New Frontiers and Applications of Synthetic Biology

New Frontiers and Applications of Synthetic Biology

1st Edition - January 12, 2022

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  • Editor: Vijai Singh
  • Paperback ISBN: 9780128244692
  • eBook ISBN: 9780323859868

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Description

New Frontiers and Applications of Synthetic Biology presents a collection of chapters from eminent synthetic biologists across the globe who have established experience and expertise working with synthetic biology. This book offers several important areas of synthetic biology which allow us to read and understand easily. It covers the introduction of synthetic biology and design of promoter, new DNA synthesis and sequencing technology, genome assembly, minimal cells, small synthetic RNA, directed evolution, protein engineering, computational tools, de novo synthesis, phage engineering, a sensor for microorganisms, next-generation diagnostic tools,  CRISPR-Cas systems, and more. This book is a good source for not only researchers in designing synthetic biology, but also for researchers, students, synthetic biologists, metabolic engineers, genome engineers, clinicians, industrialists, stakeholders and policymakers interested in harnessing the potential of synthetic biology in many areas.

Key Features

  • Offers basic understanding and knowledge in several aspects of synthetic biology
  • Covers state-of-the-art tools and technologies of synthetic biology, including promoter design, DNA synthesis, DNA sequencing, genome design, directed evolution, protein engineering, computational tools, phage design, CRISPR-Cas systems, and more
  • Discusses the applications of synthetic biology for smart drugs, vaccines, therapeutics, drug discovery, self-assembled materials, cell free systems, microfluidics, and more

Readership

Synthetic biology researchers, students, industrialists, policymakers and stakeholders

