In the last quarter century, advances in mass spectrometry (MS) have been at the forefront of efforts to map complex biological systems including the human metabolome, proteome, and microbiome. All of these developments have allowed MS to become a well-established molecular level technology for microorganism characterization. MS has demonstrated its considerable advantage as a rapid, accurate, and cost-effective method for microorganism identification, compared to conventional phenotypic techniques. In the last several years, applications of MS for microorganism characterization in research, clinical microbiology, counter-bioterrorism, food safety, and environmental monitoring have been documented in thousands of publications. Regulatory bodies in Europe, the US, and elsewhere have approved MS-based assays for infectious disease diagnostics. As of mid-2015, more than 3300 commercial MS systems for microorganism identification have been deployed worldwide in hospitals and clinical labs. While previous work has covered broader approaches in using MS to characterize microorganisms at the species level or above, this book focuses on strain-level and subtyping applications. In twelve individual chapters, innovators, leaders and practitioners in the field from around the world have contributed to a comprehensive overview of current and next-generation approaches for MS-based microbial characterization at the subspecies and strain levels. Chapters include up-to-date reference lists as well as web-links to databases, recommended software, and other useful tools. The emergence of new, antibiotic-resistant strains of human or animal pathogens is of extraordinary concern not only to the scientific and medical communities, but to the general public as well. Developments of novel MS-based assays for rapid identification of strains of antibiotic-resistant microorganisms are reviewed in the book as well. Microbiologists, bioanalytical scientists, infectious disease specialists, clinical laboratory and public health practitioners as well as researchers in universities, hospitals, government labs, and the pharmaceutical and biotechnology industries will find this book to be a timely and valuable resource.

This book describes various aspects of modern microbiology including microbial enzymes, secondary metabolites, next-generation sequencing, microbial-based biopesticides, microbial-based cancer therapies, biodiesel, and microbial products from fermentation, biodegradation, bioremediation and wastewater treatment. Further, it explains how and why microbes play an important role in preserving the welfare of living beings and the environment. Many bacteria play a significant part in cleaning our environment by detoxifying various xenobiotic compounds, while several microbes produce secondary metabolites that are useful to human beings. The book is divided into 15 chapters that cover various aspects of microorganism-based biotechnology, including recent methodologies such as advanced molecular techniques, as well developments in classical microbiological techniques. The authors also explain how the latest and classical techniques are being used in modern-day microbial biotechnology. All chapters were written by experts from prominent universities, research laboratories, and institutes around the globe. Above all, they focus on recent advances in microbial technology that promote the welfare of living beings and the environment.

Written by specialists in the different fields, this book presents new perspectives and insights into strategies and weapons to fight microbial infections. It also reviews the "state of the art" of alternative treatment approaches and new therapeutic agents to deal with infections caused by multidrug-resistant microorganisms. In an era of accumulated resistance to current antibiotics, it is vital that this is undertaken without further delay. Aspects discussed include the control of RNA synthesis, the use of bacteriocins or enzybiotics (bacteriophages or purified lysins), the specific control of pathogenic clostridia, the design of new drugs affecting DNA synthesis in bacteria, the use of fecal-matter transplant strategies, the specific control of quorum sensing responses in bacteria, the use of new peptides as antibiotics and new ways to control bacteria that cause cancer, such as Helicobacter pylori cancers.

Parasites threaten the health of animals and humans alike. Especially in times of increasing globalization and global warming, parasites can enlarge their "kingdom" by spreading. At the same time many of the existing medical products have become ineffective. As these products have been used for many decades, parasites have developed resistances, so that they have progressed in their fight for survival. Therefore it is obvious that humans must develop new methods to face these dangers. Thus parasitological knowledge increases daily and must be formulated to be accessible for as many parasitologists (veterinarians, physicians, biologists) as possible. Therefore it is necessary that reviews reflecting the present status of the progress in many fields of research be published. Therefore this book, published on the occasion of the 50th anniversary of the German Society of Parasitology, compiles 18 reviews on recent "hot topics," including a new vaccine against malarial parasites; severe diseases with poor chances of treatment (cryptosporidiosis, coccidiosis, theileriosis); vectors (mosquitoes, ticks) and their transmission activities; and fish parasites, including molecular insights into the sex of parasites with a focus on the survival abilities that made them so dangerous. These chapters provide detailed information for researchers, as well as for teachers and students in parasitology.

