • Manus Bio, Cambridge, USA

    Christine Nicole S. Santos, Parayil Kumaran Ajikumar

Bibliographic Information

  • Book Title: Microbial Metabolic Engineering

  • Book Subtitle: Methods and Protocols

  • Editors: Christine Nicole S. Santos, Parayil Kumaran Ajikumar

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-4939-9142-6

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media, LLC, part of Springer Nature 2019

  • Hardcover ISBN: 978-1-4939-9141-9Published: 21 February 2019

  • eBook ISBN: 978-1-4939-9142-6Published: 20 February 2019

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: X, 252

  • Number of Illustrations: 7 b/w illustrations, 39 illustrations in colour

  • Topics: Biomedical Engineering/Biotechnology, Microbiology

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