Table of Contents

  • Cover image
  • Title page
  • Table of Contents
  • Copyright
  • Dedication
  • List of contributors
  • About the editor
  • Foreword
  • Preface
  • Acknowledgments
  • Chapter 1. An introduction to advanced technologies in synthetic biology
  • Abstract
  • 1.1 Introduction
  • 1.2 A brief milestone in synthetic biology
  • 1.3 Advanced technologies in synthetic biology
  • 1.4 Conclusion and future remarks
  • Acknowledgments
  • References
  • Chapter 2. Design and characterization of synthetic promoters
  • Abstract
  • 2.1 Introduction
  • 2.2 Design and characterization of synthetic promoters in prokaryotes, cyanobacteria, and plants
  • 2.3 Design and characterization of synthetic promoters in higher eukaryotes
  • 2.4 Conclusion
  • Acknowledgments
  • References
  • Chapter 3. Recent development in DNA synthesis technology
  • Abstract
  • 3.1 Introduction
  • 3.2 Preliminary techniques of DNA synthesis
  • 3.3 Current progress in DNA synthesis technology
  • 3.4 Concluding remarks
  • References
  • Chapter 4. Advances, challenges, and opportunities in DNA sequencing technology
  • Abstract
  • 4.1 Introduction
  • 4.2 Generations of DNA sequencing methods
  • 4.3 Applications of DNA sequencing methods in synthetic biology
  • 4.4 Conclusions and future outlook
  • References
  • Chapter 5. Recent developments in genome design and assembly tools
  • Abstract
  • 5.1 Introduction
  • 5.2 Knowledge as base of genome design: historical evolution
  • 5.3 Genome design, assembly, and editing
  • 5.4 Applications of the genome-editing technology
  • 5.5 Conclusions and future perspectives
  • 5.6 Acknowledgments
  • References
  • Chapter 6. Design, building, and challenges in synthetic genomics
  • Abstract
  • 6.1 Introduction: what is synthetic biology?
  • 6.2 Synthetic genomics
  • 6.3 Synthetic genomes
  • 6.4 Emerging tools for synthetic genome design and assembly
  • 6.5 Putting synthetic in “synthetic genomes”: synthetic genome projects
  • 6.6 Conclusion and future directions
  • References
  • Further reading
  • Chapter 7. Synthetic minimal cells and their applications
  • Abstract
  • 7.1 Introduction
  • 7.2 Top-down approach for building synthetic minimal cells
  • 7.3 Bottom-up approach for building synthetic cells using existing biochemistry
  • 7.4 Applications
  • 7.5 Conclusion and perspectives
  • References
  • Chapter 8. Small RNA-based systems for sensing and therapeutic applications
  • Abstract
  • 8.1 Introduction
  • 8.2 Methods for engineering RNA sensors based on aptamers and ribozymes
  • 8.3 Ribozymes as biosensors in high-throughput screening arrays
  • 8.4 Designer ribozymes as molecular computing devices
  • 8.5 Ribozyme-based control of gene expression
  • 8.6 External-guided RNA sequences and antisense oligonucleotides
  • 8.7 Future perspective of RNA synthetic biology
  • 8.8 Conclusions
  • Acknowledgments
  • References
  • Chapter 9. High-throughput navigation of the sequence space
  • Abstract
  • 9.1 Introduction
  • 9.2 What is fitness?
  • 9.3 Tools to generate gene/pathway/genome diversity
  • 9.4 Conclusion
  • Acknowledgments
  • References
  • Chapter 10. Advances in protein engineering and its application in synthetic biology
  • Abstract
  • 10.1 Introduction
  • 10.2 Protein engineering strategies
  • 10.3 Computer-aided design for protein engineering
  • 10.4 Trends in protein engineering
  • 10.5 Concluding remarks and future perspectives
  • Acknowledgments
  • References
  • Chapter 11. Computational tools for design of synthetic genetic circuits
  • Abstract
  • 11.1 Introduction
  • 11.2 Components of genetic circuits
  • 11.3 Design principles of synthetic genetic circuits
  • 11.4 Design considerations for circuit architecture
  • 11.5 Use of mathematical modeling to design synthetic genetic circuits
  • 11.6 Examples of mathematical models for construction of synthetic genetic circuits
  • 11.7 Automation of genetic circuit design
  • 11.8 Computational tools for design, modeling, and analysis of synthetic genetic circuits
  • 11.9 Challenges in synthetic genetic circuit design
  • 11.10 Conclusion
  • References
  • Chapter 12. Computational tools for synthetic gene optimization
  • Abstract
  • 12.1 Introduction
  • 12.2 Optimization objectives
  • 12.3 Tools
  • 12.4 Concluding remarks
  • References
  • Chapter 13. De novo design and synthesis of biomolecules
  • Abstract
  • 13.1 Introduction
  • 13.2 De novo design and synthesis of proteins and enzymes
  • 13.3 De novo design of metabolic pathways
  • References
  • Chapter 14. A retrobiosynthetic approach for production, conversion, sensing, dynamic regulation and degradation of molecules
  • Abstract
  • 14.1 Introduction
  • 14.2 Retrobiosynthesis tools
  • 14.3 Pathway engineering
  • 14.4 Biosensor development
  • 14.5 Pathway dynamic regulation
  • 14.6 Degradation routes
  • 14.7 Machine learning in retrobiosynthesis
  • 14.8 Integration of retrobiosynthesis tools into automated workflows
  • 14.9 Conclusions and future perspectives
  • Acknowledgments
  • References
  • Chapter 15. Advances in engineering of bacteriophages for therapeutic applications
  • Abstract
  • 15.1 Phage therapy
  • 15.2 Engineering techniques
  • 15.3 Isolation, purification, and characterization
