This new edition provides a comprehensive look at the molecular genetics and biochemical basis of fungal biology, covering important model organisms such as Aspergilli while also integrating advances made with zygomycetes and basidiomycetes. This book groups a total of 15 chapters authored by expert scholars in their respective fields into four sections. Five chapters cover various aspects of gene expression regulation. These range from regulation in organismal interactions between parasitic fungi and their host plant, heavy metal stress and global control of natural product genes to conidiation and regulation through RNA interference. Two chapters are dedicated to signal transduction, highlighting MAP-kinase-dependent signaling and heterotrimeric G-proteins. Fungal carbohydrates are the subject of the third section, which addresses both polymeric cell wall carbohydrates and trehalose as an important, low molecular weight carbohydrate. The fourth section emphasizes the metabolism of major elements (carbon, nitrogen, sulfur) and critical cellular pathways for primary and secondary products.

This book is a compilation of the latest achievements of leading researchers in marine natural products with extremely diverse structures and biological activities. It presents discussions of isolation, structure elucidation, biosynthesis, total synthesis, and biochemical properties of the compounds with characteristic structures such as macrolides, cyclic depsipeptides, alkaloids, and water-soluble heterocyclic low-molecular-weight compounds, from sponges, bacteria, cyanobacteria, flagellates, and other such organisms. The book especially focuses on heterocyclic natural products as a title in the book series, Topics in Heterocyclic Chemistry.

Escherichia coli is a facultative anaerobic Gamma-proteobacterium, which belongs to the family Enterobacteriaceae. While being an important constituent of the normal gut microbiota, specialized E. coli clones have acquired genetic elements that allow them to compete with the endogenous commensals, colonise normally sterile niches and cause disease. E. coli pathotypes can cause intestinal and extra intestinal infections (e.g. UTI, sepsis) and associate with mammalian cells while being extra- or intra-cellular. In recent years, E. coli infections have become a serious clinical problem, due to the rapid spread of antibiotic resistance. Thus, infections with intestinal E. coli (e.g. E. coli O104) or extraintestinal pathogenic strains (e.g. E. coli ST131) are becoming difficult to treat and are often lethal. Consequently, there is a pressing need to develop alternative control measures, including the identification of new drug targets and development of vaccines that offer lasting protection. This volume focuses on several types of E. coli infections (intestinal and extraintestinal), virulence factors, and E. coli pandemics. It addresses the problem of antibiotic resistance, and a dedicated chapter discusses the need to develop alternative control measures. Given its depth and breadth of coverage, the book will benefit all those interested in the biology, genetics, physiology and pathogenesis of E. coli, and in related vaccine development.

The type I interferon (IFN) signaling pathway is well recognized as a pathway activated by viral infections. It is activated by a variety of microbial pattern recognition receptors including the Toll-like receptors, NOD-like receptors and several cytosolic receptors. Activation of the type I IFN pathway leads to the production of both antiviral factors and products that influence immune cell function. More recently it has been shown that bacteria are also capable of activating this pathway. Bacterial Activation of Type I Interferons reviews both the current understanding of how different bacterial species are able to activate this pathway as well as the influence type I IFNs have on the outcome to infection. Several different bacterial species are covered, spanning Gram positive and Gram negative, intracellular, extracellular, and different host infection sites. An introduction to the pathogenesis of each organism is provided, and the signaling molecules involved in the activation of the type I IFN pathway and the role it plays in animal infection models are also covered.

Since its discovery in 1998, RNA interference (RNAi) has heralded the advent of novel tools for biological research and drug discovery. This exciting new technology is emerging as a powerful modality for battling some of the most notoriously challenging viral clinical targets, such as the hepatitis C virus (HCV) and the human immunodeficiency virus (HIV). However, several critical issues associated with this novel technology must be resolved before it can progress to testing in human clinical trials, and these have been the target of intensive research in recent years. In this book, expert RNAi specialists from around the world have teamed up to produce a timely and thought-provoking review of the area. The two central themes are: 1) the latest findings on RNAi-virus interactions and 2) progress in the development of RNAi-based antiviral therapeutics. A number of chapters explain general concepts concerned with the role of RNAi in natural antiviral defense mechanisms. Other chapters discuss how to improve the efficacy and safety of RNAi-based antiviral drugs, as well as describe how this technology is being developed as a new therapeutic tool for fighting specific viruses, including HIV, HCV, and respiratory viruses. The book also outlines potential new avenues for research. RNA Interference and Viruses is essential reading for researchers involved in RNAi or antiviral research and is a recommended text for all virology laboratories.

