Since the initial establishment of Robert Koch's postulates in the nineteenth century, microbial protein toxins have been recognized as a major factor of bacterial and fungal virulence. An increasing number of proteins produced and secreted by various bacteria, yeasts and plants are extremely toxic and most of them developed remarkably "intelligent" strategies to enter, to penetrate and to finally kill a eukaryotic target cell by modifying or blocking essential cellular components.

This book describes the strategies employed by protein toxins to render their pro- and eukaryotic producers a selective growth advantage over competitors. In providing an up-to-date overview on the mode of protein toxin actions, it accommodates biomedically and biologically relevant toxin model systems. As a result, it significantly broadens our perspective on biochemical architecture and molecular ploy behind the lethal principles of pro- and eukaryotic toxins.

Pine forests face a global threat of pine wilt disease, which is being spread by vector beetles carrying pathogenic nematodes from dead trees to healthy ones. Among the host pines there are varying degrees of susceptibility, and nematode strains also contain a variety of virulences, both of which factors help to determine whether infected host trees will die or survive. As well, biotic and abiotic environmental factors influence the fate of infected trees. This book describes the history of the disease, pathogenic nematodes, vector beetles, the etiology and ecology of the disease, microorganisms involved, and control methods that utilize host resistance and biological control agents. Concrete, comprehensive, and the most up-to-date knowledge about this worldwide forest epidemic is presented for readers, enabling them to understand the nature and epidemic threat of pine wilt disease.

Part of a review series that looks at trends in modern biology. This book covers aspects of bioprocessing and biotransformation, where knowledge, methods and expertise are required from chemistry, biochemistry, microbiology, genetics, chemical engineering and computer science.

Composting is increasingly used as a recycling technology for organic wastes. Knowledge on the composition and activities of compost microbial communities has so far been based on traditional methods. New molecular and physiological tools now offer new insights into the "black box" of decaying material. An unforeseen diversity of microorganisms are involved in composting, opening up an enormous potential for future process and product improvements. In this book, the views of scientists, engineers and end-users on compost production, process optimisation, standardisation and product application are presented.

Representing the latest knowledge of the ecology and the physiology of cold-adapted microorganisms, plants and animals, this book explains the mechanisms of cold-adaptation on the enzymatic and molecular level, including results from the first crystal structures of enzymes of cold-adapted organisms.

When one picks up a multiauthored book in a series like this, one wonders what will be distinctive about its contents. one wonders about the "Concept of Symbiosis. " does it have the same meaning for all authors and all potential readers? one is further tempted to question the concept of stress. What is the meaning of the c- cept of stress? Some change in the biotic or abiotic aspects of the environment or habitat of the symbiotic partners? many might support the more general def- tion of symbiosis credited to de bary (1879), that symbiosis is the living together of separately named organisms. Something like Smith's (1992) more restricted PoLLnPia (P ermanent or Long-Lived intimate associations between diffe- ent organisms, usually of different sizes, in which the larger organism, the host, exploits the capabilities of one or more smaller organisms) seems to be a better ft for a book centered on the effects of stress on symbiosis. PoLLnPia implies an integrated holobiont system that has adapted itself to living successfully in a particular environment that could be construed as harsh for nonsymbiotic s- tems. often, when queried for examples, one thinks of lichens, of corals living in oligotrophic tropical waters, of Pompeii worms living in association with che- lithotrophic bacteria, and of all sorts of herbivorous animals living in associations with microorganisms. Presumably, the hosts could not survive, or thrive, in their habitats without their smaller partners doing their trophic work for their holo- otic systems.

With the predicted increase of the human population and the subsequent need for larger food supplies, root health in crop plants could play a major role in providing sustainable highly productive crops that can cope with global climate changes. While the essentiality of roots and their relation to plant performance is broadly recognized, less is known about their role in plant growth and development. Root Genomics examines how various new genomic technologies are rapidly being applied to the study of roots, including high-throughput sequencing and genotyping, TILLING, transcription factor analysis, comparative genomics, gene discovery and transcriptional profiling, post-transcriptional events regulating microRNAs, proteome profiling and the use of molecular markers such as SSRs, DArTs, and SNPs for QTL analyses and the identification of superior genes/alleles. The book also covers topics such as the molecular breeding of crops in problematic soils and the responses of roots to a variety of stresses.