Due to various special physiological features and a genome that greatly differs in structure, gene content and organization from other yeasts, Y. lipolytica is widely used as a host system. With its characteristics, such as the ability to grow on lipids or grease, to accumulate oil and the high capacity for secretion of proteases and lipases, the yeast is of great interest for biotechnological applications. The main topics covered in this Microbiology Monograph are: expression and secretion of heterologous proteins; acid and alkaline extracellular proteases; genetics, production, biochemical characterization and biotechnological application of lipases; production and secretion of several organic acids and flagrances; as well as the functional expression of P450 systems and its use in steroid biotransformation.

This volume covers microbiological, clinical and patophysiological aspects of sepsis and also provides general overview chapters with every chapter discussing the real clinical impact of the discussed diagnostic approaches. Sepsis is a major clinical problem that takes an inordinate toll on human lives and economical resources. It is widely recognized that inappropriate treatment is associated with a dramatic increase in mortality, especially within the first hours, therefore clinical and microbiological diagnosis are of pivotal importance in the management of septic patients. 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, Sepsis: Diagnostic Methods and Protocols seeks to serve both professionals and novices with its well-honed methodologies in an effort to further our knowledge of this life-threatening illness.

Topics in Ecological and Environmental Microbiology provides an overview of ecological aspects of the metabolism and behavior of microbes, microbial habitats, biogeochemical cycles, and biotechnology. This essential reference was designed by selecting relevant chapters from the authoritative and comprehensive Encyclopedia of Microbiology," " 3rd edn., and inviting the original authors to update their material to include key developments and advances in the field. This concise and affordable book is an essential reference for students and researchers in microbiology, mycology, immunology, environmental sciences, and biotechnology.
Written by recognized authorities in the fieldIncludes topics such as air quality, marine habitats, food webs, and microbial adhesionProvides a thematic mix of both classic and cutting -edge reviews, with suggested further reading in each chapter

An updated edition of the classic "Methods in Cell Biology" volume 48, this book emphasizes diverse methods and technologies needed to investigate "C. elegans," both as an integrated organism and as a model system for research inquiries in cell, developmental, and molecular biology, as well as in genetics and pharmacology. By directing its audience to tried-and-true and cutting-edge recipes for research, this comprehensive collection is intended to guide investigators of "C. elegans" for years to come.

*Diverse, up-to-date techniques covered will be useful to the broadening community of "C. elegans" researchers for years to come * Chapters written by leaders in the field * Tried and true methods deliver busy researchers a one-stop compendium of essential protocols

"Taxonomy of Prokaryotes," edited by two leading experts in the field, presents the most appropriate up-to-date experimental approaches in the detail required for modern microbiological research. Focusing on the methods most useful for the microbiologist interested in this specialty, this volume will be essential reading for all researchers working in microbiology, immunology, virology, mycology and parasitology. Methods in Microbiology is the most prestigious series devoted to techniques and methodology in the field. Established for over 30 years, Methods in Microbiology will continue to provide you with tried and tested, cutting-edge protocols to directly benefit your research.

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. The impact factor for 2009 is 5.522, placing it 2nd in the highly competitive category of virology.

* Contributions from leading authorities * Informs and updates on all the latest developments in the field

This volume reviews the current metabolic engineering tools and technologies from a practical point of view, and guides researchers as they overcome challenges at various stages of organism and bioprocess development. Microbes have been engineered to produce a variety of industrial products such as fuels, basic chemicals, fine chemicals, nutritional supplements, and pharmaceutical intermediates, and new tools such as gene synthesis, advanced cloning techniques, 'omics' analysis, and mathematical modeling have greatly accelerated the pace of innovation in the field. Written by leading experts in the field from both academia and industry, key topics include synthetic biology, pathway engineering, metabolic flux manipulation, adaptive evolution, and fermentation process scale-up. It is suitable for non-specialists, and is a valuable resource for anyone embarking on the exciting path to harnessing the metabolic potential of microorganisms.

Parasitoids are parasitic insects that kill their insect hosts in immature pre-reproductive stages. Parasitoids are employed in biological control programs worldwide to kill insect pests and are environmentally safe and benign alternatives to chemical pesticides. As resistance to chemical pesticides continues to escalate in many pest populations, attention is now refocusing on biologically-based strategies to control pest species in agriculture and forestry as well as insect vector populations that transmit human and animal diseases. Parasitoids are an economically critical element in this equation and integrated pest management.

