Synthetic Gene Networks

This book shows how to design and build synthetic gene networks in
different host backgrounds. Coverage includes concepts for devising synthetic gene networks and application of mathematical models to the predictable engineering of desired network features.

The rapid expansion of synthetic biology is due to the design and construction of synthetic gene networks that have opened many new avenues in fundamental and applied research. Synthetic Gene Networks: Methods and Protocols provides the necessary information to design and construct synthetic gene networks in different host backgrounds. Divided into four convenient sections, this volume focuses on design concepts to devise synthetic gene networks and how mathematical models can be applied to the predictable engineering of desired network features. The volume continues by highlighting the construction and validation of biologic tools, describing strategies to optimize and streamline the host cell for optimized network performance, and covering how optimally designed gene networks can be implemented in a large variety of host cells ranging from bacteria over yeast and insect cells to plant and mammalian cell culture. Written in the 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 protocols, and notes on troubleshooting and avoiding known pitfalls.

Authoritative and easily accessible, Synthetic Gene Networks: Methods and Protocols serves as an invaluable resource for established biologists, engineers, and computer scientists or novices just entering into the rapidly growing field of synthetic biology

Includes cutting-edge methods and protocols Provides step-by-step detail essential for reproducible results Contains key notes and implementation advice from the experts Includes supplementary material: sn.pub/extras

Inhalt

In silico Implementation of Synthetic Gene Networks.- Standardization in Synthetic Biology.- Robust Optimal Design of Synthetic Biological Networks.- Predicting Synthetic Gene Networks.- Reprogramming a GFP Reporter Gene Subjects it to Complex Lentiviral Gene Regulation.- A High-throughput Microfluidic Method for Generating and Characterizing Transcription Factor Mutant Libraries.- Identifying and Optimizing Intracellular Protein-protein Interactions using Bacterial Genetic Selection.- Zinc-finger Nucleases Based Genome Engineering to Generate Isogenic Human Cell Lines.- RNA-based Networks: Using RNA Aptamers and Ribozymes as Synthetic Genetic Devices.- MicroRNA Circuits for Transcriptional Logic.- Light-regulated Gene Expression in Yeast.- Light-controlled Gene Switches in Mammalian Cells.- Expressed Protein Modifications: Making Synthetic Proteins.- Using Transcription Machinery Engineering to Elicit Complex Cellular Phenotypes.- Streamlining of a Pseudomonas putida Genome using a Combinatorial Deletion Method Based on Mini-transposon Insertion and the Flp-FRT Recombination System.- Transposon-based and Plasmid-based Genetic Tools for Editing Genomes of Gram-negative Bacteria.- Synthetic Networks: Oscillators and Toggle Switches for Escherichia coli.- Studying Microbial Communities in Biofilms.- Quantitative Analysis of the Spatiotemporal Dynamics of a Synthetic Predator-prey Ecosystem.- Drosophila S2 Schneider Cells A Useful Tool for Rebuilding and Redesigning Approaches in Synthetic Biology.- Synthetic Gene Networks in Plant Systems.- Design and Construction of Synthetic Gene Networks in Mammalian Cells.- Synthetic Gene Networks as Blueprint for Smart Hydrogels.