Current Developments in Biotechnology and Bioengineering

Designer Microbial Cell Factories: Metabolic Engineering and Applications

1st Edition - April 29, 2022
Imprint: Elsevier
Editors: Swati Joshi, Ashok Pandey, Ranjna Sirohi, Sung Hoon Park
Language: English
Paperback ISBN:
9 7 8 - 0 - 3 2 3 - 8 8 5 0 4 - 1
eBook ISBN:
9 7 8 - 0 - 3 2 3 - 8 8 5 1 2 - 6

Designer Microbial Cell Factories: Metabolic Engineering and Applications, the latest release in the Current Developments in Biotechnology and Bioengineering series, provides… Read more

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Designer Microbial Cell Factories: Metabolic Engineering and Applications, the latest release in the Current Developments in Biotechnology and Bioengineering series, provides a detailed overview of the biotechnological approaches and strategies used to generate engineered microbes and to facilitate the acceleration, modulation and diversion of metabolic pathways to get desired output such as production of value-added compound or biodegradation of xenobiotic pollutant. The book also highlights applied aspects of designer microbes in fields as diverse as agriculture, pharmaceuticals and bioremediation.

Designer microbes generated through reprogramming the microbial cell factories (MCFs) provide an edge over their natural counterparts in terms of increased molecular diversity and selective chemistry. These bugs are becoming instrumental in several areas, including agriculture, environment and human health. Engineering microbes through directed evolution not only gives freedom from evolutionary constrains but also allow introduction of regulated and foreseeable functions into MCFs.