Viruses have evolved intimate associations with parasitoids, and this book features sections on both symbiotic viruses that are integrated into the wasp s chromosomal DNA (polydnaviruses) that play critical roles in suppressing host immunity during parasitism. A separate section with additional chapters on viral pathogens that infect parasitoids to cause disease and act as detrimental agents that limit effectiveness of wasp species employed in biological control of pests is also featured. A third component is a section on parasitoid venoms, which are of interest to the pharmaceutical and medical communities as well as insect-oriented biologists.
Sections focus on both virus evolution and genomics as well as proteomics and functional roles of polydnavirus-encoded gene productsInternational researchers and emerging leaders in their fields provide readers with syntheses of the latest researchIncludes content on both symbiotic viruses and pathogenic viruses, plus new research on parasitoid venomsCutting-edge section on future directions in the field covers the impacts of polydnavirus research on medicine, human health, bioengineering and the economy, increasing the value for researchers and practitioners who need to stay on top of the research in this swiftly moving field"

Flagella-dependent motility is widespread throughout prokaryotes and is advantageous when nutrients are limited as a mechanism to migrate to more favorable environments and to compete with other micro-organisms. Flagella systems can also play an important role in additional processes, such as adhesion to substrates, biofilm formation, and host invasion in pathogenic bacteria. A variety of different classes of pili are found in prokaryotes and these structures also possess a diverse array of functions. Pili are essential for host colonization, virulence, and pathogenesis for many bacteria and, in the case of type IV pili, can also be employed for motility across solid surfaces. This book brings together some of the top scientists in the field and describes the current knowledge and latest research on prokaryotic pili and flagella. The emphasis is on the molecular biology, genetics, structure, assembly, and function of these structures. Topics include: biogenesis, structure, and function of various pili in Gram-negative and Gram-positive organisms * flagellar gene expression, structure, and assembly * the flagella motor * posttranslational modifications of flagella systems * lateral flagella systems * the origin and evolution of flagella * applications of flagella as a surface display and expression system * the flagella and pili of Archaea.

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. The impact factor for 2009 is 5.522placing it2nd in the highly competitive category of virology.

* Contributions from leading authorities * Informs and updates on all the latest developments in the field "

Commercially, D-xylitol is produced by chemical reactions that are tailored to the requirements of various sectors. However, due to the rising interest in sustainable development and ecologically benign practices, microbial transformation processes are generally preferred over the conventional chemical conversion process. The former have multiple advantages, including less chemical load on the environment, higher efficiency, and the ability to dilute multiple downstream transformation attempts while maintaining product yield and recovery.

This book aims to disseminate the most current advances in the biotechnological production of D-xylitol and its applications in medical and health care. It is a unique collection of 15 book chapters split into 5 sections and written by experts in their respective fields, who present critical insights into several topics, review current research, and discuss future progress in this area. This book also provides essential information on hemicellulose hydrolysis to recover D-xylose, detoxification of hemicellulose hydrolysates, and improved fermentation methods for increased D-xylitol production. The highlights of strain improvement to increase the D-xylitol titers and downstream recovery of D-xylitol are also discussed in several sections. The current applications of D-xylitol in medical and health care have been used to justify the cost incurred for setting up the demonstration plant for D-xylitol production in the market. Apart from researchers and post-graduate students in the field of microbial biotechnology, this book will assist those in the business community who deal with the economic analysis of bio-based products and their marketing.

This book provides a comprehensive description of theories and applications of high-solid and multi-phase bioprocess engineering, which is considered as an important way to address the challenges of "high energy consumption, high pollution and high emissions" in bio-industry. It starts from specifying the solid-phase matrix properties that contribute to a series of "solid effects" on bioprocess, including mass transfer restrictions in porous media, water binding effects, rheological changes. Then it proposes the new principles of periodic intensification which combines the normal force and physiologic characteristics of microorganism for the bioprocess optimization and scale-up. Further breakthroughs in key periodic intensification techniques such as periodic peristalsis and gas pressure pulsation are described in detail which provide an industrialization platform and lay the foundation for high-solid and multi-phase bioprocess engineering. This book offers an excellent reference and guide for scientists and engineers engaged in the research on both the theoretical and practical aspects of high-solid and multi-phase bioprocess.

Yeasts are a versatile group of eukaryotic microorganisms, exhibiting heterogeneous nutritional profiles and an extraordinary ability to survive in a wide range of natural and man-associated ecosystems, including cold habitats. Cold-adapted yeasts inhabit numerous low-temperature environments where they are subjected to seasonal or permanent cold conditions. Hence, they have evolved a number of adaptation strategies with regard to growth and reproduction, metabolic activities, survival and protection. Due to their distinctive ability to thrive successfully at low and even subzero temperatures, cold-adapted yeasts are increasingly attracting attention in basic science and industry for their enormous biotechnological potential.

