Download or read book Metabolic Pathway Design written by Pablo Carbonell and published by Springer Nature. This book was released on 2019-11-05 with total page 168 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.

Download or read book Metabolic Engineering written by Sang Yup Lee and published by John Wiley & Sons. This book was released on 2021-06-02 with total page 1075 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.

Download or read book Synthetic Metabolic Pathways written by Michael Krogh Jensen and published by Humana Press. This book was released on 2017-11-24 with total page 354 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.

Download or read book Pathway Analysis and Optimization in Metabolic Engineering written by Néstor V. Torres and published by Cambridge University Press. This book was released on 2002-12-19 with total page 328 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.

Download or read book The Science and Applications of Synthetic and Systems Biology written by Institute of Medicine and published by National Academies Press. This book was released on 2011-12-30 with total page 570 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.

Download or read book Synthetic Biology Metabolic Engineering written by Huimin Zhao and published by Springer. This book was released on 2017-10-27 with total page 326 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.

Download or read book Systems Metabolic Engineering written by Christoph Wittmann and published by Springer Science & Business Media. This book was released on 2012-06-15 with total page 391 pages. Available in PDF, EPUB and Kindle. Book excerpt: Systems Metabolic Engineering is changing the way microbial cell factories are designed and optimized for industrial production. Integrating systems biology and biotechnology with new concepts from synthetic biology enables the global analysis and engineering of microorganisms and bioprocesses at super efficiency and versatility otherwise not accessible. Without doubt, systems metabolic engineering is a major driver towards bio-based production of chemicals, materials and fuels from renewables and thus one of the core technologies of global green growth. In this book, Christoph Wittmann and Sang-Yup Lee have assembled the world leaders on systems metabolic engineering and cover the full story – from genomes and networks via discovery and design to industrial implementation practises. This book is a comprehensive resource for students and researchers from academia and industry interested in systems metabolic engineering. It provides us with the fundaments to targeted engineering of microbial cells for sustainable bio-production and stimulates those who are interested to enter this exiting research field.

Download or read book Yeast Metabolic Engineering written by Valeria Mapelli and published by Humana Press. This book was released on 2014-04-18 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Yeast Metabolic Engineering: Methods and Protocols provides the widely established basic tools used in yeast metabolic engineering, while describing in deeper detail novel and innovative methods that have valuable potential to improve metabolic engineering strategies in industrial biotechnology applications. Beginning with an extensive section on molecular tools and technology for yeast engineering, this detailed volume is not limited to methods for Saccharomyces cerevisiae, but describes tools and protocols for engineering other yeasts of biotechnological interest, such as Pichia pastoris, Hansenula polymorpha and Zygosaccharomyces bailii. Tools and technologies for the investigation and determination of yeast metabolic features are described in detail as well as metabolic models and their application for yeast metabolic engineering, while a chapter describing patenting and regulations with a special glance at yeast biotechnology closes the volume. Written in the highly successful Methods in Molecular Biology series format, most chapters include an introduction to their respective topic, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols and tips on troubleshooting and avoiding known pitfalls. Comprehensive and authoritative, Yeast Metabolic Engineering: Methods and Protocols aims to familiarize researchers with the current state of these vital and increasingly useful technologies.

Download or read book Metabolic Pathway Engineering written by Michael E. Himmel and published by Humana. This book was released on 2020-07-28 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book illustrates experimental and computational methodologies used to achieve cost effective biological processes for the production of fuels and biochemicals through multiple approaches to increasing yield, titers, and productivity in a robust host. The volume includes the most recent and cutting-edge aspects of pathway engineering, flux analysis, and metabolic enzyme engineering. Each chapter highlights the complexity and challenges of the problem as well as the methods used to solve this problem or changes needed in current methods. As a part of the highly successful Methods in Molecular Biology series, chapters include the kind of detailed implementation advice that gives researchers a much needed boost. Authoritative and practical, Metabolic Pathway Engineering benefits not only scientists working on more fundamental aspects of this endeavor but also those in the biochemical industry working on strain engineering for robust industrial processes.

