Download or read book Bacterial Molecular Networks written by Jacques van Helden and published by Humana Press. This book was released on 2011-12-08 with total page 546 pages. Available in PDF, EPUB and Kindle. Book excerpt: Network-based representations have become pervasive in most fields in biology. Bacterial Molecular Networks: Methods and Protocols provides authoritative descriptions of various experimental and computational methods enabling the characterization and analysis of molecular interaction networks, with a focus on bacteria. Divided into three convenient sections, this volume provides extensive coverage of various experimental and in silico approaches aiming at the characterization of network components, addresses the presentation of computational approaches to analyze the topology of molecular networks, and further introduces a variety of methods and tools enabling scientists to generate qualitative or quantitative dynamical models of molecular processes in bacteria. Written in the highly successful Methods in Molecular BiologyTM 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 accessible, Bacterial Molecular Networks: Methods and Protocols is intended primarily for post-graduate students and researchers working in the field of experimental and computational microbiology and provides a combination of up-to-date reviews along with detailed protocols written by the developers of bioinformatics resources, such as databases and software tools.
Download or read book COMPUTATIONAL ANALYSIS AND SIMULATION OF BACTERIAL MOLECULAR NETWORKS written by and published by . This book was released on 2009 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt: The project examined a number of aspects of complex bacterial networks, their architecture, topology, dynamics and design principles.
Download or read book Modern Microbial Genetics written by Uldis N. Streips and published by John Wiley & Sons. This book was released on 2004-03-24 with total page 673 pages. Available in PDF, EPUB and Kindle. Book excerpt: In accordance with its predecessor, the completely revised and expanded Second Edition of Modern Microbial Genetics focuses on how bacteria and bacteriophage arrange and rearrange their genetic material through mutation, evolution, and genetic exchange to take optimal advantage of their environment. The text is divided into three sections: DNA Metabolism, Genetic Response, and Genetic Exchange. The first addresses how DNA replicates, repairs itself, and recombines, as well as how it may be manipulated. The second section is devoted to how microorganisms interact with their environment, including chapters on sporulation and stress shock, and the final section contains the latest information on classic exchange mechanisms such as transformation and conjugation. Chapters include: * Gene Expression and Its Regulation * Single-Stranded DNA Phages * Genetic Tools for Dissecting Motility and Development of Myxococcus xanthus * Molecular Mechanism of Quorum Sensing * Transduction in Gram-Negative Bacteria * Genetic Approaches in Bacteria with No Natural Genetic Systems The editors also cultivate an attention to global regulatory systems throughout the book, elucidating how certain genes and operons in bacteria, defined as regulons, network and cooperate to suit the needs of the bacterial cell. With clear appreciation for the impact of molecular genomics, this completely revised and updated edition proves that Modern Microbial Genetics remains the benchmark text in its field.
Download or read book Molecular Biology of the Cell written by and published by . This book was released on 2002 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Snyder and Champness Molecular Genetics of Bacteria written by Tina M. Henkin and published by John Wiley & Sons. This book was released on 2020-10-27 with total page 642 pages. Available in PDF, EPUB and Kindle. Book excerpt: The single most comprehensive and authoritative textbook on bacterial molecular genetics Snyder & Champness Molecular Genetics of Bacteria is a new edition of a classic text, updated to address the massive advances in the field of bacterial molecular genetics and retitled as homage to the founding authors. In an era experiencing an avalanche of new genetic sequence information, this updated edition presents important experiments and advanced material relevant to current applications of molecular genetics, including conclusions from and applications of genomics; the relationships among recombination, replication, and repair and the importance of organizing sequences in DNA; the mechanisms of regulation of gene expression; the newest advances in bacterial cell biology; and the coordination of cellular processes during the bacterial cell cycle. The topics are integrated throughout with biochemical, genomic, and structural information, allowing readers to gain a deeper understanding of modern bacterial molecular genetics and its relationship to other fields of modern biology. Although the text is centered on the most-studied bacteria, Escherichia coli and Bacillus subtilis, many examples are drawn from other bacteria of experimental, medical, ecological, and biotechnological importance. The book's many useful features include Text boxes to help students make connections to relevant topics related to other organisms, including humans A summary of main points at the end of each chapter Questions for discussion and independent thought A list of suggested readings for background and further investigation in each chapter Fully illustrated with detailed diagrams and photos in full color A glossary of terms highlighted in the text While intended as an undergraduate or beginning graduate textbook, Molecular Genetics of Bacteria is an invaluable reference for anyone working in the fields of microbiology, genetics, biochemistry, bioengineering, medicine, molecular biology, and biotechnology. "This is a marvelous textbook that is completely up-to-date and comprehensive, but not overwhelming. The clear prose and excellent figures make it ideal for use in teaching bacterial molecular genetics." —Caroline Harwood, University of Washington
