Systems Synthetic Biology: System Models, User-Oriented Specifications, and Applications

Bor-Sen Chen
National Tsing Hua University, Taiwan
Chih-Yuan Hsu
National Tsing Hua University, China

Series: Systems Biology – Theory, Techniques and Applications
BISAC: SCI013070

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In this book, the synthetic gene circuits are modeled by nonlinear stochastic systems to consider random genetic variations and random in vivo environmental disturbances. The authors’ design purpose is to engineer a robust genetic circuit to achieve a desired behavior or product to tolerate intrinsic random fluctuation and environmental disturbance in the host cell. In this book, the authors first construct several promoter-RBS component libraries according to their regulatory strengths. Then, based on a stochastic system model, they design biological filters, biological transistor biosensors, genetic lysis circuits, and a genetic transmitter and receiver by selecting adequate promoter-RBS components from their corresponding libraries to meet the prescribed design (user-oriented) specifications through the proposed library-based researching method. These synthetic gene circuits are also implemented by real experiments to confirm their design performance in this book. Based on the purposed synthetic design method, we could achieve these design specifications at one time, saving much trial time by the conventional methods. Therefore, the purposed systematic design methods in this book have many potential applications to more complex gene circuit design of systems synthetic biology in the future. (Imprint: Nova)

Preface

Chapter 1. Introduction

Chapter 2. Systematic Biological Filter Design with a Desired I/O Filtering Response Based on Promoter-RBS Libraries

Chapter 3. Systematic Design Methodology for Robust Genetic Transistor

Chapter 4. Systematic Design of a Quorum Sensing-based Biosensor for Enhanced Detection of Metal Ion in Escherichia Coli

Chapter 5. Systematic Design of a Metal Ion Biosensor: a Multi-objective Optimization Approach

Chapter 6. Systematic Approach to Escherichia Coli Cell Population Control Using a Genetic Lysis Circuit

Chapter 7. Engineering Bacteria to Search for Specific Concentration of Molecules by a Systematic synthetic Biology Design Method

Chapter 8. Construction of Promoter-RBS Libraries for the Cyanobacterium Synechococcus SP. PCC 7942 and Their Applications to Systematic synthetic Circuit Design to Match User-Oriented Specifications

Chapter 9. A Robust Design of Quorum Sensing Symbiotic Ecosystems Controlled by Small Molecule Regulators through Cell-Cell Communication

Chapter 10. Systematic Design of a Multicellular Molecular Communication System with Desired Detection Capability, Transduction Ability, and System Sensitivity

Index

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