Pathway Analysis And Optimization In Metabolic Engineering

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Pathway Analysis and Optimization in Metabolic Engineering

Author : Néstor V. Torres
Publisher : Cambridge University Press
ISBN 13 : 9781139437615
Total Pages : 328 pages
Book Rating : 4.4/5 (376 download)

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Book Synopsis Pathway Analysis and Optimization in Metabolic Engineering by : Néstor V. Torres

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.

Metabolic Pathway Engineering

Author : Jean F. Challacombe
Publisher : CRC Press
ISBN 13 : 1000260542
Total Pages : 116 pages
Book Rating : 4.0/5 (2 download)

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Book Synopsis Metabolic Pathway Engineering by : Jean F. Challacombe

Download or read book Metabolic Pathway Engineering written by Jean F. Challacombe and published by CRC Press. This book was released on 2021-07-14 with total page 116 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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

Author : Christina Smolke
Publisher : CRC Press
ISBN 13 : 142007766X
Total Pages : 570 pages
Book Rating : 4.4/5 (2 download)

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Book Synopsis The Metabolic Pathway Engineering Handbook by : Christina Smolke

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

The Metabolic Pathway Engineering Handbook

Author : Christina Smolke
Publisher : CRC Press
ISBN 13 : 1439802971
Total Pages : 680 pages
Book Rating : 4.4/5 (398 download)

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Book Synopsis The Metabolic Pathway Engineering Handbook by : Christina Smolke

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

Metabolic Engineering

Author : Sang Yup Lee
Publisher : John Wiley & Sons
ISBN 13 : 352782345X
Total Pages : 1075 pages
Book Rating : 4.5/5 (278 download)

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Book Synopsis Metabolic Engineering by : Sang Yup Lee

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.

Optimization Methods in Metabolic Networks

Author : Costas D. Maranas
Publisher : John Wiley & Sons
ISBN 13 : 1119028493
Total Pages : 278 pages
Book Rating : 4.1/5 (19 download)

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Book Synopsis Optimization Methods in Metabolic Networks by : Costas D. Maranas

Download or read book Optimization Methods in Metabolic Networks written by Costas D. Maranas and published by John Wiley & Sons. This book was released on 2016-02-23 with total page 278 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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

Systems Metabolic Engineering

Author : Christoph Wittmann
Publisher : Springer Science & Business Media
ISBN 13 : 9400745346
Total Pages : 391 pages
Book Rating : 4.4/5 (7 download)

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Book Synopsis Systems Metabolic Engineering by : Christoph Wittmann

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.

Synthetic Biology of Cyanobacteria

Author : Weiwen Zhang
Publisher : Springer
ISBN 13 : 9811308543
Total Pages : 357 pages
Book Rating : 4.8/5 (113 download)

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Book Synopsis Synthetic Biology of Cyanobacteria by : Weiwen Zhang

Download or read book Synthetic Biology of Cyanobacteria written by Weiwen Zhang and published by Springer. This book was released on 2018-08-08 with total page 357 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume highlights recent breakthroughs in the interdisciplinary areas of synthetic biology, metabolic engineering and bioprocess engineering for the production of green chemicals. It also presents practical experimental and computational tools for the design, construction and manipulation of cyanobacteria cell factories. The respective contributions cover new technologies in the field, such as novel genetic transformation techniques and bioinformatics analysis methods and address various aspects of cyanobacterial synthetic biology, offering a valuable resource for students and researchers in the fields of industry microbiology and biomedical engineering.

Synthetic Biology – Metabolic Engineering

Author : Huimin Zhao
Publisher : Springer
ISBN 13 : 3319553186
Total Pages : 326 pages
Book Rating : 4.3/5 (195 download)

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Book Synopsis Synthetic Biology – Metabolic Engineering by : Huimin Zhao

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.

Metabolic Pathway Design

Author : Pablo Carbonell
Publisher : Springer Nature
ISBN 13 : 3030298655
Total Pages : 168 pages
Book Rating : 4.0/5 (32 download)

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Book Synopsis Metabolic Pathway Design by : Pablo Carbonell

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.

Systems Biology and Synthetic Biology

Author : Pengcheng Fu
Publisher : John Wiley & Sons
ISBN 13 : 9780470437971
Total Pages : 672 pages
Book Rating : 4.4/5 (379 download)

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Book Synopsis Systems Biology and Synthetic Biology by : Pengcheng Fu

Download or read book Systems Biology and Synthetic Biology written by Pengcheng Fu and published by John Wiley & Sons. This book was released on 2009-08-13 with total page 672 pages. Available in PDF, EPUB and Kindle. Book excerpt: The genomic revolution has opened up systematic investigations and engineering designs for various life forms. Systems biology and synthetic biology are emerging as two complementary approaches, which embody the breakthrough in biology and invite application of engineering principles. Systems Biology and Synthetic Biology emphasizes the similarity between biology and engineering at the system level, which is important for applying systems and engineering theories to biology problems. This book demonstrates to students, researchers, and industry that systems biology relies on synthetic biology technologies to study biological systems, while synthetic biology depends on knowledge obtained from systems biology approaches.

