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Synthetic Biology

Methods and Protocols

  • Book
  • © 2018

Overview

Editors:
  1. Jeffrey Carl Braman

    1. Agilent Technologies, Inc, La Jolla, USA

    View editor publications

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  • Includes cutting-edge methods and protocols for the study of synthetic biology
  • 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 1772)

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About this book

This detailed book explores a few of the plethora of techniques and applications associated with the unique branch of science known as synthetic biology. Chemists, biologists, and engineers engaged in this multidisciplinary field of study will be guided in the creation and regulation of gene circuits, manipulation of biochemical pathways, genome editing and modification, creating genome language and computing, as well as molecular assembly. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step and readily reproducible protocols, plus troubleshooting tips and explanations of how to avoid pitfalls, all written by experts who have published their work in peer-reviewed journals. 

Authoritative and practical, Synthetic Biology: Methods and Protocols provides key guidance and ideas for conducting your own synthetic biology projects.

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Keywords

Table of contents (29 protocols)

  1. Front Matter

    Pages i-xv
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  2. Gene Circuits and Biochemical Pathways

    1. Front Matter

      Pages 1-1
      Download chapter PDF

    2. Re-Factoring Glycolytic Genes for Targeted Engineering of Catabolism in Gram-Negative Bacteria

      • Alberto Sánchez-Pascuala, Pablo I. Nikel, Víctor de Lorenzo
      Pages 3-24

    3. Negative Regulation Gene Circuits for Efflux Pump Control

      • Daniel A. Charlebois, Junchen Diao, Dmitry Nevozhay, Gábor Balázsi
      Pages 25-43

    4. Methods for Generating Microbial Cocultures that Grow in the Absence of Fixed Carbon or Nitrogen

      • Matthew J. Smith, Matthew B. Francis
      Pages 45-60

    5. Synthetic Biology with an All E. coli TXTL System: Quantitative Characterization of Regulatory Elements and Gene Circuits

      • Ryan Marshall, Vincent Noireaux
      Pages 61-93

    6. Transformation of an Exotic Yeast Species into a Platform Organism: A Case Study for Engineering Glycolipid Production in the Yeast Starmerella bombicola

      • Sofie Lodens, Marilyn De Graeve, Sophie L. K. W. Roelants, Sofie L. De Maeseneire, Wim Soetaert
      Pages 95-123

    7. Sortase A-Assisted Metabolic Enzyme Ligation in Escherichia coli for Enhancing Metabolic Flux

      • Takuya Matsumoto, Tsutomu Tanaka, Akihiko Kondo
      Pages 125-136

  3. Genome Editing and Modification

    1. Front Matter

      Pages 137-137
      Download chapter PDF

    2. Construction of CRISPR Libraries for Functional Screening

      • Carsten P. Carstens, Katherine A. Felts, Sarah E. Johns
      Pages 139-150

    3. Targeted Genome Editing Using DNA-Free RNA-Guided Cas9 Ribonucleoprotein for CHO Cell Engineering

      • Jongoh Shin, Namil Lee, Suhyung Cho, Byung-Kwan Cho
      Pages 151-169

    4. Dynamic Management of Codon Compression for Saturation Mutagenesis

      • Gur Pines, Ryan T. Gill
      Pages 171-189

    5. Designed Transcriptional Regulation in Mammalian Cells Based on TALE- and CRISPR/dCas9

      • Tina Lebar, Roman Jerala
      Pages 191-203

    6. Combinatorial Evolution of DNA with RECODE

      • Zhen Kang, Wenwen Ding, Peng Jin, Guocheng Du, Jian Chen
      Pages 205-212

    7. Genome Editing in Penicillium chrysogenum Using Cas9 Ribonucleoprotein Particles

      • Carsten Pohl, László Mózsik, Arnold J. M. Driessen, Roel A. L. Bovenberg, Yvonne I. Nygård
      Pages 213-232

    8. Targeted Gene Knock Out Using Nuclease-Assisted Vector Integration: Hemi- and Homozygous Deletion of JAG1

      • Michael Gapinske, Nathan Tague, Jackson Winter, Gregory H. Underhill, Pablo Perez-Pinera
      Pages 233-248

    9. Programming Biomaterial Interactions Using Engineered Living Cells

      • Keith C. Heyde, Warren C. Ruder
      Pages 249-265

    10. Rapid Control of Genome Editing in Human Cells by Chemical-Inducible CRISPR-Cas Systems

      • Kaiwen Ivy Liu, Muhammad Nadzim Bin Ramli, Norfala-Aliah Binte Sutrisnoh, Meng How Tan
      Pages 267-288

    11. Production of a Human Cell Line with a Plant Chromosome

      • Naoki Wada, Yasuhiro Kazuki, Kanako Kazuki, Toshiaki Inoue, Kiichi Fukui, Mitsuo Oshimura
      Pages 289-296

    12. Bacterial Genome Editing with CRISPR-Cas9: Taking Clostridium beijerinckii as an Example

      • Zhong-Tian Zhang, Pablo Jiménez-Bonilla, Seung-Oh Seo, Ting Lu, Yong-Su Jin, Hans P. Blaschek et al.
      Pages 297-325
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Editors and Affiliations

  • Agilent Technologies, Inc, La Jolla, USA

    Jeffrey Carl Braman

Bibliographic Information

  • Book Title: Synthetic Biology

  • Book Subtitle: Methods and Protocols

  • Editors: Jeffrey Carl Braman

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-4939-7795-6

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

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

  • Hardcover ISBN: 978-1-4939-7794-9Published: 13 May 2018

  • Softcover ISBN: 978-1-4939-9287-4Published: 10 December 2019

  • eBook ISBN: 978-1-4939-7795-6Published: 12 May 2018

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XV, 510

  • Number of Illustrations: 27 b/w illustrations, 82 illustrations in colour

  • Topics: Biochemistry, general

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