This Volume presents protocols for investigating the genetic, metabolic and ecological potential and functional analysis of microbial communities. Methods are described for the creation and bioinformatic assessment of metagenomic and metatranscriptomic libraries, and for metaproteomic analyses, which provide important insights into the metabolic potential and interactions of community members. These in turn lead to specific hypotheses concerning the functional contributions of individual populations in the community, which may be investigated by the stable isotope probing approaches described in this Volume, making it possible to identify those community members primarily responsible for particular functions. Methods for the direct extraction of proteins from environmental samples for sequencing and activity tests are presented, providing a broad overview of prevailing metabolic activities and of the types of microbe involved in them. Protocols for the analysis of nutrient flow through microbial communities and for the modelling of dynamic physiological interactions in communities are also provided. Lastly, the book presents a protocol for the quantitative assessment of permissiveness for the transfer of conjugative plasmids, important agents of physiological change and evolution in microbial communities. Hydrocarbon and Lipid Microbiology ProtocolsThere are tens of thousands of structurally different hydrocarbons, hydrocarbon derivatives and lipids, and a wide array of these molecules are required for cells to function. The global hydrocarbon cycle, which is largely driven by microorganisms, has a major impact on our environment and climate. Microbes are responsible for cleaning up the environmental pollution caused by the exploitation of hydrocarbon reservoirs and will also be pivotal in reducing our reliance on fossil fuels by providing biofuels, plastics and industrial chemicals. Gaining an understanding of the relevant functions of the wide range of microbes that produce, consume and modify hydrocarbons and related compounds will be key to responding to these challenges. This comprehensive collection of current and emerging protocols will facilitate acquisition of this understanding and exploitation of useful activities of such microbes.

"Yeast Genetics: Methods and Protocols "is a collection of methods to best study and manipulate "Saccharomyces cerevisiae," a truly genetic powerhouse. The simple nature of a single cell eukaryotic organism, the relative ease of manipulating its genome and the ability to interchangeably exist in both haploid and diploid states have always made it an attractive model organism. Genes can be deleted, mutated, engineered and tagged at will. "Saccharomyces cerevisiae "has played a major role in the elucidation of multiple conserved cellular processes including MAP kinase signaling, splicing, transcription and many others. Written in the 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 protocols and notes on troubleshooting and avoiding known pitfalls.

Authoritative and easily accessible, "Yeast Genetics: Methods and Protocols "will provide a balanced blend of classic and more modern genetic methods relevant to a wide range of research areas and should be widely used as a reference in yeast labs.

In this volume, expert researchers in the field detail the most up-to-date methods commonly used to study and produce carotenoids. These include methods on the manipulation and metabolic engineering of carotenoid producing microalgae and bacteria, including Corynebacterium glutamicum, Rhodopseudomonas palustris and radio-tolerant bacteria; in addition to fungi, as the beta-carotene producing Blakeslea trispora and Mucor circinelloides or the lycopene producing Blakeslea trispora; and the heterobasidiomycetous yeast producing xanthophylls Xanthophyllomyces dendrorhous (Phaffia rhodozyma) and the engineered yeast Pichia pastoris. Additionally, three overview chapters on the advancement of Biotechnology and carotenoid production are included. 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 key tips on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, Microbial Carotenoids: Methods and Protocols provides practical experimental laboratory procedures for a wide range of carotenoids producing microorganisms, aiming to ensure successful results in the further study of this vital field.

"Use of Microbes for the Alleviation of Soil Stresses, Volume 1" describes the most important details and advances related to the alleviation of soil stresses by soil microbes. Comprised of seven chapters, the book reviews the mechanisms by which plant growth promoting rhizobacteria (PGPR) alleviate plant growth under stress; the role of mycorrhizal fungi on the alleviation of drought stress in host plants; how PGPR may alleviate salinity stress on the growth of host plants; and the role of PGPR on the growth of the host plant under the stress of sub optimal root zone temperature.

Written by experts in their respective fields, "Use of Microbes for the Alleviation of Soil Stresses, Volume 1 "is a comprehensive and valuable resource for researchers and students interested in the field of microbiology and soil stresses.