Cover image
Title page
Table of Contents
Copyright
List of contributors
Preface
Section I: Metabolic Engineering of Cells: General and Basics
Chapter 1. Metabolic engineering: tools for pathway rewiring and value creation
Abstract
1.1 Introduction
1.2 Tools for metabolic engineering
1.3 Value generation by metabolic engineering
1.4 Conclusions and perspectives
References
Chapter 2. Membrane transport as a target for metabolic engineering
Abstract
2.1 Introduction
2.2 Membrane transport proteins
2.3 Substrate uptake
2.4 Transport from and into organelles
2.5 Product export
2.6 Cellular robustness
2.7 Substrate channeling and membrane transport
2.8 Undesired transport processes
2.9 Conclusions and perspectives
References
Chapter 3. Analysis and modeling tools of metabolic flux
Abstract
3.1 Introduction
3.2 13C-metabolic flux analysis
3.3 Constraint-based stoichiometric metabolic flux analysis
3.4 Conclusions and perspectives
References
Chapter 4. Equipped C1 chemical assimilation pathway in engineering Escherichia coli
Abstract
4.1 Introduction
4.2 Approaches for the assessment of CO2 assimilation capability
4.3 Physiological effect of RuBisCo system
4.4 Strategies to enhance the RuBisCo system
4.5 Transforming the heterotrophs to autotrophs
4.6 Prospective of RuBisCo-based chemical production
4.7 Conclusions and perspectives
References
Chapter 5. Microbial tolerance in metabolic engineering
Abstract
5.1 Introduction
5.2 Microbial stresses and responses
5.3 Strategies to improve microbial tolerance
5.4 Challenges in developing and using tolerant strains
5.5 Conclusions and perspectives
References
Chapter 6. Application of proteomics and metabolomics in microbiology research
Abstract
6.1 Introduction
6.2 Proteomics in microbiology
6.3 Metabolomics in microbiology
6.4 Conclusions and perspectives
References
Chapter 7. Approaches and tools of protein tailoring for metabolic engineering
Abstract
7.1 Introduction
7.2 Approaches for the engineering of protein
7.3 Applications of protein engineering
7.4 Conclusions and perspectives
References
Chapter 8. Microbial metabolism of aromatic pollutants: High-throughput OMICS and metabolic engineering for efficient bioremediation
Abstract
8.1 Introduction
8.2 Aromatic compounds: impact and toxicity
8.3 Microbial metabolism of aromatic compounds/pollutants
8.4 High-throughput OMICS: insights into aromatics metabolism
8.5 Metabolic engineering for efficient aromatics biodegradation
8.6 Conclusions and perspectives
Acknowledgment
References
Chapter 9. Microbial consortium engineering for the improvement of biochemicals production
Abstract
9.1 Introduction
9.2 Classification of microbial consortia
9.3 Construction of a microbial consortium
9.4 Applications of microbial consortium engineering
9.5 Recent synthetic microbial consortia and their applications
9.6 Challenges in microbial consortium engineering
9.7 Conclusions and perspectives
Acknowledgment
References
Further reading
Section II: Metabolic Engineering of Cells: Applications
Chapter 10. Metabolic engineering strategies for effective utilization of cellulosic sugars to produce value-added products
Abstract
10.1 Introduction
10.2 Sustainable carbon sources for biorefineries
10.3 Microbial cell factories for carbon source coutilization and production of value-added chemicals
10.4 Conclusions and perspectives
Acknowledgments
References
Chapter 11. Production of fine chemicals from renewable feedstocks through the engineering of artificial enzyme cascades
Abstract
11.1 Introduction
11.2 Advantages of enzyme cascades
11.3 Artificial enzyme cascades versus natural enzyme cascades
11.4 Importance of fine chemicals production from renewable feedstocks through artificial enzyme cascades
11.5 General principle of engineering of enzyme cascades
11.6 Examples of production of fine chemicals from bio-based L-phenylalanine using artificial enzyme cascades
11.7 Examples of production of fine chemicals from renewable feedstocks glucose and glycerol using artificial enzyme cascades
11.8 Conclusions and perspectives
References
Chapter 12. Metabolic engineering of microorganisms for the production of carotenoids, flavonoids, and functional polysaccharides
Abstracts
12.1 Introduction
12.2 Metabolic engineering of plant natural products
12.3 Metabolic engineering of functional polysaccharides
12.4 Conclusions and perspectives
References
Chapter 13. Bioengineering in microbial production of biobutanol from renewable resources
Abstract
13.1 Introduction
13.2 Applications and production of butanol
13.3 Biological production of butanol
13.4 Metabolic pathways of biobutanol production
13.5 Enhancement of biobutanol production
13.6 Conclusions and perspectives
Acknowledgments
References
Chapter 14. Engineered microorganisms for bioremediation
Abstract
14.1 Introduction
14.2 Types of bioremediation
14.3 Genetically engineered organisms in bioremediation
14.4 Genetic engineering techniques
14.5 Bioremediation using GEMs
14.6 Field applications of GEMs
14.7 Risk assessment of GEMs
14.8 Conclusions and perspectives
References
Chapter 15. Agricultural applications of engineered microbes
Abstract
15.1 Introduction
15.2 Agricultural applications of genetically modified microbes
15.3 Conclusions and perspectives
Acknowledgments
References
Chapter 16. Rhizosphere microbiome engineering
Abstract
16.1 Introduction
16.2 Plant-associated microbes/microbiome
16.3 Rhizosphere microbiome engineering
16.4 Emerging areas of research
16.5 Conclusions and perspectives
Acknowledgments
References
Chapter 17. Genetically engineered microbes in micro-remediation of metals from contaminated sites
Abstract
17.1 Introduction
17.2 Classification of bioremediation
17.3 Metal-contaminated sites: a problem
17.4 Genetically modified micro-organisms
17.5 Conclusions and perspectives
Acknowledgment
References
Chapter 18. Biofuel production from renewable feedstocks: Progress through metabolic engineering
Abstract
18.1 Introduction
18.2 Heterologous genetic expression in plants to improve feedstock properties
18.3 System metabolic engineering for biofuels production
18.4 Microbial production of biofuels from renewable feedstock
18.5 Challenges and techno-economic analysis of emerging biofuels
18.6 Conclusions and perspectives
Acknowledgments
References
Chapter 19. Synthetic biology and the regulatory roadmap for the commercialization of designer microbes
Abstract
19.1 Introduction
19.2 Synthetic biology
19.3 Framework of synthetic biology
19.4 Tools in synthetic biology
19.5 Applications of synthetic biology
19.6 Legal aspect of designer microbes
19.7 Regulatory challenges for the commercialization of designer microbes
19.8 Conclusions and perspectives
References
Index

