Skip to main content
SpringerLink
Log in

Synthetic Metabolic Pathways

Methods and Protocols

  • Book
  • © 2018

Overview

Editors:
  1. Michael Krogh Jensen

    1. The Novo Nordisk Foundation, Center for Biosustainability, Technical University of Denmark, Kongens Lyngby, Denmark

    View editor publications

    You can also search for this editor in PubMed   Google Scholar

  2. Jay D. Keasling

    1. Joint BioEnergy Institute, Emeryville, 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 1671)

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 99.00
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book USD 129.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book USD 179.99
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 (21 protocols)

  1. Front Matter

    Pages i-xii
    Download chapter PDF

  2. Parts and Models for Designing Synthetic Metabolic Pathways

    1. Front Matter

      Pages 1-1
      Download chapter PDF

    2. Parts Characterization for Tunable Protein Expression

      • Michael S. Klausen, Morten O. A. Sommer
      Pages 3-14

    3. Enzyme Nicotinamide Cofactor Specificity Reversal Guided by Automated Structural Analysis and Library Design

      • Jackson K. B. Cahn, Sabine Brinkmann-Chen, Frances H. Arnold
      Pages 15-26

    4. Bacterial Genome Editing Strategy for Control of Transcription and Protein Stability

      • Ida Lauritsen, Virginia Martínez, Carlotta Ronda, Alex Toftgaard Nielsen, Morten H. H. Nørholm
      Pages 27-37

    5. An Automated Pipeline for Engineering Many-Enzyme Pathways: Computational Sequence Design, Pathway Expression-Flux Mapping, and Scalable Pathway Optimization

      • Sean M. Halper, Daniel P. Cetnar, Howard M. Salis
      Pages 39-61

    6. Computational Approaches on Stoichiometric and Kinetic Modeling for Efficient Strain Design

      • Mohammad Mazharul Islam, Rajib Saha
      Pages 63-82

    7. Extended Metabolic Space Modeling

      • Pablo Carbonell, Baudoin Delépine, Jean-Loup Faulon
      Pages 83-96

    8. Computational Methods to Assess the Production Potential of Bio-Based Chemicals

      • Miguel A. Campodonico, Sumesh Sukumara, Adam M. Feist, Markus J. Herrgård
      Pages 97-116

  3. Building and Refactoring Synthetic Metabolic Pathways

    1. Front Matter

      Pages 117-117
      Download chapter PDF

    2. Multiplex Genome Editing in Escherichia coli

      • Sheila Ingemann Jensen, Alex Toftgaard Nielsen
      Pages 119-129

    3. Designing and Implementing Algorithmic DNA Assembly Pipelines for Multi-Gene Systems

      • Szu-Yi Hsu, Michael J. Smanski
      Pages 131-147

    4. An Adaptive Laboratory Evolution Method to Accelerate Autotrophic Metabolism

      • Tian Zhang, Pier-Luc Tremblay
      Pages 149-161

    5. CRISPR-Cas9 Toolkit for Actinomycete Genome Editing

      • Yaojun Tong, Helene Lunde Robertsen, Kai Blin, Tilmann Weber, Sang Yup Lee
      Pages 163-184

    6. Assembly and Multiplex Genome Integration of Metabolic Pathways in Yeast Using CasEMBLR

      • Tadas Jakočiūnas, Emil D. Jensen, Michael K. Jensen, Jay D. Keasling
      Pages 185-201

    7. A Modified Gibson Assembly Method for Cloning Large DNA Fragments with High GC Contents

      • Lei Li, Weihong Jiang, Yinhua Lu
      Pages 203-209

    8. Coupling Yeast Golden Gate and VEGAS for Efficient Assembly of the Violacein Pathway in Saccharomyces cerevisiae

      • James Chuang, Jef D. Boeke, Leslie A. Mitchell
      Pages 211-225

  4. Screening and Selection of Synthetic Metabolic Pathways

    1. Front Matter

      Pages 227-227
      Download chapter PDF

    2. Multi-capillary Column Ion Mobility Spectrometry of Volatile Metabolites for Phenotyping of Microorganisms

      • Christoph Halbfeld, Jörg Ingo Baumbach, Lars M. Blank, Birgitta E. Ebert
      Pages 229-258

    3. Selection of Highly Expressed Gene Variants in Escherichia coli Using Translationally Coupled Antibiotic Selection Markers

      • Maja Rennig, Daniel O. Daley, Morten H. H. Nørholm
      Pages 259-268
Back to top

Keywords

About this book

This volume outlines key steps associated with the design, building, and testing of synthetic metabolic pathways for optimal cell factory performance and robustness, and illustrates how data-driven learning from these steps can be used for rational cost-effective engineering of cell factories with improved performance. Chapters are divided into four sections focusing on the four steps of the iterative design-build-test-learn cycle related to modern cell factory engineering. 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.

Authoritative and practical, Synthetic Metabolic Pathways: Methods and Protocols aims to ensure successful results in the further study of this vital field.

Editors and Affiliations

  • The Novo Nordisk Foundation, Center for Biosustainability, Technical University of Denmark, Kongens Lyngby, Denmark

    Michael Krogh Jensen

  • Joint BioEnergy Institute, Emeryville, USA

    Jay D. Keasling

Bibliographic Information

  • Book Title: Synthetic Metabolic Pathways

  • Book Subtitle: Methods and Protocols

  • Editors: Michael Krogh Jensen, Jay D. Keasling

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-4939-7295-1

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media, LLC 2018

  • Hardcover ISBN: 978-1-4939-7294-4Published: 24 November 2017

  • Softcover ISBN: 978-1-4939-8445-9Published: 30 August 2018

  • eBook ISBN: 978-1-4939-7295-1Published: 23 November 2017

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XII, 354

  • Number of Illustrations: 4 b/w illustrations, 64 illustrations in colour

  • Topics: Human Genetics

Publish with us

Policies and ethics

Back to top

Search

Navigation