This volume addresses the similarities and also the differences in the genomes of soil saprophytes, symbionts, and plant pathogens by using examples of fungal species to illustrate particular principles. It analyzes how the specific interactions with the hosts and the influence of the environment may have shaped genome evolution. The relevance of fungal genetic research and biotechnological applications is shown for areas such as plant pathogenesis, biomass degradation, litter decomposition, nitrogen assimilation, antibiotic production, mycoparasitism, energy, ecology, and also for soil fungi turning to human pathogens. In addition to the model organisms Neurospora and Aspergillus, the following species are covered providing a view of pathogens and mutualists: Trichoderma, Fusarium oxysporum, Cochliobolus heterostrophus, Penicillium chrysogenum, Rhizopus oryzae, Podospora anserina, and species belonging to Agaricomycetes, Archaeorhizomycetes and Magnaporthaceae. Ecology and potential applications have guided the choice of fungal genes to be studied and it will be fascinating to follow the trends of future sequencing projects.

It has been clear for a long time that after transplantation of a lymphoid organ, hematopoietic stem cells can regenerate the compartments of the organ, provided that the rest of its architecture - the strome, the epithelia and the vessels - is intact. Ahead lies the even greater challenge to assemble also these other architectural elements of a lymphoid organ by transplanting stem cells. The workshop on lymphoid organogenesis was convened to review current knowledge of and experimental skills involved in this grand project to build a lymphoid organ from its individual cellular components.

Diazotrophic bacteria convert atmospheric nitrogen to plant-useable form and this input of nitrogen through biological fixation is of great agronomic importance. The contributions presented in this volume relate to free-living nitrogen fixers and the diazotrophs associated with plants. Symbiotic association of Frankia with non-legumes and cyanobacterial associations are also discussed. Research topics covered in this volume include the biochemistry and genetics of diazotrophs, recent developments in improvement of plant-microbe interactions and their molecular basis, the use of molecular probes in taxonomy and ecology of diazotrophs and reports on field applications, agronomic importance and improvement in methodologies for assessing their contribution to plants. This book provides valuable information not only for researchers working in the field of biological nitrogen fixation but also for biochemistry, molecular biologists, microbiologists and agronomists.

The aim of this first book is to introduce the readers of the series to why Cuatro Cienegas Basin (CCB) is so unique, starting with the reason why astrobiologists became interested in this oasis in the first place; namely, the high diversity and abundance of stromatolites and microbial mats in continental waters to be found in the desert oasis. As NASA has long since discovered, the basin may offer the best analog of early Earth. In essence, CCB is a time machine that can take us far back and forth in time. In the respective chapters, the contributing authors explain the extraordinary microbial diversity of Cuatro Cienegas Basin from various perspectives. In order to do so, they explain their journey as well as the different tools used to unravel the basin's mysteries, such as: Why are there so many species in a place without food? How has life there survived the enormity of tectonic shifts through the ages, maintaining its ancient marine heritage?

In this comprehensive reference, leading researchers examine the biology, molecular biology, and diseases of the Bunyaviridae, and provide up-to-date information on the genetic characterization and variations of this virus group. The chapters deal with the molecular biology of five genera: Bunyavirus, Hantavirus, Nairovirus, Phlebovirus, and Tospovirus. The chapters examine Bunyaviridae assembly and intracelluar protein transport as well as Bunyaviridae genetics. The contributors discuss the Bunyaviridae diseases, including the hantavirus pulmonary syndrome.

This Volume presents generic protocols for wet experimental and computer-based systems and synthetic biology approaches relevant to the field of hydrocarbon and lipid microbiology. It complements a second Volume that describes protocols for systems and synthetic biology applications. The wet experimental tools presented in this Volume include protocols for the standardisation of transcriptional measurements, application of uracil excision-based DNA editing for, inter alia, multi-gene assembly, the use of fluxomics to optimise "reducing power availability", and the incorporation of non-canonical amino acids into proteins for optimisation of activities. Phenome-ing microbes, using a combination of RNA-seq and bioinformatic algorithms, is presented, as is an illustration, using methylotrophs as an example, of how the different key omics approaches constitute a pipeline for functional analysis, acquisition of a systems overview, and metabolic optimisation. Complementary computational tools that are presented include protocols for probing the genome architecture of regulatory networks, genome-scale metabolic reconstruction, and bioinformatic approaches to guide metabolic engineering. The Volume also includes an overview of how synthetic biology approaches can be used to improve biocontainment. 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.

