Synthetic Metabolic Pathways

Methods and Protocols

  • Michael Krogh Jensen
  • Jay D. Keasling

Part of the Methods in Molecular Biology book series (MIMB, volume 1671)

Table of contents

  1. Front Matter
    Pages i-xii
  2. Parts and Models for Designing Synthetic Metabolic Pathways

    1. Front Matter
      Pages 1-1
    2. Michael S. Klausen, Morten O. A. Sommer
      Pages 3-14
    3. Jackson K. B. Cahn, Sabine Brinkmann-Chen, Frances H. Arnold
      Pages 15-26
    4. Ida Lauritsen, Virginia Martínez, Carlotta Ronda, Alex Toftgaard Nielsen, Morten H. H. Nørholm
      Pages 27-37
    5. Pablo Carbonell, Baudoin Delépine, Jean-Loup Faulon
      Pages 83-96
    6. 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
    2. Sheila Ingemann Jensen, Alex Toftgaard Nielsen
      Pages 119-129
    3. Yaojun Tong, Helene Lunde Robertsen, Kai Blin, Tilmann Weber, Sang Yup Lee
      Pages 163-184
    4. Tadas Jakočiūnas, Emil D. Jensen, Michael K. Jensen, Jay D. Keasling
      Pages 185-201
  4. Screening and Selection of Synthetic Metabolic Pathways

    1. Front Matter
      Pages 227-227
    2. Christoph Halbfeld, Jörg Ingo Baumbach, Lars M. Blank, Birgitta E. Ebert
      Pages 229-258
    3. Francesca Ambri, Tim Snoek, Mette L. Skjoedt, Michael K. Jensen, Jay D. Keasling
      Pages 269-290
    4. Lasse H. Lauridsen, Holger B. Doessing, Katherine S. Long, Alex T. Nielsen
      Pages 291-306
    5. Mingtao Huang, Haakan N. Joensson, Jens Nielsen
      Pages 307-317
  5. Learnings from Design-Build-Test-based Projects

    1. Front Matter
      Pages 331-331
    2. David Ando, Hector Garcia Martin
      Pages 333-352
  6. Back Matter
    Pages 353-354

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.


cell factory Genome-scale metabolism prototyping Prokaryote

Editors and affiliations

  • Michael Krogh Jensen
    • 1
  • Jay D. Keasling
    • 2
  1. 1.The Novo Nordisk Foundation, Center for BiosustainabilityTechnical University of DenmarkKongens LyngbyDenmark
  2. 2.Joint BioEnergy InstituteEmeryvilleUSA

Bibliographic information

  • DOI
  • Copyright Information Springer Science+Business Media, LLC 2018
  • Publisher Name Humana Press, New York, NY
  • eBook Packages Springer Protocols
  • Print ISBN 978-1-4939-7294-4
  • Online ISBN 978-1-4939-7295-1
  • Series Print ISSN 1064-3745
  • Series Online ISSN 1940-6029
  • Buy this book on publisher's site
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