Metabolic Pathway Design

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Metabolic Pathway Design

Pablo Carbonell
Metabolic Pathway Design Book PDF

Author : Pablo Carbonell
Publisher : Springer Nature
Page : 168 pages
File Size : 45,6 Mb
Release : 2019-11-05
Category : Medical
ISBN : 9783030298654

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Metabolic Pathway Design by Pablo Carbonell Pdf

This textbook presents solid tools for in silico engineering biology, offering students a step-by-step guide to mastering the smart design of metabolic pathways. The first part explains the Design-Build-Test-Learn-cycle engineering approach to biology, discussing the basic tools to model biological and chemistry-based systems. Using these basic tools, the second part focuses on various computational protocols for metabolic pathway design, from enzyme selection to pathway discovery and enumeration. In the context of industrial biotechnology, the final part helps readers understand the challenges of scaling up and optimisation. By working with the free programming language Scientific Python, this book provides easily accessible tools for studying and learning the principles of modern in silico metabolic pathway design. Intended for advanced undergraduates and master’s students in biotechnology, biomedical engineering, bioinformatics and systems biology students, the introductory sections make it also useful for beginners wanting to learn the basics of scientific coding and find real-world, hands-on examples.

Metabolic Engineering

Sang Yup Lee,Jens Nielsen,Gregory Stephanopoulos
Metabolic Engineering Book PDF

Author : Sang Yup Lee,Jens Nielsen,Gregory Stephanopoulos
Publisher : John Wiley & Sons
Page : 1075 pages
File Size : 46,8 Mb
Release : 2021-06-02
Category : Science
ISBN : 9783527823451

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Metabolic Engineering by Sang Yup Lee,Jens Nielsen,Gregory Stephanopoulos Pdf

Learn more about foundational and advanced topics in metabolic engineering in this comprehensive resource edited by leaders in the field Metabolic Engineering: Concepts and Applications delivers a one-stop resource for readers seeking a complete description of the concepts, models, and applications of metabolic engineering. This guide offers practical insights into the metabolic engineering of major cell lines, including E. Coli, Bacillus and Yarrowia Lipolytica, and organisms, including human, animal, and plant). The distinguished editors also offer readers resources on microbiome engineering and the use of metabolic engineering in bioremediation. Written in two parts, Metabolic Engineering begins with the essential models and strategies of the field, like Flux Balance Analysis, Quantitative Flux Analysis, and Proteome Constrained Models. It also provides an overview of topics like Pathway Design, Metabolomics, and Genome Editing of Bacteria and Eukarya. The second part contains insightful descriptions of the practical applications of metabolic engineering, including specific examples that shed light on the topics within. In addition to subjects like the metabolic engineering of animals, humans, and plants, you’ll learn more about: Metabolic engineering concepts and a historical perspective on their development The different modes of analysis, including flux balance analysis and quantitative flux analysis An illuminating and complete discussion of the thermodynamics of metabolic pathways The Genome architecture of E. coli, as well as genome editing of both bacteria and eukarya An in-depth treatment of the application of metabolic engineering techniques to organisms including corynebacterial, bacillus, and pseudomonas, and more Perfect for students of biotechnology, bioengineers, and biotechnologists, Metabolic Engineering: Concepts and Applications also has a place on the bookshelves of research institutes, biotechnological institutes and industry labs, and university libraries. It's comprehensive treatment of all relevant metabolic engineering concepts, models, and applications will be of use to practicing biotechnologists and bioengineers who wish to solidify their understanding of the field.