  • 15.4 Therapeutic applications
  • 15.5 Conclusion
  • References
  • Chapter 16. Design of synthetic biology for the detection of microorganisms
  • Abstract
  • 16.1 Introduction
  • 16.2 Nucleic acids–based detection
  • 16.3 Other biosignature-based microbe detection
  • 16.4 Conclusions
  • Acknowledgments
  • References
  • Chapter 17. Design of synthetic biological devices for detection and targeting human diseases
  • Abstract
  • 17.1 Introduction
  • 17.2 Synthetic biology and metabolic disease sensing/treatment
  • 17.3 Synthetic biology and cancer targeting
  • 17.4 Synthetic biology approach for sensing of infectious agents
  • 17.5 Synthetic biology approaches for toxicity sensing using engineered cells
  • 17.6 Conclusion and future perspectives
  • References
  • Chapter 18. Engineering cell-based therapies
  • Abstract
  • 18.1 Introduction
  • 18.2 Synthetic biology tools for gene expression control in mammalian cells
  • 18.3 Engineering mammalian cells for diverse applications
  • 18.4 Synthetic biology approaches to boost immune cell therapy in cancer
  • 18.5 Engineering immune cells to suppress autoimmunity
  • 18.6 Other players in T-cell-based therapies efficacy
  • 18.7 Conclusion
  • Competing interests
  • References
  • Chapter 19. Development of next-generation diagnostic tools using synthetic biology
  • Abstract
  • 19.1 Introduction to synthetic biology and diagnostics
  • 19.2 Platforms for biosensors
  • 19.3 Genetic circuits
  • 19.4 RNA regulators
  • 19.5 CRISPR–Cas
  • 19.6 Direct detection biosensors
  • 19.7 Activity-based molecular sensors
  • 19.8 Conclusions and future perspectives
  • References
  • Chapter 20. Advances and application of CRISPR-Cas systems
  • Abstract
  • 20.1 Introduction to CRISPR-Cas systems
  • 20.2 Applications of CRISPR-Cas systems in bacteria
  • 20.3 Application of CRISPR-Cas systems in plants
  • 20.4 Applications of CRISPR-Cas systems in human cells
  • 20.5 Concluding remarks and future perspectives
  • Acknowledgments
  • References
  • Chapter 21. Synthetic biology for smart drug biosynthesis and delivery
  • Abstract
  • 21.1 Introduction
  • 21.2 Synthetic biology for therapeutic production
  • 21.3 Choosing the host organism
  • 21.4 Natural hosts
  • 21.5 Multiple hosts
  • 21.6 Choosing enzymatic steps pathway
  • 21.7 Optimizing the pathway yield
  • 21.8 Pathway gene expression analysis
  • 21.9 Protein engineering and operated evolution
  • 21.10 Genome engineering
  • 21.11 The relevance of targeted therapy through synthetic biology
  • 21.12 Synthetic biology techniques for the biopharmaceutical industry
  • 21.13 Gene synthesis error prevention technologies
  • 21.14 Synthetic proteins
  • 21.15 Synthetic biology and microencapsulation
  • 21.16 Effect of synthetic biology on the discovery and development of drugs
  • 21.17 Synthetic biology versus metabolic engineering
  • 21.18 Synthetic biology versus drug discovery
  • 21.19 Application of the synthetic biology approach to personalized medicine
  • 21.20 Synthetic biology and custom approach to pathogenic microbes
  • 21.21 Synthetic biology and customized cancer approach
  • 21.22 Synthetic biology and cell therapy
  • 21.23 Synthetic biology and vaccine
  • 21.24 Synthetic biology and personalized cancer treatment
  • 21.25 Regulatory problems linked to synthetic biology
  • 21.26 Funding for synthetic biology study
  • 21.27 Future prospects for synthetic biology
  • 21.28 Conclusion
  • References
  • Chapter 22. Design and applications of self-assembled soft living materials using synthetic biology
  • Abstract
  • 22.1 Introduction
  • 22.2 Design
  • 22.3 Applications
  • 22.4 Future perspectives
  • References
  • Chapter 23. Synthetic gene circuits for higher-order information processing
  • Abstract
  • 23.1 Introduction
  • 23.2 Synthetic higher-order information processing gene circuits for complex computation
  • 23.3 Understanding biological phenomena through the bottom-up synthetic biology approach
  • 23.4 Application-based synthetic gene circuits
  • 23.5 Challenges and outlook
  • References
  • Chapter 24. Cell-free synthetic biology as an emerging biotechnology
  • Abstract
  • 24.1 Introduction
  • 24.2 Cell-free protein synthesis platforms
  • 24.3 Functional protein production
  • 24.4 Genetic circuits
  • 24.5 Metabolic engineering
  • 24.6 Conclusions and perspective
  • Acknowledgments
  • Competing financial interests
  • References
  • Chapter 25. Recent development and applications of xeno nucleic acids
  • Abstract
  • 25.1 Introduction
  • 25.2 Structural diversity and applications of XNAs
  • 25.3 Expansion of genetic code alphabet
  • 25.4 Conclusion and future remarks
  • Acknowledgments
  • References
  • Chapter 26. Developments in the use of microfluidics in synthetic biology
  • Abstract
  • 26.1 Introduction
  • 26.2 Microfluidic technology
  • 26.3 Applications of microfluidics in synthetic biology
  • 26.4 Conclusion
  • References
  • Chapter 27. Implications of synthetic biology research and development: a structured ethical analysis
  • Abstract
  • 27.1 Introduction
  • 27.2 Respect
  • 27.3 Well-being
  • 27.4 Autonomy
  • 27.5 Fairness
  • 27.6 Matrix integration
  • 27.7 Conclusions
  • References
  • Index