Two of the recent books in the Methods in Molecular Biology series, Yeast Protocols and Pichia Protocols, have been narrowly focused on yeasts and, in the latter case, particular species of yeasts. Food Microbiology Pro- cols, of necessity, covers a very wide range of microorganisms. Our book treats four categories of microorganisms affecting foods: (1) Spoilage organisms; (2) pathogens; (3) microorganisms in fermented foods; and (4) microorganisms p- ducing metabolites that affect the flavor or nutritive value of foods. Detailed information is given on each of these categories. There are several chapters devoted to the microorganisms associated with fermented foods: these are of increasing importance in food microbiology, and include one bacteriophage that kills the lactic acid bacteria involved in the manufacture of different foods-cottage cheese, yogurt, sauerkraut, and many others. The other nine chapters give procedures for the maintenance of lactic acid bacteria, the isolation of plasmid and genomic DNA from species of Lac- bacillus, determination of the proteolytic activity of lactic acid bacteria, det- mination of bacteriocins, and other important topics.

This volume, written by a range of international experts, covers a wide range of topics involving organic fluorine compounds. Each chapter is preceded by a summary and includes extensive illustrations and references. The chapters cover atmospheric chemistry, application of 19F NMR, partition, degradation and transformation, naturally occurring organic fluorine compounds, toxicology of perfluoroalkanes and phosphorofluoridates, and application of aromatic compounds to the elucidation of the mechanism of cytochrome P450.

This Volume addresses the pros and cons of oligonucleotide probes, primers and primer combinations, and importantly considers how to design the best tools for the microbial taxa and/or processes being investigated. Individual chapters focus on the design of primers targeting genes that code for enzymes associated with the following functions: degradation of aromatic, aliphatic and chlorinated hydrocarbons under aerobic and anaerobic conditions, methanogenesis, methane oxidation, and the nitrogen cycle. Hydrocarbon and Lipid Microbiology Protocols There 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.

This volume provides insights into current research on fungal populations, communities and their interactions with other organisms. It focuses on fungal responses to the physical environment; interactions with bacteria, other fungi, invertebrates and plants; the role of fungi in ecosystem processes such as decomposition and nutrient cycling; and aspects of biogeography and conservation. Since the publication of the second edition of Volume IV in 2007, the massive use of "omics" methods has revolutionized our understanding of fungal lifestyles. Highlighting these advances, the third edition has been completely updated and revised. Several chapters deal with various applications of genomics and transcriptomics in biological pest control, as well as interactions with other living systems. This is an invaluable source of information both for scientists who wish to update their knowledge of current advances and for graduate students interested in obtaining a comprehensive introduction to this field of research.

Heavy metals always pose serious ecological risks when released into the environment due to their elemental non-degradable nature, regardless of their chemical form. This calls for the development of efficient and low-cost effluent treatment and metal recuperation technologies for contaminated waste water, not only because regulatory limits need to be met but also because the waste itself can be a resource for certain precious metals.

Biosorption is a general property of living and dead biomass to rapidly bind and abiotically concentrate inorganic or organic compounds from even very diluted aqueous solutions. As a specific term, biosorption is a method that utilizes materials of biological origin - biosorbents formulated from non-living biomass - for the removal of target substances from aqueous solutions. Recent research on biosorption provides a solid understanding of the mechanism underlying microbial biosorption of heavy metals and related elements.

This book gathers review articles analyzing current views on the mechanism and (bio)chemistry of biosorption, the performance of bacterial, fungal and algal biomass, and the practical aspects of biosorbent preparation and engineering. It also reviews the physico-chemical evaluations of biosorbents and modelling of the process as well as the importance of biosorption during heavy metal removal using living cells. It is a reference work for scientists, environmental safety engineers and R&D specialists who wish to further promote biosorption research and use the accumulated knowledge to develop and build industrial applications of biosorption in heavy metal separation technologies.

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Over the past 4 billion years, microorganisms have contributed to shaping the earth and making it more habitable for higher forms of life. They are remarkable in their metabolic diversity and their ability to harvest energy from oxidation and reduction reactions. Research on these microbiological processes has led to the newly evolving fields of geomicrobiology and biogeochemistry, linking the geosphere and the biosphere. This volume of the Soil Biology series provides an overview of the biogeochemical processes and the microorganisms involved, with an emphasis on the industrial applications. Topics treated include aspects such as bioremediation of contaminated environments, biomining, biotechnological applications of extremophiles, subsurface petroleum microbiology, enhanced oil recovery using microbes and their products, metal extraction from soil, soil elemental cycling and plant nutrition.