The Metabolic Pathway Engineering Handbook

Christina Smolke
The Metabolic Pathway Engineering Handbook Book PDF

Author : Christina Smolke
Publisher : CRC Press
Page : 680 pages
File Size : 40,8 Mb
Release : 2009-07-28
Category : Medical
ISBN : 9781439802977

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The Metabolic Pathway Engineering Handbook by Christina Smolke Pdf

This first volume of the Metabolic Pathway Engineering Handbook provides an overview of metabolic pathway engineering with a look towards the future. It discusses cellular metabolism, including transport processes inside the cell and energy generating reactions, as well as rare metabolic conversions. This volume also explores balances and reaction

Pathway Analysis and Optimization in Metabolic Engineering

Néstor V. Torres,Eberhard O. Voit
Pathway Analysis and Optimization in Metabolic Engineering Book PDF

Author : Néstor V. Torres,Eberhard O. Voit
Publisher : Cambridge University Press
Page : 328 pages
File Size : 52,8 Mb
Release : 2002-12-19
Category : Science
ISBN : 1139437615

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Pathway Analysis and Optimization in Metabolic Engineering by Néstor V. Torres,Eberhard O. Voit Pdf

Facility in the targeted manipulation of the genetic and metabolic composition of organisms, combined with unprecedented computational power, is forging a niche for a new subspecialty of biotechnology called metabolic engineering. First published in 2002, this book introduces researchers and advanced students in biology and engineering to methods of optimizing biochemical systems of biotechnological relevance. It examines the development of strategies for manipulating metabolic pathways, demonstrates the need for effective systems models, and discusses their design and analysis, while placing special emphasis on optimization. The authors propose power-law models and methods of biochemical systems theory toward these ends. All concepts are derived from first principles, and the text is richly illustrated with numerous graphs and examples throughout. Special features include: nontechnical and technical introductions to models of biochemical systems; a review of basic methods of model design and analysis; concepts of optimization; and detailed case studies.

Synthetic Metabolic Pathways

Michael Krogh Jensen,Jay D. Keasling
Synthetic Metabolic Pathways Book PDF

Author : Michael Krogh Jensen,Jay D. Keasling
Publisher : Humana Press
Page : 354 pages
File Size : 45,9 Mb
Release : 2017-11-24
Category : Medical
ISBN : 1493972944

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Synthetic Metabolic Pathways by Michael Krogh Jensen,Jay D. Keasling Pdf

This volume outlines key steps associated with the design, building, and testing of synthetic metabolic pathways for optimal cell factory performance and robustness, and illustrates how data-driven learning from these steps can be used for rational cost-effective engineering of cell factories with improved performance. Chapters are divided into four sections focusing on the four steps of the iterative design-build-test-learn cycle related to modern cell factory engineering. 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 tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Synthetic Metabolic Pathways: Methods and Protocols aims to ensure successful results in the further study of this vital field.

The Metabolic Pathway Engineering Handbook

Christina Smolke
The Metabolic Pathway Engineering Handbook Book PDF

Author : Christina Smolke
Publisher : CRC Press
Page : 581 pages
File Size : 54,5 Mb
Release : 2009-07-28
Category : Science
ISBN : 142007766X

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The Metabolic Pathway Engineering Handbook by Christina Smolke Pdf

This second volume of the Metabolic Pathway Engineering Handbook delves into evolutionary tools and gene expression tools for metabolic pathway engineering. It covers applications of emerging technologies including recent research genome-wide technologies, DNA and phenotypic microarrays, and proteomics tools for experimentally determining flux through pathways. This volume also looks at emerging applications for producing fine chemicals, drugs, and alternative fuels. Christine Smolke, who recently developed a novel way to churn out large quantities of drugs from genetically modified brewer’s yeast, is regarded as one of the most brilliant new minds in biomedical engineering. In this handbook, she brings together pioneering scientists from dozens of disciplines to provide a complete record of accomplishment in metabolic pathway engineering. With a wealth of cutting edge research and analysis, this work also serves as an invaluable resource for those seeking to add their own contributions. Organized by topic, this 3000 page reference is available as two volumes that can be purchased individually or as a set.