Download or read book The Metabolic Pathway Engineering Handbook written by Christina Smolke and published by CRC Press. This book was released on 2009-07-28 with total page 680 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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

Download or read book Synthetic Biology of Yeasts written by Farshad Darvishi Harzevili and published by Springer. This book was released on 2023-01-23 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.

Download or read book The Metabolic Pathway Engineering Handbook written by Christina Smolke and published by CRC Press. This book was released on 2009-07-28 with total page 570 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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 thro

Download or read book Computational Design and Optimization of Metabolic Pathways written by Chiam Ng and published by . This book was released on 2017 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt: Microbial production of chemicals and fuels has often been cited as the highly viable solution to the current energy crisis. It has also been widely exploited to produce value-added products such as pharmaceuticals, nutraceuticals, food flavorings and fine chemicals. Knowledge gained from genome sequencing and functional annotations, as well as advances in genetic engineering techniques, enable us to re-code the genetic blueprint of a microbial cell to endow them with new functions such as a non-native metabolic pathway that make a specific biochemical. As the cells are often not optimized to synthesize the target product, significant rewiring of their metabolic networks is required to re-apportion carbon flux towards the target product. This should be performed with careful consideration of cellular protein resource allocation as well as energy and redox balance. However, the task is often complicated by the intricate interplay of the cellular gene-protein-reaction network. In this dissertation, we aim to address several challenges in designing and engineering metabolic pathways by combining techniques in computational biology, metabolic engineering, and synthetic biology. Each project relies extensively on optimization-based computational design, from genetic constructs to pathways and finally the entire metabolic network, to achieve the associated metabolic engineering objectives. In Chapter 1, we review the state-of-the-art metabolic engineering and synthetic biology tools for pathway and strain design. These tools lay the foundation for the development of the subsequent chapters, which deal in-depth with specific challenges in metabolic pathway design and strain optimization. One of the key challenges in metabolic engineering is to ensure a consistent supply of cofactor, which is often shared across over 100 reactions in a cell, to the desirable biosynthesis reactions. In Chapter 2, we describe the design and optimization of a synthetic metabolic pathway in E. coli to improve the availability of an essential redox cofactor NADPH. The synthetic metabolic pathway was derived from the highly active Entner-Doudoroff (ED) pathway of another prokaryote Zymomonas mobilis. Upon optimizing the expression of the multi-enzyme pathway, we obtained strains with improved NADPH production when compared to the wild-type strain. In addition to NADPH production, the ED pathway also simultaneously generates pyruvate and glyceraldehyde-3-phopshate, which are the precursors for the methylerythritol phosphate (MEP) pathway. As a proof-of-concept, we demonstrated that combination of the synthetic ED pathway and the MEP pathway improved the production of an NADPH-dependent terpenoid by up to 97%. Motivated by the intriguing roles that glycolytic pathways play in a cell and the effects of their perturbation, in Chapter 3, we switch focus to uncover the reason why specific glycolytic pathways prevail in nature despite the presence of alternatives. Although the ED pathway and the Embden-Meyerhof-Parnas (EMP) glycolytic pathways both convert glucose to pyruvate, they take different routes with different intermediates and yield one or two moles of ATP per mole of glucose. Theoretically, one could construct a thermodynamically feasible (i.e., rG

Download or read book Metabolic Engineering written by Jens Nielsen and published by Springer. This book was released on 2003-07-03 with total page 193 pages. Available in PDF, EPUB and Kindle. Book excerpt: Metabolic engineering is a rapidly evolving field that is being applied for the optimization of many different industrial processes. In this issue of Advances in Biochemical Engineering/Biotechnology, developments in different areas of metabolic engineering are reviewed. The contributions discuss the application of metabolic engineering in the improvement of yield and productivity - illustrated by amino acid production and the production of novel compounds - in the production of polyketides and extension of the substrate range - and in the engineering of S. cerevisiae for xylose metabolism, and the improvement of a complex biotransformation process.