Completely revised and updated, the new edition of this groundbreaking text integrates basic virology with pathophysiological conditions to examine the connection between virology and human disease. Most virology textbooks focus on the molecular biology involved without adequate reference to physiology. This text focuses on viruses that infect humans, domestic animals and vertebrates and is based on extensive course notes from James Strauss' virology class at the California Institute of Technology taught for over 30 years. Expertly depicting in color the molecular structure and replication of each virus, it provides an excellent overview for students and professionals interested in viruses as agents of human disease.
* Includes over 30% new material - virtually all of the figures and tables have been redrawn to include the latest information and the text has been extensively rewritten to include the most up-tp-date information
* Includes a new chapter on emerging and reemerging viral diseases such as avian flu, SARS, the spread of West Nile virus across America, and the continuing spread of Nipah virus in Southeast Asia.
* Further reading sections at the end of each chapter make it easy find key references
* World maps depicting the current distribution of existing and newly emerging viruses are also incorporated into the text
* A companion website features illustrations for use in class notes and presentations.

Published since 1959, "Advances in Applied Microbiology" continues to be one of the most widely read and authoritative review sources in Microbiology.
The series contains comprehensive reviews of the most current research in applied microbiology. Recent areas covered include bacterial diversity in the human gut, protozoan grazing of freshwater biofilms, metals in yeast fermentation processes and the interpretation of host-pathogen dialogue through microarrays.

Published since 1953, Advances in Virus Research covers a diverse range of in-depth reviews providing a valuable overview of the current field of virology.
In 2004, the Institute for Scientific Information released figures showing that the series has an Impact Factor of 2.576, with a half-life of 7.1 years, placing it 11th in the highly competitive category of Virology.

The interactions between the plant, soil and microbes are complex in nature. Events may be antagonistic, mutualistic or synergistic, depending upon the types of microorganisms and their association with the plant and soil in question. Multi-trophic tactics can therefore be employed to nourish plants in various habitats and growth conditions. Understanding the mechanisms of these interactions is thus highly desired in order to utilize the knowledge in an ecofriendly and sustainable way. This holistic approach to crop improvement may not only resolve the upcoming food security issues, but also make the environment greener by reducing the chemical inputs. Plant, soil and microbe, Volume 1: Implications in Crop Science, along with the forthcoming Volume 2: Mechanisms and Molecular Interactions, provide detailed accounts of the exquisite and delicate balance between the three critical components of agronomy. Specifically, these two titles focus on the basis of nutrient exchange between the microorganisms and the host plants, the mechanism of disease protection and the recent molecular details emerged from studying this multi-tropic interaction. Together they aim to provide a solid foundation for the students, teachers, and researchers interested in soil microbiology, plant pathology, ecology and agronomy.

SARS was the ?rst new plague of the twenty-?rst century. Within months, it spread worldwide from its "birthplace" in Guangdong Province, China, affecting over 8,000 people in 25 countries and territories across ?ve continents. SARS exposed the vulnerability of our modern globalised world to the spread of a new emerging infection. SARS (or a similar new emerging disease) could neither have spread so rapidly nor had such a great global impact even 50 years ago, and arguably, it was itself a product of our global inter-connectedness. Increasing af?uence and a demand for wild-game as exotic food led to the development of large trade of live animal and game animal markets where many species of wild and domestic animals were co-housed, providing the ideal opportunities for inter-species tra- mission of viruses and other microbes. Once such a virus jumped species and attacked humans, the increased human mobility allowed the virus the opportunity for rapid spread. An infected patient from Guangdong who stayed for one day at a hotel in Hong Kong led to the transmission of the disease to 16 other guests who travelled on to seed outbreaks of the disease in Toronto, Singapore, and Vietnam, as well as within Hong Kong itself. The virus exploited the practices used in modern intensive care of patients with severe respiratory disease and the weakness in infection control practices within our health care systems to cause outbreaks within hospitals, further amplifying the spread of the disease. Health-care itself has become a two-edged sword.