This book addresses the basic understanding of food contaminants and their sources, followed by the techniques to measure food safety and quality. It is divided into four parts: Part A - sources of contaminants in foods, their associated health risks, and integrated management and alternative options to minimize contaminants; Part B - Technological assessment of conventional methods and selected advanced methods for the detection, identification and enumeration of microbial contaminates; Part C - Technological assessment of different chemical measurements techniques; and Part D - Technological assessment of different instrumental techniques to assess sensory properties of foods. Food safety is a growing concern due to the increase in food-borne illnesses caused by food adulteration, excessive use of pesticides, use of chemical preservatives and artificial fruit ripening agents, microbial contaminations, and improper food handling. Chemical contaminants in food could be transferred from environmental or agrochemical sources, personal care products, and other by-products of water disinfects. In addition, microbial food safety can be threatened due to the presence of many pathogens, such as Salmonella, Escherichia coli, Clostridium botulinum, Staphylococcus aureus, and Listeria monocytogenes in foods. Globally, strict regulations are imposed to limit the potential contaminants in foods. Development of accurate, rapid, and inexpensive approaches to test food contamination and adulteration would be highly valued to ensure global food safety. There are existing processes to ensure safety of food products from chemical and microbial contaminants. Apart from the existing measurement technologies, varieties of new techniques are also being emerged and these could be potential to ensure food safety and quality. In addition to chemical and microbial properties, sensory properties such as texture, mouth feel, flavor, and taste, are among the most important attributes of food products to ensure their acceptability by consumers. Two approaches are available to evaluate sensory properties of food products, namely subjective and objective analyses. The responses are perceived by all five senses: smell, taste, sight, touch, and hearing. The approach used in sensory evaluation varies depending on the types of foods and the ultimate goal of the testing. Sensory attributes are the most important quality parameters after ensuring the safety of foods.

This new edition captures the advances made in the field of evolutionary systems biology since the publication of the first edition. The first edition focused on laying the foundations of evolutionary systems biology as an interdisciplinary field, where a way of thinking and asking questions is combined with a wide variety of tools, both experimental and theoretical/computational. Since publication of the first edition, evolutionary systems biology is now a well-known term describing this growing field. The new edition provides an overview of the current status and future developments of this interdisciplinary field. Chapters highlight several key achievements from the last decade and outline exciting new developments, including an understanding of the interplay between complexity and predictability in evolutionary systems, new viewpoints and methods to study organisms in evolving populations at the level of the genome, gene regulatory network, and metabolic network, and better analysis and modeling techniques that will open new avenues of scientific inquiry.

Microorganisms play an important role in the maintenance of the ecosystem structure and function. Bacteria constitute the major part of the microorganisms and possess tremendous potential in many important applications from environmental clean up to the drug discovery. Much advancement has been taken place in the field of research on bacterial systems. This book summarizes the experimental setups required for applied microbiological studies. Important background information, representative results, step by step protocol in this book will be of great use to the students, early career researchers as well as the academicians. The book describes many experiments covering the basic microbiological experiments to the applications of microbial systems for advanced research. Researchers in any field who utilize bacterial systems will find this book very useful. In addition to microbiology and bacteriology, this book will also find useful in molecular biology, genetics, and pathology and the volume should prove to be a valuable laboratory resource in clinical and environmental microbiology, microbial genetics and agricultural research. Unique features * Easy to follow by the users as the experiments have been written in simple language and step-wise manner. * Role of each reagents to be used in each experiment have been described which will help the beginners to understand quickly and design their own experiment. * Each experiment has been equipped with the coloured illustrations for proper understanding of the concept. * Trouble-shootings at the end of each experiment will be helpful in overcoming the problems faced by the users. * Flow-chart of each experiment will quickly guide the users in performing the experiments.

Yeast Protocols, Third Edition presents up-to-date advances in research using yeasts as models. Chapters cover topics such as basic protocols in yeast culture and genomic manipulation, protocols that study certain organelles such as mitochondria and peroxisomes and their functions in autophagy and assays commonly used in yeast-based studies that can be adapted to other organisms. As the first sequenced living organism, budding yeast S. cerevisiae and other model yeasts have helped greatly in life science research. The easy switch between the haploid and diploid state makes yeast a paradigm of genetic manipulation. 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 Protocols, Third Edition seeks to serve both professionals and novices with newly-developed protocols to study this essential model organism.