Product details

  • No. of pages: 486
  • Language: English
  • Copyright: © Academic Press 2022
  • Published: January 12, 2022
  • Imprint: Academic Press
  • Paperback ISBN: 9780128244692
  • eBook ISBN: 9780323859868

About the Editor

Vijai Singh

Dr Vijai Singh is an Associate Professor and Dean (Research & Innovation) at School of Sciences, Indrashil University, Rajpur, Mehsana, Gujarat, India. He was an Assistant Professor in the Department of Biological Sciences and Biotechnology at the Institute of Advanced Research, Gandhinagar, India and also an Assistant Professor in the Department of Biotechnology at the Invertis University, Bareilly, India. Prior to that, he was a Postdoctoral Fellow in the Synthetic Biology Group at the Institute of Systems and Synthetic Biology, Paris, France and School of Energy & Chemical Engineering at the Ulsan National Institute of Science and Technology, Ulsan, South Korea. He received his Ph.D. in Biotechnology (2009) from the National Bureau of Fish Genetic Resources, Uttar Pradesh Technical University, Lucknow, India with a research focus on the development of molecular and immunoassays for diagnosis of Aeromonas hydrophila. His research interests are focused on design of a novel biosynthetic pathways for production of medically and industrially important biomolecules. Additionally, his laboratory focuses on development and implementation of CRISPR-Cas systems for genome editing, regulation and diagnosis. His laboratory is supported by projects from Government of India and industry. He has more than 10 years of research and teaching experience in synthetic biology, metabolic engineering, bioinformatics, microbiology, and industrial microbiology. He has published 79 articles, 51 chapters, 15 books and 4 patents. He serves as an associate editor, editorial board member, and reviewer of several peer-reviewed journals. He is also a member of the Board of Study and Academic Council of Indrashil University and is the Member Secretary of the Institutional Biosafety Committee (IBSC) at the same University.

Affiliations and Expertise

Associate Professor and Dean (Research and Innovation), School of Sciences, Indrashil University, Rajpur, Mehsana, Gujarat, India

Ratings and Reviews

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  • Dr P. Sun Jun 26 2022

    New Frontiers and Applications of Synthetic Biology

    Interesting and informative book. Useful for academician and researchers.

  • Dr. S. Sun Jun 19 2022

    Precisely edited book

    The book has been created and edited in such a manner that it provides you basics to recent trends in synthetic biology. High quality chapters written by diverse group of experienced authors increases overall quality of the book.