In this book, researchers and practitioners working in the field present the major promises of algae biotechnology and they critically discuss the challenges arising from applications. Based on this assessment, the authors explore the great scientific, industrial and economic potential opened up by algae biotechnology. The first part of the book presents recent developments in key enabling technologies, which are the driving force to unleash the enormous potential of algae biotechnology. The second part of the book focuses on how practical applications of algae biotechnology may provide new solutions to some of the grand challenges of the 21st century. Algae offer great potential to support the building of a bio-based economy and they can contribute new solutions to some of the grand challenges of the 21st century. Despite significant progress, algae biotechnology is yet far from fulfilling its potential. How to unleash this enormous potential is the challenge that the own field is facing. New cultivation technologies and bioprocess engineering allow for optimization of the operation strategy of state-of the art industrial-scale production systems and they reduce the production costs. Parallel to this, new molecular technologies for genetic and metabolic engineering of (micro)algae develop quickly. The optimization of existing biochemical pathways or the introduction of pathway components makes high-yield production of specific metabolites possible. Novel screening technologies including high-throughput technologies enables testing of extremely large numbers of samples and, thus, allow for large scale modelling of biomolecular processes, which would have not been possible in the past. Moreover, profitable production can demand for integrated biorefining, which combines consecutive processes and various feedstocks to produce both transportation fuel, electric energy and valuable chemicals.

The book is oriented towards undergraduates science and engineering students; postgraduates and researchers pursuing the field of microbiology, biotechnology, chemical - biochemical engineering and pharmacy. Various applications of microorganisms have been covered broadly and have been appropriately reflected in depth in 12 different chapters. The book begins with an insight to the diverse niche of microorganisms which have been explored and exploited in development of various biotechnological products and green processes. Further, how these microorganisms have been genetically modified to improve the desired traits for achieving optimal production of microbially derived products is discussed in the second chapter. Major route of production of microbially derived products and processes is through fermentation technology and therefore due emphasis on different aspects of fermentation technology has been given in the subsequent chapter. The development and deployment of biopesticides and biofertilizers which find tremendous application have been separately discussed under agricultural applications. Application of microbes for the removal of pollutants, recovery of metals and oils has also been discussed under environmental applications. The role of microbial systems in development of fermented foods and beverages have also been discussed in Chapter 6. The application of microbes in production of commodity chemicals and fine chemicals has also been discussed in separate chapters. A chapter has been dedicated to the tremendous applications of microbially produced enzymes in different industrial sectors. Another unique facet of this book is explaining the different methods by which desired traits of microorganisms have been improved for their efficacious and economical exploitation in the industry. A chapter is dedicated to exploitation of microorganisms in development of vaccines for human and veterinary use. Finally, the last chapter discusses the role of immobilization in optimization of industrial processes and development of microbial biosensors for industrial applications. Thus, this book is a holistic approach providing information on the present applications of microorganisms.

This book focuses on the multitude of functions bacterial membrane vesicles perform in bacterial ecology and pathogenesis as well as in emerging medical and biotechnological applications. Both Gram-negative and Gram-positive bacteria produce membrane-bound nanostructures, known as membrane vesicles, which have a range of functions that include serving as delivery vehicles, providing a means of communication over both spatial and temporal scales, and contributing to bacterial survival and evolution. Topics covered in this book range from the biogenesis and composition of bacterial membrane vesicles to their abundance and biological roles in microbial ecosystems, such as marine environments. In the individual chapters, the involvement of bacterial membrane vesicles in host-pathogen interactions, promoting virulence and in facilitating the establishment of infection is explained. In addition, current knowledge regarding membrane vesicles produced by commensal bacteria and their role in the maturation of the host immune system, as well as the therapeutic potential of bacterial membrane vesicles as delivery systems and innovative nanotechnology-based therapeutics are discussed. This work appeals to a wide readership of students and researchers interested in microbial ecology, mechanism underlying pathogenesis and new avenues in applied microbiology and nanotechnology.

"Host-Bacteria Interactions: Methods and Protocols" details cutting edge protocols that cover aspects of the investigation of host bacteria interactions using mammalian and novel non mammalian infection models, cell biology, OMICS and bacterial genetics. Chapters focus on techniques that can be used to investigate different aspects of the physiopathology of bacterial infections, from the whole animal to tissue, cellular and molecular level. 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 cutting-edge, "Host-Bacteria Interactions: Methods and Protocols "provide researchers with a comprehensive account of the practical steps necessary for carrying out each protocol successfully.