This book presents our current understanding of the diversity and ecology of cold-adapted yeasts in worldwide cold ecosystems, their adaptation strategies, and their biotechnological significance. Special emphasis is placed on the exploitation of cold-adapted yeasts as a source of cold-active enzymes and biopolymers, as well as their benefits for food microbiology, bioremediation and biocontrol. Further, aspects of food biodeterioration are considered.

This book provides information about microbial mats, from early fossils to modern mats located in marine and terrestrial environments. Microbial mats layered biofilms containing different types of cells are most complex systems in which representatives of various groups of organisms are found together. Among them are cyanobacteria and eukaryotic phototrophs, aerobic heterotrophic and chemoautotrophic bacteria, protozoa, anoxygenic photosynthetic bacteria, and other types of microorganisms.

These mats are perfect models for biogeochemical processes, such as the cycles of chemical elements, in which a variety of microorganisms cooperate and interact in complex ways. They are often found under extreme conditions and their study contributes to our understanding of extremophilic life. Moreover, microbial mats are models for Precambrian stromatolites; the study of modern microbial mats may provide information on the processes that may have occurred on Earth when prokaryotic life began to spread."

Cytometry is one of the most rapidly growing methodologies available for basic cell and molecular biology, cytogenetics, immunology, oncology, environmental sciences and also various fields of clinical medicine. Thisnew edition, split into 2 Parts, is an almost completely new book, with nearly all of the chapters devoted to new topics. Like the previous volumes on cytometry published as part of the Methods in Cell Biology series, it provides a comprehensive description of particular cytometric methods and reviews their applications. Chapters present the theoretical foundations of the described methods, their applicability in experimental laboratory and clinical settings, and describes common traps and pitfalls such as problems with data interpretation, comparison with alternative assays, and choosing the optimal assay.
* Comprehensive presentation of cytometric methods covering theoretical applications, applicability, potential pitfalls, and comparisions to alternative assays
* Discusses many new assays developed since the previous edition
* Presents recent developments in cytometric intrumentation/technology"

This book provides excellent techniques for detecting and evaluating biofilms: sticky films on materials that are formed by bacterial activity and produce a range of industrial and medical problems such as corrosion, sanitary problems, and infections. Accordingly, it is essential to control biofilms and to establish appropriate countermeasures, from both industrial and medical viewpoints. This book offers valuable, detailed information on these countermeasures. It also discusses the fundamentals of biofilms, relates various substrates to biofilms, and presents a variety of biofilm reactors. However, the most important feature of this book (unlike others on the market) is its clear focus on addressing the practical aspects from an engineering viewpoint. Therefore, it offers an excellent practical guide for engineers and researchers in various fields, and can also be used as a great academic textbook.

This book provides a detailed description and analysis of the reduction and metabolism of metals and metalloids by sulfate reducing bacteria. The molecular mechanisms of bacterial resistance to copper are examined as well as extracellular electron transfer and bacterial metal oxide respiration. Furthermore, in this book enrichment, isolation, and physiology of magnetotactic bacteria are discussed. The interactions of bacteria with metals in natural environments and their role in metal cycling have been studied for decades. Advances in studies of bacteria-metal interactions identified numerous important aspects of these interactions, such as bioremediation of metal-contaminated environments, the role of metals in redox reactions and other cellular functions, as well as the role of metals in toxicity and infection. Microbiologists, environmental scientists, and students interested in microbe interactions with metals and their effect on the environment and their application in biotechnology will be interested in the topics discussed in the book.

Reflecting the development of powerful new tools and high-throughput methods to analyze adenoviral particles and their interactions with host cells, the third edition of Adenovirus Methods and Protocols calls upon experts in the field to convey advances in molecular biology, genomics and proteomics, imaging, and bioinformatics. Beginning with cryo-electron microscopy, atomic force microscopy, and mass spectrometry for a high resolution image and characterization of the virion, this detailed book then continues with capsid modifications and viral-like particles as promising alternatives to classical adenovirus vectors, and the study of adenovirus in host interactions in vitro at the cellular level as well as in vivo in animal models. Finally, the volume concludes with an extensive update of the most efficient protocols to generate, amplify, and/or purify, at small and large scale, standard human Ad5 as well as non-human, chimeric, and helper-dependent adenovirus vectors. Written in the greatly 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. Comprehensive and cutting-edge, Adenovirus Methods and Protocols, Third Edition serves as an ideal guide for scientists continuing to research this highly valuable viral tool.