Swati Joshi

Dr Swati Joshi earned PhD in Microbiology from University of Delhi, India. During her Ph.D., she focused on developing industrial strains of methylotrophic yeast Pichia pastoris. Currently she is working as Assistant Professor and BioCARe Women Scientist at School of Life Sciences, Central University of Gujarat (CUG), Gandhinagar, where she is engaged in working in the interdisciplinary field of industrial Microbiology and Biotechnology, employing next gen platforms. She has published many peer reviewed scientific papers, reviews and book chapters. She has been conferred with Dr M. J. Thirumalachar Young Scientist Award by Mycological Society of India (MSI) and Young Scientist Award by Association of Microbiologists of India (AMI). She is life member of BRSI, MSI, AMI and Indian Lichenological Society (ILS).

Affiliations and expertise

Scientist, ICMR-National Institute of Occupational Health (NIOH), Ahmedabad, Gujarat, India (Previous Affiliation: Assistant Professor, School of Life Sciences, Central University of Gujarat, Gandhinagar, India)

Ashok Pandey

Professor Ashok Pandey is currently Distinguished Scientist at the Centre for Innovation and Translational Research, CSIR-Indian Institute of Toxicology Research, Lucknow, India and Executive Director (Honorary) at the Centre for Energy and Environmental Sustainability – India. Formerly, he was Eminent Scientist at the Center of Innovative and Applied Bioprocessing, Mohali and Chief Scientist & Head of Biotechnology Division and Centre for Biofuels at CSIR’s National Institute for Interdisciplinary Science and Technology, Trivandrum. His major research and technological development interests are industrial & environmental biotechnology and energy biosciences, focusing on biomass to biofuels & chemicals, waste to wealth & energy, industrial enzymes, etc. Professor Pandey is Adjunct/Visiting Professor/Scientist in universities in France, Brazil, Canada, China, Korea, South Africa, and Switzerland and also in several universities several in India. He has ~1400 publications/communications, which include 16 patents, 87 books, >700 papers and book chapters, etc with h index of 102 and ~46,300 citations (Goggle scholar). He has transferred several technologies to industries and has done industrial consultancy for about a dozen projects for Indian/international industries. Professor Pandey is the recipient of many national and international awards and honours, which include Distinguished Scientist, VDGOOD Professional Association, India (2020); Distinguished Professor of Eminence with global impact in the area of Biotechnology, Precious Cornerstone University, Nigeria (2020), Highest Cited Researcher (Top 1% in the world), Clarivate Analytics, Web of Science (2019); IconSWM Life-time Achievement Award 2019, International Society for Solid Waste Management, KIIT, Bhubaneshwar, India (2019); Yonsei Outstanding Scholar, Yonsei University, Seoul, Korea (2019), Highest Cited Researcher (Top 1% in the world; Top 10 in India), Clarivate Analytics, Web of Science (2018); Life-Time Achievement Award from the Biotech Research Society, India (2018); Life-Time Achievement Award from Venus International Research Awards (2018), Most Outstanding Researcher Award from Career360 (2018), Life-Time Achievement Award from the International Society for Energy, Environment and Sustainability (2017); Academician of European Academy of Sciences and Arts, Austria (2015); Honorary Doctorate degree from Univesite Blaise Pascal, France (2007); Thomson Scientific India Citation Laureate Award, USA (2006); UNESCO Professor (2000); Raman Research Fellowship Award, CSIR (1995); GBF, Germany and CNRS, France Fellowships (1992) and Young Scientist Award (1989), etc. He is Fellow of various academies, which include Royal Society of Biology, UK (2016); International Society for Energy, Environment and Sustainability (2016); National Academy of Sciences, India (2012); Association of Microbiologists of India (2008), International Organization of Biotechnology and Bioengineering (2007) and the Biotech Research Society, India (2005). Professor Pandey is Founder President of the Biotech Research Society, India (www.brsi.in); Founder & International Coordinator of International Forum on Industrial Bioprocesses, France (www.ifibiop.org), Chairman of the International Society for Energy, Environment & Sustainability (www.isees.in), Editor-in-chief of Bioresource Technology (http://ees.elsevier.com/bite/), Honorary Executive Advisor of Journal of Energy and Environmental Sustainability (www.jees.in), Journal of Systems Microbiology and Biomanufacturing (https://www.springer.com/journal/43393), Journal of Environmental Sciences and Engineering (http://neerijese.org/editorial-board/), Subject Editor, Proceedings of National Academy of Sciences, India (https://www.springer.com/life+sciences/journal/40011) and Associate Editor, Biologia – Section Cellular and Molecular Biology (https://www.springer.com/journal/11756/editors) and editorial board member of several international and Indian journals