The increasing worldwide demand for energy, combined with diminishing fossil fuel reserves and concerns about climate change, have stimulated intense research into the development of renewable energy sources, in particular, microbial biofuels. For a biofuel to be commercially viable, the production processes, yield, and titer have to be optimized, which can be achieved through the use of microbial cell factories. Using multidisciplinary research approaches, and through the application of diverse biotechnologies (such as enzyme engineering, metabolic engineering, systems biology, and synthetic biology), microbial cell factories have begun to yield some very encouraging data and microbial biofuels have a very promising future. In this book, a panel of international experts review the most important hot-topics in this area to provide a timely overview. The production of different biofuel molecules is comprehensively covered, including hydrogen, methane, ethanol, butanol, higher chain alcohols, isoprenoids, and fatty acid derivatives from genetically engineered microbes. To enhance biofuel production, special focus is given to the use of metabolic engineering of microbes, including bacteria, yeast, and microalgae. In addition, the book's contributors discuss the current research progress, technical challenges, and future development trends for biofuel production. Essential reading for research scientists, graduate students, and other specialists interested in microbial biofuels, the book is also recommended reading for environmental microbiologists, chemists, and engineers.

Retroviruses comprise a diverse family of enveloped RNA viruses, remarkable for their use of reverse transcription of viral RNA into linear double stranded DNA during replication and the subsequent integration of this DNA into the genome of the host cell. Members of this family include important pathogens such as HIV-1, feline leukemia, and several cancer-causing viruses. However, interest in these viruses extends beyond their disease-causing capabilities. For example, research in this area led to the discovery of oncogenes, a major advance in the field of cancer genetics. Studies of retroviruses have contributed greatly to our understanding of mechanisms that regulate eukaryotic gene expression. In addition, retroviruses are proving to be valuable research tools in molecular biology and have been used successfully in gene therapy (e.g. to treat X-linked severe combined immunodeficiency). Written by the top retroviral specialists, this book reviews the genomics, molecular biology, and pathogenesis of these important viruses, comprehensively covering all the recent advances. Topics include: host and retroelement interactions * endogenous retroviruses * retroviral proteins and genomes * viral entry and uncoating * reverse transcription and integration * transcription * splicing and RNA transport * pathogenesis of oncoviral infections * pathogenesis of immunodeficiency virus infections * retroviral restriction factors, molecular vaccines, and correlates of protection * gammaretroviral and lentiviral vectors * non-primate mammalian and fish retroviruses * simian exogenous retroviruses * and HTLV and HIV. It is essential reading for every retrovirologist and it is a recommended text for all virology and molecular biology laboratories.

This volume is designed to be a resource of proven techniques and approaches for probing the activities of bacterial, eukaryotic, and archaeal RNA polymerases. This book features a collection of in vitro and in vivo technologies that will permit researchers to purify and probe the position and stability of RNA polymerase complexes at different points of the transcription cycle, analyze the various translocations and intermolecular movements associated with catalysis, define recruitment strategies, probe the roles of transcription factors in each stage of the cycle, highlight conserved and disparate fidelity mechanisms, analyze the resultant transcripts, and study coordination of the nascent mRNA synthesis by the RNA polymerase and mRNA translation by the ribosome. Written in the highly successful Methods of 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 troubles troubleshooting and avoiding known pitfalls. Practical and timely, Bacterial Transcriptional Controls: Methods and Protocols highlights the breadth and depth of techniques that are likely to continue shaping the transcription community in the future.

This Volume presents methods for quantifying microbial populations and characterising microbial communities by extracting and analysing biomarkers such as RNA, DNA and lipids. The chapters cover a wide range of topics, including: cell separation from oil-rich environments, enumeration of hydrocarbon degraders and sulphate reducers using most-probable-number techniques, and quantification by means of real-time PCR. A variety of molecular methods are described for microbial community profiling, such as phospholipid fatty acid analysis, DGGE, T-RFLP and SSCP. One chapter examines high-throughput sequencing, and provides important information on the associated procedures required for thorough data analysis. A further chapter is devoted to the characterisation of protistan communities, while the closing chapter describes multiplex fluorescent antibody microarrays for detecting microbial biomarkers. 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 book provides comprehensive coverage of the scientific aspects of cheese, emphasizing fundamental principles. The book's updated 22 chapters cover the chemistry and microbiology of milk for cheesemaking, starter cultures, coagulation of milk by enzymes or by acidification, the microbiology and biochemistry of cheese ripening, the flavor and rheology of cheese, processed cheese, cheese as a food ingredient, public health and nutritional aspects of cheese, and various methods used for the analysis of cheese. The book contains copious references to other texts and review articles.