Download or read book The Evolution of Metabolic Function written by Robert P. Mortlock and published by CRC Press. This book was released on 1992-05-20 with total page 354 pages. Available in PDF, EPUB and Kindle. Book excerpt: The Evolution of Metabolic Function presents comprehensive discussions on a variety of topics that will interest scientists and students studying the evolution of enzyme activities, the evolution of enzymatic pathways, and the evolution and development of metabolic functions. Laboratory experiments designed to develop new enzyme activities and new metabolic pathways are discussed. The most recent techniques comparing protein and gene structures are used to analyze and discuss the evolution and development of such metabolic functions as the bacterial phosphoenolpyruvate:sugar phosphotransferase system, the mandelate pathway of microorganisms, bacterial alcohol metabolism, and certain microbial amino acid biosynthetic pathways. The book also includes some unique speculations regarding the origin of early Archaean cells and the prebiotic evolution of complex molecules.

Download or read book Medical Biochemistry written by Antonio Blanco and published by Academic Press. This book was released on 2022-03-23 with total page 910 pages. Available in PDF, EPUB and Kindle. Book excerpt: This second edition of Medical Biochemistry is supported by more than 45 years of teaching experience, providing coverage of basic biochemical topics, including the structural, physical, and chemical properties of water, carbohydrates, lipids, proteins, and nucleic acids. In addition, the general aspects of thermodynamics, enzymes, bioenergetics, and metabolism are presented in straightforward and easy-to-comprehend language. This book ties these concepts into more complex aspects of biochemistry using a systems approach, dedicating chapters to the integral study of biological phenomena, including cell membrane structure and function, gene expression and regulation, protein synthesis and post-translational modifications, metabolism in specific organs and tissues, autophagy, cell receptors, signal transduction pathways, biochemical bases of endocrinology, immunity, vitamins and minerals, and hemostasis. The field of biochemistry is continuing to grow at a fast pace. This edition has been revised and expanded with all-new sections on the cell plasma membrane, the human microbiome, autophagy, noncoding, small and long RNAs, epigenetics, genetic diseases, virology and vaccines, cell signaling, and different modes of programmed cell death. The book has also been updated with full-color figures, new tables, chapter summaries, and further medical examples to improve learning and better illustrate the concepts described and their clinical significance. - Integrates basic biochemistry principles with molecular biology and molecular physiology - Illustrates basic biochemical concepts through medical and physiological examples - Utilizes a systems approach to understanding biological phenomena - Fully updated for recent studies and expanded to include clinically relevant examples and succinct chapter summaries

Download or read book Underwood s Pathology written by Simon S. Cross and published by Elsevier Health Sciences. This book was released on 2018-03-09 with total page 801 pages. Available in PDF, EPUB and Kindle. Book excerpt: Underwood's Pathology (formerly General and Systematic Pathology) is an internationally popular and highly acclaimed textbook, written and designed principally for students of medicine and the related health sciences. Pathology is presented in the context of modern cellular and molecular biology and contemporary clinical practice. After a clear introduction to basic principles, it provides comprehensive coverage of disease mechanisms and the pathology of specific disorders ordered by body system. An unrivalled collection of clinical photographs, histopathology images and graphics complement the clear, concise text. For this seventh edition, the entire book has been revised and updated. Well liked features to assist problem-based learning – including body diagrams annotated with signs, symptoms and diseases and a separate index of common clinical problems – have been retained and refreshed. The advent of whole genome sequencing and increased knowledge of the genetics of disease has been recognised by updated sections in many chapters. Download the enhanced eBook version (from studentconsult.com) for anytime access to the complete contents plus bonus learning materials, including: - clinical case studies – to help apply essential principles to modern practice - the fully revised, interactive self-assessment section with over 200 questions and answers – to check your understanding and aid exam preparation - especially produced video and podcast tutorials – to further explain and bring to life key topics - bonus pathology crosswords – to recall key words and topics in a fun and interactive way This all combines to make Underwood's an unsurpassed learning package in this fascinating and most central medical specialty. From reviews of previous editions: "...it truly is an outstanding textbook...highly recommended" Histopathology "...no doubt it will remain a bestseller – excellent value for undergraduates" Journal of Clinical Pathology "A book of this kind deserves a wide readership" Modern Pathology ".. the definitive textbook of pathology...expands on previous success and cements its position as the market leader for undergraduate pathology" The Bulletin A prize winner: Previous editions have won First Prize in the Medical Writers Group of the Society of Authors Awards, the British Book Design and Production Awards and the British Medical Association Student Textbook Award.