This book is devoted to alkaliphiles, their microbiology, biotechnological applications and adaptive mechanisms. Alkaliphiles are extremophilic organisms that are adapted to thrive in alkaline environments. Over the years, a wide variety of alkaliphiles belonging to domain Bacteria, Archaea and Eukarya have been isolated and studied. These organisms use various adaptive mechanisms to thrive in 'extreme' alkaline environments, and some of these adaptive mechanisms are of immense importance to a range of biotechnological applications. In this book, readers will learn about the adaptive strategies of alkaliphiles in colonizing alkaline habitats, with a main focus on: (1) the production of enzymes that are active and stable in the high pH environment, and (2) the production of acids that decrease the pH of their immediate surrounding environment. Enzymes that are operationally stable at high pH (also known as alkaline active enzymes) are desirable in several applications such as detergent formulating and leather tanning processes, and they are among the major selling enzymes and the most important industrial enzymes. The growing demand in many existing and emerging biotechnological applications led to the discovery, characterization, engineering and evaluation of diverse types of alkaline active enzymes. In addition to the use of these fascinating enzymes in biotechnological applications, readers will discover the mechanisms of action and stability of these enzymes at extreme pH. Studies have shown that some alkaliphiles decrease the severity of the high pH of their media by producing substantial amount of organic acids, which could be of great interest in various applications presented in this book. In addition to enzymes and organic acids, other products of biotechnological importance such as carotenoids, bioactive substances, and chelators have also attracted researchers' attention. Whole-cells of alkaliphiles have been used as food and feed, and are also useful in environmental applications such as in waste treatment and construction.

This volume illustrates the complex root system, including the various essential roles of roots as well as their interaction with diverse microorganisms localized in or near the root system.

Following initial chapters describing the anatomy and architecture as well as the growth and development of root systems, subsequent chapters focus on the various types of root symbiosis with bacteria and fungi in the rhizosphere. A third section covers the physiological strategies of roots, such as nitrate assimilation, aquaporins, the role of roots in plant defense responses and in response to droughts and salinity changes. The book s final chapters discuss the prospects of applied engineering of roots, i.e., inventing new root structures or functions through genetic modification, but also with conventional breeding and manipulation of root symbionts. The budding field of root engineering is expected to promote a second green revolution."

In the pursuit of technological advancement in the field of biotechnology and pharmaceutical industries to counteract health issues, bacterial infections remain a major cause of morbidity and mortality. The ability of bacterial pathogens to form biofilms further agglomerates the situation by showing resistance to conventional antibiotics. To overcome this serious issue, bioactive metabolites and other natural products were exploited to combat bacterial infections and biofilm-related health consequences. Natural products exhibited promising results in vitro, however; their efficacy in in vivo conditions remain obscured due to their low-solubility, bioavailability, and biocompatibility issues. In this scenario, nanotechnological interventions provide a multifaceted platform for targeted delivery of bioactive compounds by slow and sustained release of drug-like compounds. The unique physico-chemical properties, biocompatibility and eco-friendly nature of bioinspired nanostructures has revolutionized the field of biology to eradicate microbial infections and biofilm-related complications. The green-nanotechnology based metal and metal oxide nanoparticles and polymeric nanoparticles have been regularly employed for antimicrobial and antibiofilm applications without causing damage to host tissues. The implications of these nanoparticles toward achieving sustainability in agriculture by providing systemic resistance against a variety of phytopathogens therefore plays crucial role in growth and crop productivity. Also the advent of smart and hybrid nanomaterials such as metal-based polymer nanocomposites, lipid-based nanomaterials and liposomes have the inherent potential to eradicate bacterial biofilm-related infections in an efficient manner. The recent development of carbon-based nanomaterials such as carbon nanotubes (CNTs) and silica based nanomaterials such as mesoporous silica nanoparticles (MSNs) also exploit a target of dreadful healthcare conditions such as cancer, immunomodulatory diseases, and microbial infections, as well as biofilm-related issues owing to their stability profile, biocompatibility, and unique physio-chemical properties. Recently novel physical approaches such as photothermal therapy (PTT) and antimicrobial photodynamic therapy (aPDT) also revolutionized conventional strategies and are engaged in eradicating microbial biofilm-related infections and related health consequences. These promising advancements in the development of novel strategies to treat microbial infections and biofilm-related multidrug resistance (MDR) phenomenon may provide new avenues and aid to conventional antimicrobial therapeutics.