This book focuses on biogas production by anaerobic digestion, which is the most popular bioenergy technology of today. Using anaerobic digestion for the production of biogas is a sustainable approach that simultaneously also allows the treatment of organic waste. The energy contained in the substrate is released in the form of biogas, which can be employed as a renewable fuel in diverse industrial sectors. Although biogas generation is considered an established process, it continues to evolve, e.g. by incorporating modifications and improvements to increase its efficiency and its downstream applications. The chapters of this book review the progress made related to feedstock, system configuration and operational conditions. It also addresses microbial pathways utilized, as well as storage, transportation and usage of biogas. This book is an up-to-date resource for scientists and students working on improving biogas production.

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.

Soils into which crop plants root and from which they obtain essential minerals and water contain huge arrays of microbes. Many have highly beneficial effects on crop growth and productivity, others are pathogens causing diseases and losses to yield and quality, a few microbes offer protection from these pathogenic forms and others have little or no effect. These intimate and often complex inter-relationships are being explored with increasing success providing exciting opportunities for increasing crop yields and quality in sustainable harmony with the populations of beneficial soil microbes and to the detriment of pathogens. This book explores current knowledge for each of these aspects of soil microbiology and indicates where future progress is most likely to aid in increasing crop productivity by means which are environmentally benign and beneficial.

The literature on recoding is scattered, so this superb book ?lls a need by prov- ing up-to-date, comprehensive, authoritative reviews of the many kinds of recoding phenomena. Between 1961 and 1966 my colleagues and I deciphered the genetic code in Escherichia coli and showed that the genetic code is the same in E. coli, Xenopus laevis, and guinea pig tissues. These results showed that the code has been c- served during evolution and strongly suggested that the code appeared very early during biological evolution, that all forms of life on earth descended from a c- mon ancestor, and thus that all forms of life on this planet are related to one another. The problem of biological time was solved by encoding information in DNA and retrieving the information for each new generation, for it is easier to make a new organism than it is to repair an aging, malfunctioning one. Subsequently, small modi?cations of the standard genetic code were found in certain organisms and in mitochondria. Mitochondrial DNA only encodes about 10-13 proteins, so some modi?cations of the genetic code are tolerated that pr- ably would be lethal if applied to the thousands of kinds of proteins encoded by genomic DNA.

Published since 1953, Advances in Virus Research covers a diverse range of in-depth reviews providing a valuable overview of the current field of virology.
In 2004, the Institute for Scientific Information released figures showing that the series has an Impact Factor of 2.576, with a half-life of 7.1 years, placing it 11th in the highly competitive category of Virology.

"Microorganisms in Foods 8: Use of Data for Assessing Process Control and Product Acceptance" is written by the International Commission on Microbiological Specifications for Foods with assistance from a limited number of consultants. The purpose of this book is to provide guidance on appropriate testing of food processing environments, processing lines, and finished product to enhance the safety and microbiological quality of the food supply. Microorganisms in Foods 8 consists of two parts. Part I, Principles of Using Data in Microbial Control, builds on the principles of "Microorganisms in Foods 7: Microbiological Testing in Food Safety Management" (2002), which illustrates how HACCP and Good Hygienic Practices (GHP) provide greater assurance of safety than microbiological testing, but also identifies circumstances where microbiological testing may play a useful role. Part II, Specific Applications to Commodities, provides practical examples of criteria and other tests and is an updated and expanded version of Part II of "Microorganisms in Foods 2: Sampling for Microbiological Analysis: Principles and Specific Applications" (2nd ed. 1986). Part II also builds on the 2nd edition of "Microorganisms in Foods 6: Microbial Ecology of Food Commodities" (2005) by identifying appropriate tests to evaluation the effectiveness of controls.

Systems Biology aims at deciphering the genotype-phenotype relationships at the levels of genes, transcripts (RNAs), peptides, proteins, metabolites, and environmental factors participating in complex cellular networks in order to reveal the mechanisms and principles governing the behavior of complex biological systems. Yeast Systems Biology: Methods and Protocols presents an up-to-date view of the optimal characteristics of the yeast Saccharomyces cerevisiae as a model eukaryote, perspective on the latest experimental and computational techniques for systems biology studies, most of which were first designed for and validated in yeast, and selected examples of yeast systems biology studies and their applications in biotechnology and medicine. These experiments under controlled conditions can uncover the complexity and interplay of biological networks with their dynamics, basic principles of internal organization, and balanced orchestrated functions between organelles in direct interaction with the environment as well as the characterization of short and long-term effects of perturbations and dysregulation of networks that may illuminate the origin of complex human diseases. Written for the highly successful Methods in Molecular Biology (TM) series, this volume contains the kind of detailed description and implementation advice that is crucial for getting optimal results. Practical and cutting-edge, Yeast Systems Biology: Methods and Protocols serves researchers interested in comprehensive systems biology strategies in well-defined model systems with specific objectives as well as a better knowledge of the latest post-genomic strategies at all 'omic levels and computational approaches towards analysis, integration, and modeling of biological systems, from single-celled organisms to higher eukaryotes.