Pathway Design for Industrial Fermentation

Walter Koch
Pathway Design for Industrial Fermentation Book PDF

Author : Walter Koch
Publisher : John Wiley & Sons
Page : 501 pages
File Size : 50,6 Mb
Release : 2024-01-16
Category : Science
ISBN : 9783527352753

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Pathway Design for Industrial Fermentation by Walter Koch Pdf

Pathway Design for Industrial Fermentation Explore the industrial fermentation processes of chemical intermediates In Pathway Design for Industrial Fermentation, distinguished researcher Dr. Walter Koch delivers an expert overview on industrial fermentation production technology as compared with natural extraction, organic chemistry, and biocatalysis. The book offers key insights for professionals designing and monitoring fermentation processes. The author explores the applications, alternative production, biochemical pathways, metabolic engineering strategy, and downstream processing of various products—including C1 to C6 products—with a focus on low-value products with market prices below 4€ per kilogram. Products will include methane, ethane, acetate, lactic acid, alanine, and others. With specific commentary and insightful perspectives on the cost drivers and technological aspects critical to commercially successful applications, the book also includes: Thorough introductions to methane, ethanol, acetate, lactic acid, alanine, and 3-Hydroxypropionic acid Comprehensive explorations of 1,3-Propanediol, butanol, isobutanol, and isobutene Practical discussions of 1,4-butanediol, succinic acid, itaconic acid, and glutamic acid Fulsome treatments of isoprene, pentamethylenediamine, lysine, citric acid, and adipic acid Perfect for process engineers, biotechnologists, and chemical engineers, Pathway Design for Industrial Fermentation will also benefit biochemists and professionals working in the chemical and food industries.

The Science and Applications of Synthetic and Systems Biology

Institute of Medicine,Board on Global Health,Forum on Microbial Threats
The Science and Applications of Synthetic and Systems Biology Book PDF

Author : Institute of Medicine,Board on Global Health,Forum on Microbial Threats
Publisher : National Academies Press
Page : 570 pages
File Size : 45,8 Mb
Release : 2011-12-30
Category : Science
ISBN : 9780309219396

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The Science and Applications of Synthetic and Systems Biology by Institute of Medicine,Board on Global Health,Forum on Microbial Threats Pdf

Many potential applications of synthetic and systems biology are relevant to the challenges associated with the detection, surveillance, and responses to emerging and re-emerging infectious diseases. On March 14 and 15, 2011, the Institute of Medicine's (IOM's) Forum on Microbial Threats convened a public workshop in Washington, DC, to explore the current state of the science of synthetic biology, including its dependency on systems biology; discussed the different approaches that scientists are taking to engineer, or reengineer, biological systems; and discussed how the tools and approaches of synthetic and systems biology were being applied to mitigate the risks associated with emerging infectious diseases. The Science and Applications of Synthetic and Systems Biology is organized into sections as a topic-by-topic distillation of the presentations and discussions that took place at the workshop. Its purpose is to present information from relevant experience, to delineate a range of pivotal issues and their respective challenges, and to offer differing perspectives on the topic as discussed and described by the workshop participants. This report also includes a collection of individually authored papers and commentary.

Metabolic Pathway Engineering

Jean F. Challacombe
Metabolic Pathway Engineering Book PDF

Author : Jean F. Challacombe
Publisher : CRC Press
Page : 116 pages
File Size : 47,7 Mb
Release : 2021-07-14
Category : Medical
ISBN : 9781000260540

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Metabolic Pathway Engineering by Jean F. Challacombe Pdf

Metabolic systems engineering combines the tools and approaches of systems biology, synthetic biology, and evolutionary engineering. This book reviews studies on metabolism, from the earliest work of Lavoisier and Buchner to current cutting-edge research in metabolic systems engineering. This technology has been used in bioengineering applications to create high-performing microbes and plants that produce important chemicals, pharmaceuticals, crops, and other natural products. Current applications include optimizing metabolic pathways to enhance degradation of biomass for biofuel production and accelerated processing of environmental waste products and contaminants. The book includes examples to illustrate the applications of this technology in the optimization of metabolic pathways to create robust industrial strains as well as in the engineering of biological processes involving health and diseases of humans, animals, and plants. Written by a seasoned computational biologist with many years of experience in genomics, bioinformatics, and systems biology, this book will appeal to anyone interested in metabolic systems analysis and metabolic pathway engineering.