This book provides an overview of the latest advances concerning symbiotic relationships between plants and microbes, and their applications in plant productivity and agricultural sustainability. Symbiosis is a living phenomenon including dynamic variations in the genome, metabolism and signaling network, and adopting a multidirectional perspective on their interactions is required when studying symbiotic organisms. Although various plant-microbe symbiotic systems are covered in this book, it especially focuses on arbuscular mycorrhiza (AM) symbiosis and root nodule symbiosis, the two most prevalent systems. AM symbiosis involves the most extensive interaction between plants and microbes, in the context of phylogeny and ecology. As more than 90% of all known species of plants have the potential to form mycorrhizal associations, the productivity and species composition, as well as the diversity of natural ecosystems, are frequently dependent upon the presence and activity of mycorrhizas. In turn, root nodule symbiosis includes morphogenesis and is formed by communication between plants and nitrogen-fixing bacteria. The biotechnological application of plant-microbe symbiosis is expected to foster the production of agricultural and horticultural products while maintaining ecologically and economically sustainable production systems. Designed as a hands-on guide, this book offers an essential resource for researchers and students in the areas of agri-biotechnology, soil biology and fungal biology.

Metagenomics is a rapidly growing field of research that has had a dramatic effect on the way we view and study the microbial world. By permitting the direct investigation of bacteria, viruses, and fungi, irrespective of their culturability and taxonomic identities, metagenomics has changed microbiological theory and methods and has also challenged the classical concept of species. This new field of biology has proven to be rich and comprehensive and is making important contributions in many areas including ecology, biodiversity, bioremediation, bioprospection of natural products, and medicine. This book addresses, in a coherent manner, the diverse and multiple aspects of metagenomics and the multiplicity of its potential applications. Renowned authors from around the world have contributed chapters covering the new theoretical insights, the more recent applications, and the dynamically developing methods of data acquisition and analysis. Topics include: conceptual frameworks * tools and methods * integration of complementary approaches * horizontal gene transfer * analysis of complex microbial communities * public data resources * plant-microbe interactions * bioremediation * industrial bioproducts * archaeal metagenomics * bioprospecting novel genes * the human microbiome * and philosophical themes in metagenomics. The book is essential reading for all researchers currently performing metagenomics studies and it is highly recommended for all students and scientists wishing to increase their understanding of this field.

During the past three decades there has been a large amount of research on biological nitrogen fixation, in part stimulated by increasing world prices of nitrogen-containing fertilizers and environmental concerns. In the last several years, research on plant-microbe interactions, and symbiotic and asymbiotic nitrogen fixation has become truly interdisciplinary in nature, stimulated to some degree by the use of modern genetic techniques. These methodologies have allowed us to make detailed analyses of plant and bacterial genes involved in symbiotic processes and to follow the growth and persistence of the root-nodule bacteria and free-living nitrogen-fixing bacteria in soils. Through the efforts of a large number of researchers we now have a better understanding of the ecology of rhizobia, environmental parameters affecting the infection and nodulation process, the nature of specificity, the biochemistry of host plants and microsymbionts, and chemical signalling between symbiotic partners. This volume gives a summary of current research efforts and knowledge in the field of biological nitrogen fixation. Since the research field is diverse in nature, this book presents a collection of papers in the major research areas of physiology and metabolism, genetics, evolution, taxonomy, ecology, and international programmes.

Given the at times confusing new information concerning the human microbiome released over the last few years, this book seeks to put the research field into perspective for non-specialists. Addressing a timely topic, it breaks down recent research developments in a way that everyone with a scientific background can understand. The book discusses why microorganisms are vital to our lives and how our nutrition influences the interaction with our own gut bacteria. In turn, it goes into more detail on how microbial communities are organised and why they are able to survive in the unique environment of our intestines. Readers will also learn about how their personal microbial profile is as unique as their fingerprint, and how it can be affected by a healthy or unhealthy lifestyle. Thanks to the open and easy-to-follow language used, the book offers an overview for all readers with a basic understanding of biology, and sheds new light on this fascinating and important part of our bodies.