The aims of this book remain the same, that is, that it should be of in terest to all those people concerned with, or about, food hygiene in the broadest sense. There was clearly a need for a book of this sort and its success has necessitated a second edition. It will, I hope, answer criticisms that were justifiably made about certain omissions and shortcomings levelled at the earlier edition. The whole book has been thoroughly revised with the introduction of several new sections to various chapters. During the time that has elapsed since the earlier edition appeared there has been much publicity about newer forms of 'food poisoning'. Thus listeriosis is discussed in some detail whilst the problems of salmonellas in eggs and BSE are also considered. Interest in irradiated foods has waxed and waned but it is rightly included in the relevant chapter. There has been much progress in methodology with the advent of advanced molecular techniques such as gene probes and that of PCR; these are discussed briefly. I have included sections on HACCP which has come into great prominence in recent years thus answering a specific criticism made of the earlier edition. The chapter on water and waste disposal contains material on Legionnaires' disease and cryptosporidiosis, infections of much concern at the present time. Finally, the chapter on legislation has undergone a major revision with far greater emphasis being placed on EC food hygiene legislation."

An incisive and practical discussion of how to use plants as bioreactors In Plants as Bioreactors for Industrial Molecules, a team of distinguished researchers delivers an insightful and global perspective on the use of plants as bioreactors. In the book, you'll find coverage of the basic, applied, biosynthetic, and translational approaches to the exploitation of plant technology in the production of high-value biomolecules. The authors focus on the yield and quality of amino acids, vitamins, and carbohydrates. The authors explain how high-value biomolecules enable developers to create cost-effective biological systems for the production of biomolecules useful in a variety of sectors. They provide a holistic approach to plant-based biological devices to produce natural molecules of relevance to the health and agriculture industries. Readers will also find: A thorough overview of plants as bioreactors and discussions of molecular farming for the production of pharmaceutical proteins in plants Comprehensive explorations of plants as edible vaccines and plant cell culture for biopharmaceuticals Practical discussions of the production of attenuated viral particles as vaccines in plants and insecticidal protein production in transgenic plants Extensive treatment of the regulatory challenges involved in using plants as bioreactors Perfect for academics, scientists, and researchers in industrial microbiology and biotechnology, Plants as Bioreactors for Industrial Molecules will also earn a place in the libraries of biotechnology company professionals in applied product development.

Methane and its oxidation product, methanol, have occupied an important position in the chemical industry for many years: the former as a feedstock, the latter as a primary chemical from which many products are produced. More recently, the role played by methane as a potent "greenhouse" gas has aroused considerable attention from environmentalists and clima tologists alike. This role for C compounds has, of course, been quite 1 incidental to the myriad of microorganisms on this planet that have adapted their life-styles to take advantage of these readily available am bient sources. Methane, a renewable energy source that will always be with us, is actually a difficult molecule to activate; so any microorganism that can effect this may point the way to catalytic chemists looking for con trollable methane oxidation. Methanol, formed as a breakdown product of plant material, is also ubiquitous and has also encouraged the growth of prokaryotes and eukaryotes alike. In an attempt to give a balanced view of how microorganisms have been able to exploit these simple carbon sources, we have asked a number ofleading scientists (modesty forbids our own inclusion here) to contribute chapters on their specialist areas of the subject."

This Volume presents relevant single-cell and single-molecule approaches in the study of microbes producing and utilizing hydrocarbons and lipids. While generically applicable for all microorganisms, the approaches described are, wherever possible, adapted to the field of study of hydrocarbon and lipid microbiology. The methods include basic procedures for isolating single cells by means of microfluidics and flow cytometry, and their cultivation in arrays as pure clones; for isolating, amplifying and sequencing single-cell genomes and transcriptomes; and for analysing single-cell metabolomes by means of Raman spectroscopy. Single-molecule approaches include the use of protein:fluorescent dye fusions for protein localization and methods for the production of cell division protostructures and lipid monolayers. Methods for the functional analysis of single cells include detection of metabolically active (protein-synthesizing) cells in environmental samples by bioorthogonal non-canonical amino acid tagging, Raman spectroscopy combined with stable isotope labelling and fluorescent in situ hybridisation, and visualization of single cells participating in gene transfer activity. Lastly, protocols are presented for single-cell biotechnological applications, including biofuel production. 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.