The Metabolic Pathway Engineering Handbook, Two Volume Set

Christina Smolke
The Metabolic Pathway Engineering Handbook Two Volume Set Book PDF

Author : Christina Smolke
Publisher : CRC Press
Page : 1259 pages
File Size : 43,6 Mb
Release : 2009-08-18
Category : Medical
ISBN : 9781420005622

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The Metabolic Pathway Engineering Handbook, Two Volume Set by Christina Smolke Pdf

Christina Smolke, who recently developed a novel way to churn out large quantities of drugs from genetically modified brewer's yeast, is regarded as one of the most brilliant minds in biomedical engineering. In this handbook, she brings together pioneering scientists from dozens of disciplines to provide a complete record of accomplishment in metab

Optimization Methods in Metabolic Networks

Costas D. Maranas,Ali R. Zomorrodi
Optimization Methods in Metabolic Networks Book PDF

Author : Costas D. Maranas,Ali R. Zomorrodi
Publisher : John Wiley & Sons
Page : 278 pages
File Size : 47,5 Mb
Release : 2016-02-23
Category : Science
ISBN : 9781119028499

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Optimization Methods in Metabolic Networks by Costas D. Maranas,Ali R. Zomorrodi Pdf

Provides a tutorial on the computational tools that use mathematical optimization concepts and representations for the curation, analysis and redesign of metabolic networks Organizes, for the first time, the fundamentals of mathematical optimization in the context of metabolic network analysis Reviews the fundamentals of different classes of optimization problems including LP, MILP, MLP and MINLP Explains the most efficient ways of formulating a biological problem using mathematical optimization Reviews a variety of relevant problems in metabolic network curation, analysis and redesign with an emphasis on details of optimization formulations Provides a detailed treatment of bilevel optimization techniques for computational strain design and other relevant problems

Microbial Cell Factories Engineering for Production of Biomolecules

Vijai Singh
Microbial Cell Factories Engineering for Production of Biomolecules Book PDF

Author : Vijai Singh
Publisher : Academic Press
Page : 490 pages
File Size : 48,9 Mb
Release : 2021-02-13
Category : Science
ISBN : 9780128214787

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Microbial Cell Factories Engineering for Production of Biomolecules by Vijai Singh Pdf

Microbial Cell Factories Engineering for Production of Biomolecules presents a compilation of chapters written by eminent scientists worldwide. Sections cover major tools and technologies for DNA synthesis, design of biosynthetic pathways, synthetic biology tools, biosensors, cell-free systems, computer-aided design, OMICS tools, CRISPR/Cas systems, and many more. Although it is not easy to find relevant information collated in a single volume, the book covers the production of a wide range of biomolecules from several MCFs, including Escherichia coli, Bacillus subtilis, Pseudomonas putida, Streptomyces, Corynebacterium, Cyanobacteria, Saccharomyces cerevisiae, Pichia pastoris and Yarrowia lipolytica, and algae, among many others. This will be an excellent platform from which scientific knowledge can grow and widen in MCF engineering research for the production of biomolecules. Needless to say, the book is a valuable source of information not only for researchers designing cell factories, but also for students, metabolic engineers, synthetic biologists, genome engineers, industrialists, stakeholders and policymakers interested in harnessing the potential of MCFs in several fields. Offers basic understanding and a clear picture of various MCFs Explains several tools and technologies, including DNA synthesis, synthetic biology tools, genome editing, biosensors, computer-aided design, and OMICS tools, among others Harnesses the potential of engineered MCFs to produce a wide range of biomolecules for industrial, therapeutic, pharmaceutical, nutraceutical and biotechnological applications Highlights the advances, challenges, and future opportunities in designing MCFs