Baculovirus Expression Systems and Biopesticides Edited by Michael L. Shuler, H. Alan Wood, Robert R. Granados, and Daniel A. Hammer Baculovirus Expression Systems and Biopesticides provides an integrated perspective on the use of the continually evolving baculovirus-insect cell system in the production of recombinant proteins and genetically engineered pesticides. Divided into three main sections--Developing Effective Virus-Insect Culture Systems, Bioreactor Design and Scale-Up Issues, and Commercial Application of Insect Cell Culture--the book, written by highly regarded editors in the field, describes:
* The molecular biology and genetics of baculoviruses
* The use of baculoviruses as expression systems
* Principles and methods for small- and large-scale insect cultures
* The use of wild type and genetically engineered baculoviruses as viral pesticides
The breadth of coverage in Baculovirus Expression Systems and Biopesticides will meet the needs of molecular biologists, chemical engineers, biotechnologists, virologists, and entomologists.

This book focuses on the use of microorganisms in relation to agriculture, aquaculture and related fields, ranging from biofertilizers to poultry production. The latest innovations are also included to provide insights into the unlimited potentials of microorganisms in these areas.Individual chapters explore topics such as probiotics in poultry, biopurification of wastewater, converting agrowastes into value-added applications and products, rice cultivation, surfactants and bacteriocin as biopreservatives, bioplastics, crop productivity, biofloc, and the production of natural antibiotics. This volume will be of particular interest to scientists, policymakers and industrial practitioners working in the fields of agriculture, aquaculture and public health.

This volume presents a list of cutting-edge protocols for the study of CRISPR-Cas defense systems and their applications at the genomic, genetic, biochemical and structural levels. CRISPR: Methods and Protocols guides readers through techniques that have been developed specifically for the analysis of CRISPR-Cas and techniques adapted from standard protocols of DNA, RNA and protein biology. 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, CRISPR: Methods and Protocols provides a broad list of tools and techniques to study the interdisciplinary aspects of the prokaryotic CRISPR-Cas defense systems.

Examines each of these parameters in crucial depth and makes the argument that life forms we would recognize may be more common in our solar system than many assume. Considers exotic forms of life that would not have to rely on carbon as the basic chemical element, solar energy as the main energy source, or water as the primary solvent and the question of detecting bio- and geosignatures of such life forms, ranging from earth environments to deep space. Seeks an operational definition of life and investigate the realm of possibilities that nature offers to realize this very special state of matter. Avoids scientific jargon wherever possible to make this intrinsically interdisciplinary subject understandable to a broad range of readers.

This book sheds new light on how microbes can be used as effective and sustainable resources to produce green energy in the form of biogas, algal diesel, ethanol, hydrogen and direct electricity. It discusses topics such as microbial energy conversion technologies, including ethanol production by microbial catalytic reaction, biomethanization, biodiesel from microalgae, microbial fuel cells, and the microbiological production of hydrogen. The book will inspire scientists to find new approaches to meet local energy demands with the help of sustainable microbial resources available in and around a given location.

This volume describes the more relevant secondary metabolites of different fungi with current information on their biosynthesis and molecular genetics. Bolstered with color illustrations and photographs, the book describes the possible application of molecular genetics to directed strain improvement in great detail. The needs for future developments in this field are also discussed at length

Written by authorities in the field, "Biosynthesis and Molecular Genetics of Fungal Secondary Metabolites" provides a cutting-edge perspective on fungal secondary metabolism and underlying genetics and is a valuable resource for scientists, researchers, and educators in the field of fungal biology.

This volume reviews various facets of Agrobacterium biology, from modern aspects of taxonomy and bacterial ecology to pathogenesis, bacterial cell biology, plant and fungal transformation, natural transgenics, and biotechnology. Agrobacterium-mediated transformation is the most extensively utilized platform for generating transgenic plants, but modern biotechnology applications derive from more than 40 years of intensive basic scientific research. Many of the biological principles established by this research have served as models for other bacteria, including human and animal pathogens. Written by leading experts and highlighting recent advances, this volume serves both as an introduction to Agrobacterium biology for students as well as a more comprehensive text for research scientists.