Since the publication of the popular first edition, genomic methods have become more accessible, allowing antibiotic researchers to probe not only the sequence of antibiotic resistance determinants but the mechanism whereby they are expressed and regulated. That, in concert with array technology and an understanding of the importance of biofilms, has greatly expanded antibiotic resistance knowledge. In order to reflect the growing field, Antibiotic Resistance Protocols, Second Edition fully updates and builds upon its first edition with contributions from leading researchers. Beginning with chapters on epidemiology and population genetics, the book continues with sections covering genomics and gene expressions, fitness mutation and physiology, and the detection of resistance. Written in the highly successful Methods in Molecular Biology (TM) series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and notes on troubleshooting and avoiding known pitfalls. Authoritative and up-to-date, Antibiotic Resistance Protocols, Second Edition brings together examples of a diverse range of modern techniques applied in antibiotic research in order to best aid scientists in planning their own future research.

The field of bacterial diagnostics has seen unprecedented advances in recent years. The increased need for accurate detection and identification of bacteria in human, animal, food, and environmental samples has fueled the development of new techniques. The field has seen extensive research aided by the information from bacterial genome sequencing projects. Although traditional methods of bacterial detection and identification remain in use in laboratories around the world, there is now a growing trend toward the use of nucleic ac- based diagnostics and alternative biochemically and immunologically based formats. The ultimate goal of all diagnostic tests is the accurate detection, identification, or typing of microorganisms in samples of interest. Although the resulting information is of obvious use in the areas of patient management, animal health, and quality control, it is also of use in monitoring routes of infection and outlining strategies for infection control. There is, therefore, a need to ensure that the information being provided is of the highest standard and that any new technique is capable of delivering this.

Published since 1953, Advances in Virus Research covers a diverse range of in-depth reviews providing a valuable overview of the current field of virology.
In 2004, the Institute for Scientific Information released figures showing that the series has an Impact Factor of 2.576, with a half-life of 7.1 years, placing it 11th in the highly competitive category of Virology.

Microbial Nanobionics: Volume 2, Basic Research Applications continues the important discussion of microbial nanoparticle synthesis with a focus on the mechanistic approach of biosynthesis towards nanobionics. This volume also explores the toxicity of nanomaterials in microbes and their effect on human health and the environment. Special Emphasis is given to the use of polymeric nanomaterials in smart packing for the food industry and agricultural sector. The future of nanomaterials for detection of soil microbes and their interactions and tools for environmental remedies is also comprehensively covered. The rich biodiversity of microbes make them excellent candidates for potential nanoparticle synthesis biofactories. Through a better understanding of the biochemical and molecular mechanisms of the microbial biosynthesis of metal nanoparticles, the rate of synthesis can be better developed and the monodispersity of the product can be enhanced. The characteristics of nanoparticles can be controlled via optimization of important parameters, such as temperature, pH, concentration and pressure, which regulate microbe growth conditions and cellular and enzymatic activities. Large scale microbial synthesis of nanoparticles is a sustainable method due to the non-hazardous, non-toxic and economical nature of these processes. The applications of microbial synthesis of nanoparticles are wide and varied, spanning the industrial, biomedical and environmental fields. Biomedical applications include improved and more targeted antimicrobials, biosensing, imaging and drug delivery. In the environmental fields, nanoparticles are used for bioremediation of diverse contaminants, water treatment, catalysis and production of clean energy. With the expected growth of microbial nanotechnology, this volume will serve as a comprehensive and timely reference.

Expert scientists critically review the current and most recent advances in the genomics and molecular biology of mycobacteria. The focus is on the topical and most relevant aspects and the authors aim to give readers an insight into the current understan