Metabolic Engineering in the Post Genomic Era

Author : Boris N. Kholodenko
Publisher : Garland Science
ISBN 13 : 9780954523220
Total Pages : 472 pages
Book Rating : 4.5/5 (232 download)

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Book Synopsis Metabolic Engineering in the Post Genomic Era by : Boris N. Kholodenko

Download or read book Metabolic Engineering in the Post Genomic Era written by Boris N. Kholodenko and published by Garland Science. This book was released on 2004 with total page 472 pages. Available in PDF, EPUB and Kindle. Book excerpt: The Horizon Scientific Press titles focus on high-level microbiology and molecular biology topics. Written by internationally renowned and highly respected leaders in the field, titles in this series comprise of review manuals, practical manuals, and reference texts for research scientists, bioscience professionals and graduate students. Engineering living cells continues to pose immense challenges to the researcher. In fact many bioengineers have only just started to appreciate the full extent of the hierarchical control used by living systems: upon attempts to increase the activity of a "rate-limiting" step, the multiple feedbacks at the metabolic, signaling and genetic levels result in the rate limiting step shifting to elsewhere in that pathway or even to elsewhere in the whole organism. The advent of full-force genomics should enable preventing this response, however, it has been difficult for researchers to know where to turn for guidance. This book aims to help the reader understand and deal with the plasticity of living cell factories and to turn the plasticity into the desired rather than the adverse direction. The book brings together all the recent, most important breakthroughs in this exciting field: Internationally renowned key scientists have reviewed each topic in detail. In the Introduction, the editors give an overview of new approaches and spell out what the engineer and the industry may now really begin to aim for; they even adapt the definition of metabolic engineering to befit the post-genomics era. Other topics included are: the experimental approaches necessary to understand cellular regulation at all of its hierarchical levels, including proteomics [Chapter 2], metabolomics [Chapter 3] and fluxomics [Chapter 4]; new tools that help metabolic engineering [Chapters 5-7]; modeling of living cells, e.g. finding metabolic pathways [Chapter 8] and comparing the actual and predicted use of these in living organisms such as E. coli and Corynebacteria [Chapters 9, 10]; the optimization of cell factories as production organisms (e.g., use of whole cell models, silicon cells, and coordinate manipulation of multiple genes [Chapters 12-15]). A chapter on future perspectives directs further developments of the field in the near future. Metabolic Engineering in the Post Genomic Erais an essential reading for everyone with an interest in engineering living cells including: Metabolic egnineers, bioengineers, biotechnologists, molecular biologists, and pharmaceutical and biotechnology companies.

MATLAB for Machine Learning

Author : Giuseppe Ciaburro
Publisher : Packt Publishing Ltd
ISBN 13 : 1788399390
Total Pages : 374 pages
Book Rating : 4.7/5 (883 download)

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Book Synopsis MATLAB for Machine Learning by : Giuseppe Ciaburro

Download or read book MATLAB for Machine Learning written by Giuseppe Ciaburro and published by Packt Publishing Ltd. This book was released on 2017-08-28 with total page 374 pages. Available in PDF, EPUB and Kindle. Book excerpt: Extract patterns and knowledge from your data in easy way using MATLAB About This Book Get your first steps into machine learning with the help of this easy-to-follow guide Learn regression, clustering, classification, predictive analytics, artificial neural networks and more with MATLAB Understand how your data works and identify hidden layers in the data with the power of machine learning. Who This Book Is For This book is for data analysts, data scientists, students, or anyone who is looking to get started with machine learning and want to build efficient data processing and predicting applications. A mathematical and statistical background will really help in following this book well. What You Will Learn Learn the introductory concepts of machine learning. Discover different ways to transform data using SAS XPORT, import and export tools, Explore the different types of regression techniques such as simple & multiple linear regression, ordinary least squares estimation, correlations and how to apply them to your data. Discover the basics of classification methods and how to implement Naive Bayes algorithm and Decision Trees in the Matlab environment. Uncover how to use clustering methods like hierarchical clustering to grouping data using the similarity measures. Know how to perform data fitting, pattern recognition, and clustering analysis with the help of MATLAB Neural Network Toolbox. Learn feature selection and extraction for dimensionality reduction leading to improved performance. In Detail MATLAB is the language of choice for many researchers and mathematics experts for machine learning. This book will help you build a foundation in machine learning using MATLAB for beginners. You'll start by getting your system ready with t he MATLAB environment for machine learning and you'll see how to easily interact with the Matlab workspace. We'll then move on to data cleansing, mining and analyzing various data types in machine learning and you'll see how to display data values on a plot. Next, you'll get to know about the different types of regression techniques and how to apply them to your data using the MATLAB functions. You'll understand the basic concepts of neural networks and perform data fitting, pattern recognition, and clustering analysis. Finally, you'll explore feature selection and extraction techniques for dimensionality reduction for performance improvement. At the end of the book, you will learn to put it all together into real-world cases covering major machine learning algorithms and be comfortable in performing machine learning with MATLAB. Style and approach The book takes a very comprehensive approach to enhance your understanding of machine learning using MATLAB. Sufficient real-world examples and use cases are included in the book to help you grasp the concepts quickly and apply them easily in your day-to-day work.

