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Chemistry - Biotechnology | Engineering and Analyzing Multicellular Systems - Methods and Protocols

Engineering and Analyzing Multicellular Systems

Methods and Protocols

Series: Methods in Molecular Biology, Vol. 1151

Sun, Lianhong, Shou, Wenying (Eds.)

2014, XI, 256 p. 109 illus., 86 illus. in color.

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  • Includes cutting-edge methods and protocols
  • Provides step-by-step detail essential for reproducible results
  • Contains key notes and implementation advice from the experts

Engineering Multicellular Systems: Methods and Protocols, focuses on laboratory procedures used in recent efforts for constructing synthetic multicellular systems and their applications. In particular, constructing multicellular systems to form various microbial ecosystems has been extensively explored to examine evolution and interactions of microbial ecosystems, while co-cultures have emerged as an efficient tool to produce some complex chemical molecules. 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 key tips on troubleshooting and avoiding known pitfalls.

 

Engineering Multicellular Systems: Methods and Protocols provides a comprehensive laboratory protocol reference for constructing multicellular systems for various applications.​

Content Level » Professional/practitioner

Keywords » Microbial ecosystems - cell-cell interactions - engineering genetic - microbial communities - microbial species - predictive mathematical models - synthetic communities

Related subjects » Biotechnology

Table of contents 

Part I: Constructing Multicellular Systems

1. Recent Progress in Engineering Human-associated Microbiomes

Stephanie J. Yaung, George M. Church, Harris H. Wang

2. Constructing Synthetic Microbial Communities to Explore the Ecology and Evolution of Symbiosis

Adam James Waite and Wenying Shou

3. Combining Engineering and Evolution to Create Novel Metabolic Mutualisms Between Species

Lon Chubiz, Sarah Douglas, and William Harcombe

4. Design, Construction, and Characterization Methodologies for Synthetic Microbial Consortia

Hans C. Bernstein and Ross P. Carlson

5. An Observation Method for Autonomous Signaling-mediated Synthetic Diversification in Escherichia coli

Ryoji Sekine, Shotaro Ayukawa, and Daisuke Kiga

6. Integration-free Reprogramming of Somatic Cells to Induced Pluripotent Stem Cells (iPSCs) without Viral Vectors, Recombinant DNA and Genetic Modification

Boon Chin HENG and Martin FUSSENEGGER

7. Transformation of Bacillus subtilis

Xiao-Zhou Zhang, Chun You and Y.-H. Percival Zhang

8. Culturing Anaerobes to use as a Model System for Studying the Evolution of Syntrophic Mutualism

Sujung Lim, Sergey Syolyar, Kristina Hillesland

9. Therapeutic Microbes for Infectious Disease

Choon Kit Wong, Mui Hua Tan, Bahareh Haji Rasouliha, In Young Hwang, Hua Ling, Chueh Loo Poh, and Matthew Wook Chang

Part II: Analyzing and Modeling Multicellular Systems

10. Quantitative Measurement and Analysis in a Synthetic Pattern Formation Multicellular System

Xiongfei Fu and Wei Huang

11. Transcriptome Analysis of a Microbial Coculture in which the Cell Populations are Separated by a Membrane

Kazufumi Hosoda, Naoaki Ono, Shingo Suzuki, and Tetsuya Yomo

12. Identification of Mutations in Laboratory Evolved Microbes from Next-generation Sequencing data using breseq

Daniel E. Deatherage and Jeffrey E. Barrick

13. 3D-Fluorescence in situ Hybridization of Intact, Anaerobic Biofilm

Kristen A. Brileya, Laura B. Camilleri, and Matthew W. Fields

14. The Characterization of Living Bacterial Colonies Using Nanospray Desorption Electrospray Ionization Mass Spectrometry

Brandi S. Heath, Matthew J. Marshall, Julia Laskin

15. Modeling Community Population Dynamics with the Open-Source Language R

Robin Green and Wenying Shou

16. Simulating Microbial Community Patterning using Biocellion

Seunghwa Kang, Simon Kahan, Babak Momeni 

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