Synthetic Biology – Metabolic Engineering

Huimin Zhao,An-Ping Zeng
Synthetic Biology Metabolic Engineering Book PDF

Author : Huimin Zhao,An-Ping Zeng
Publisher : Springer
Page : 322 pages
File Size : 44,7 Mb
Release : 2017-10-27
Category : Technology & Engineering
ISBN : 9783319553184

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Synthetic Biology – Metabolic Engineering by Huimin Zhao,An-Ping Zeng Pdf

This book review series presents current trends in modern biotechnology. The aim is to cover all aspects of this interdisciplinary technology where knowledge, methods and expertise are required from chemistry, biochemistry, microbiology, genetics, chemical engineering and computer science. Volumes are organized topically and provide a comprehensive discussion of developments in the respective field over the past 3-5 years. The series also discusses new discoveries and applications. Special volumes are dedicated to selected topics which focus on new biotechnological products and new processes for their synthesis and purification. In general, special volumes are edited by well-known guest editors. The series editor and publisher will however always be pleased to receive suggestions and supplementary information. Manuscripts are accepted in English.

Recent Advances in Biocatalysis and Metabolic Engineering for Biomanufacturing

Eun Yeol Lee
Recent Advances in Biocatalysis and Metabolic Engineering for Biomanufacturing Book PDF

Author : Eun Yeol Lee
Publisher : MDPI
Page : 278 pages
File Size : 50,7 Mb
Release : 2019-09-23
Category : Science
ISBN : 9783039215744

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Recent Advances in Biocatalysis and Metabolic Engineering for Biomanufacturing by Eun Yeol Lee Pdf

The use of biocatalysts, including enzymes and metabolically engineered cells, has attracted a great deal of attention in the chemical and bio-industry, because biocatalytic reactions can be conducted under environmentally-benign conditions and in more sustainable ways. The catalytic efficiency and chemo-, regio-, and stereo-selectivity of enzymes can be enhanced and modulated using protein engineering. Metabolic engineering seeks to enhance cellular biosynthetic productivity of target metabolites via controlling and redesigning metabolic pathways using multi-omics analysis, genome-scale modeling, metabolic flux control, and reconstruction of novel pathways. The aim of this book is to cover the recent advances in biocatalysis and metabolic engineering for biomanufacturing of biofuels, chemicals, biomaterials, and pharmaceuticals. Reviews and original research articles on the development of new strategies to improve the catalytic efficiency of enzymes, biosynthetic capability of cell factories, and their applications in production of various bioproducts and chemicals are included.

Synthetic Biology of Yeasts

Farshad Darvishi Harzevili
Synthetic Biology of Yeasts Book PDF

Author : Farshad Darvishi Harzevili
Publisher : Springer
Page : 0 pages
File Size : 51,6 Mb
Release : 2023-01-23
Category : Science
ISBN : 303089682X

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Synthetic Biology of Yeasts by Farshad Darvishi Harzevili Pdf

This book covers recent advances and future trends in yeast synthetic biology, providing readers with an overview of computational and engineering tools, and giving insight on important applications. Yeasts are one of the most attractive microbial cell factories for the production of a wide range of valuable products, including pharmaceuticals, nutraceuticals, cosmetics, agrochemicals and biofuels. Synthetic biology tools have been developed to improve the metabolic engineering of yeasts in a faster and more reliable manner. Today, these tools are used to make synthetic pathways and rewiring metabolism even more efficient, producing products at high titer, rate, and yield. Split into two parts, the book opens with an introduction to rational metabolic pathway prediction and design using computational tools and their applications for yeast systems and synthetic biology. Then, it focuses on the construction and assembly of standardized biobricks for synthetic pathway engineering in yeasts, yeast cell engineering and whole cell yeast-based biosensors. The second part covers applications of synthetic biology to produce diverse and attractive products by some well-known yeasts. Given its interdisciplinary scope, the book offers a valuable asset for students, researchers and engineers working in biotechnology, applied microbiology, metabolic engineer ing and synthetic biology.