Ranjna Sirohi

Dr. Ranjna Sirohi is currently working as Research Professor in Korea University, Seoul. She obtained B.Tech. degree in Biochemical Engineering and M.Tech. degree in Agricultural Engineering with specialization in Food Biotechnology Engineering. She has worked as Visiting Researcher at the École Polytechnique Fédérale de Lausanne, Switzerland, as Scientist at Centre for Energy and Environment Sustainability, Lucknow and as Senior Project Associate at CSIR-NEERI, Nagpur. She obtained her Ph.D. degree in Process and Food Engineering from G.B. Pant University of Agriculture and Technology, Pantnagar, Uttarakhand. Her major research interests are in the field of Bioprocess Technology - Food & Food Waste Valorisation-Waste to Wealth – Biofuels. She has 65 publications/communications that include 32 research and review papers, 12 book chapters, 7 popular articles and 14 conference proceedings. Dr Sirohi has won several awards and honors that include Research Excellent Award in the international conference on New Horizons in Biotechnology, Trivandrum, India (2019), Best Poster award in 8th International Forum on Industrial Bioprocessing (IBA-IFIBiop 2019), Miri; Sarawak, Malaysia (2019) and Research Excellence Award in International Conference on Bio-Innovation for Environmental and Health Sustainable Developments (BEHSD-2018), Lucknow, India (2018). She is the Life member of Indian Society of Agricultural Engineers (ISAE); the Biotech Research Society, India (BRSI); Indian Science Congress Association (ISCA) and Association of Food Scientists & Technologists, India (AFSTI).

Affiliations and expertise

Research Professor, Department of Chemical and Biological Engineering, Korea University, Seoul, Republic of Korea

Sung Hoon Park

Dr. Sung Hoon Park is Professor at the School of Energy and Chemical Engineering, UNIST (Ulsan National Institute of Science and Technology; http://bcelab.unist.ac.kr/), Korea. He received a BS (1980) and MS (1982) in Chemical Technology from Seoul National University, Korea and a Ph.D. (1988) in Chemical Engineering from University of California, Davis, USA. Before joining UNIST, he worked at CKD Pharmaceuticals, Korea (1980-82), Lawrence Livermore National Laboratory, CA, USA (1988-91), and Pusan National University (PNU), Korea (1991-2017). Dr. Park is former and now honorary Editor-in-Chief of Biotechnology and Bioprocess Engineering (BBE), and a Senior Editor of Journal of Industrial Microbiology and Biotechnology (JIMB). Major research interest lies in metabolic engineering and synthetic biotechnology for microbial production of biofuels and biochemicals from renewable resources. Dr. Park has educated ~100 graduate students and postdocs, published >200 research papers and holds >30 patents.

Affiliations and expertise

Professor, School of Energy and Chemical Engineering, Ulsan National Institute of Science and Technology, Ulsan, South Korea

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Current Developments in Biotechnology and Bioengineering

Designer Microbial Cell Factories: Metabolic Engineering and Applications

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Swati Joshi

Ashok Pandey

Ranjna Sirohi

Sung Hoon Park

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