Yeast Metabolic Engineering

Author : Valeria Mapelli
Publisher : Humana Press
ISBN 13 : 9781493905621
Total Pages : 0 pages
Book Rating : 4.9/5 (56 download)

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Book Synopsis Yeast Metabolic Engineering by : Valeria Mapelli

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.

Systems and Synthetic Metabolic Engineering

Author : Yanfeng Liu
Publisher : Academic Press
ISBN 13 : 0128217529
Total Pages : 294 pages
Book Rating : 4.1/5 (282 download)

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Book Synopsis Systems and Synthetic Metabolic Engineering by : Yanfeng Liu

Download or read book Systems and Synthetic Metabolic Engineering written by Yanfeng Liu and published by Academic Press. This book was released on 2020-07-10 with total page 294 pages. Available in PDF, EPUB and Kindle. Book excerpt: Systems and Synthetic Metabolic Engineering provides an overview of the development of metabolic engineering within medicine that is fueled by systems and synthetic biology. These newly developed, successful strategies of metabolic engineering guide the audience on how to propose and test proper strategies for metabolic engineering research. In addition to introductory, regulatory and challenges in the field, the book also covers dynamic control and autonomous regulation to control cell metabolism, along with computational modeling and industrial applications. The book is written by leaders in the field, making it ideal for synthetic biologists, researchers, students and anyone working in this area. Discusses the current progress of metabolic engineering, focusing on systems biology and synthetic biology Covers introductory, regulatory, strategies, production and challenges in the field Written technically for synthetic biologists, researchers, students, industrialists, policymakers and stakeholders

The Regulation of Cellular Systems

Author : Reinhart Heinrich
Publisher : Springer Science & Business Media
ISBN 13 : 1461311616
Total Pages : 387 pages
Book Rating : 4.4/5 (613 download)

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Book Synopsis The Regulation of Cellular Systems by : Reinhart Heinrich

Download or read book The Regulation of Cellular Systems written by Reinhart Heinrich and published by Springer Science & Business Media. This book was released on 2012-12-06 with total page 387 pages. Available in PDF, EPUB and Kindle. Book excerpt: There is no doubt that nowadays, biology benefits greatly from mathematics. In particular, cellular biology is, besides population dynamics, a field where tech niques of mathematical modeling are widely used. This is reflected by the large number of journal articles and congress proceedings published every year on the dynamics of complex cellular processes. This applies, among others, to metabolic control analysis, where the number of articles on theoretical fundamentals and experimental applications has increased for about 15 years. Surprisingly, mono graphs and textbooks dealing with the modeling of metabolic systems are still exceptionally rare. We think that now time is ripe to fill this gap. This monograph covers various aspects of the mathematical description of enzymatic systems, such as stoichiometric analysis, enzyme kinetics, dynamical simulation, metabolic control analysis, and evolutionary optimization. We believe that, at present, these are the main approaches by which metabolic systems can be analyzed in mathematical terms. Although stoichiometric analysis and enzyme kinetics are classical fields tracing back to the beginning of our century, there are intriguing recent developments such as detection of elementary biochemical syn thesis routes and rate laws for the situation of metabolic channeling, which we have considered worth being included. Evolutionary optimization of metabolic systems is a rather new field with promising prospects. Its goal is to elucidate the structure and functions of these systems from an evolutionary viewpoint.

Metabolic Engineering

Author : Jens Nielsen
Publisher : Springer
ISBN 13 : 3540453008
Total Pages : 193 pages
Book Rating : 4.5/5 (44 download)

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Book Synopsis Metabolic Engineering by : Jens Nielsen

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.