Download or read book The Physical Basis of Bacterial Quorum Communication written by Stephen J. Hagen and published by Springer. This book was released on 2014-09-29 with total page 257 pages. Available in PDF, EPUB and Kindle. Book excerpt: Quorum sensing (QS) describes a chemical communication behavior that is nearly universal among bacteria. Individual cells release a diffusible small molecule (an autoinducer) into their environment. A high concentration of this autoinducer serves as a signal of high population density, triggering new patterns of gene expression throughout the population. However QS is often much more complex than this simple census-taking behavior. Many QS bacteria produce and detect multiple autoinducers, which generate quorum signal cross talk with each other and with other bacterial species. QS gene regulatory networks respond to a range of physiological and environmental inputs in addition to autoinducer signals. While a host of individual QS systems have been characterized in great molecular and chemical detail, quorum communication raises many fundamental quantitative problems which are increasingly attracting the attention of physical scientists and mathematicians. Key questions include: What kinds of information can a bacterium gather about its environment through QS? What physical principles ultimately constrain the efficacy of diffusion-based communication? How do QS regulatory networks maximize information throughput while minimizing undesirable noise and cross talk? How does QS function in complex, spatially structured environments such as biofilms? Previous books and reviews have focused on the microbiology and biochemistry of QS. With contributions by leading scientists and mathematicians working in the field of physical biology, this volume examines the interplay of diffusion and signaling, collective and coupled dynamics of gene regulation, and spatiotemporal QS phenomena. Chapters will describe experimental studies of QS in natural and engineered or microfabricated bacterial environments, as well as modeling of QS on length scales spanning from the molecular to macroscopic. The book aims to educate physical scientists and quantitative-oriented biologists on the application of physics-based experiment and analysis, together with appropriate modeling, in the understanding and interpretation of the pervasive phenomenon of microbial quorum communication.
Download or read book Food Molecular Microbiology written by Spiros Paramithiotis and published by CRC Press. This book was released on 2019-02-14 with total page 252 pages. Available in PDF, EPUB and Kindle. Book excerpt: With the advances in the field of molecular biology, new tools make it possible to conduct in-depth studies in food microbial communities from a molecular perspective. Information from genomic, transcriptomic, proteomic and metabolomic studies can be integrated through bioinformatic applications, thereby improving our understanding of the interactions between biotic and abiotic factors and concomitantly the physiology of starter cultures, spoilage and pathogenic microbiota. Improvements in the speed, accuracy and reliability of food quality and safety assessment have made the foundation stronger for future developments including the exploitation of gene networks and applications of nanotechnology and systems biology. This book reviews all these developments, provides an integrated view of the subject and helps in identifying areas of future development.
Download or read book Bacterial Regulatory Networks written by Alain Filloux and published by Caister Academic Press Limited. This book was released on 2012 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Regulatory networks enable bacteria to adapt to almost every environmental niche on earth. Regulation is achieved by a network of interactions among diverse types of molecules including DNA, RNA, proteins and metabolites. The primary role of regulatory networks in bacteria is to control the response to environmental changes, such as nutritional status and environmental stress. A complex organization of networks allows the organism to coordinate and integrate multiple environmental signals. Renowned authors under the expert guidance of the editor Alain A.M. Filloux, have contributed authoritative, up-to-date reviews of the current research and theories on regulatory networks in bacteria. The volume contains critical reviews written by the leading research scientists in this topical field. The authors fully explore various regulatory networks, discuss variations of common themes and provide fresh insights into bacterial regulatory mechanisms. Topics include: the sigma network in Escherichia coli, control of bacterial virulence, ECF sigma factors, quorum sensing, cyclic di-GMP, RNA-mediated regulation, the H-NS regulator, two-component regulatory systems, bacterial chemotaxis, regulation of iron homeostasis, anaerobic regulatory networks, bacterial bistable regulatory networks, and evolution of transcription factors and regulatory networks. This book is essential reading for everyone interested in gene expression and regulation in bacteria and is a recommended text for all microbiology libraries.
Download or read book Molecular Biology of Bacterial Infection written by Carlos E. Hormaeche and published by Cambridge University Press. This book was released on 1992-10-22 with total page 343 pages. Available in PDF, EPUB and Kindle. Book excerpt: Understanding virulence determinants of bacterial pathogens and their regulation, and the pathogenesis of bacterial infections, is essential to the development of safe and effective vaccines and therapeutic strategies. This book presents an authoritative account of the contributions being made by molecular genetics and improved analytical technology in uncovering the molecular basis of bacteria-host interactions in infections. The broad scope of the volume encompasses normal flora and colonization resistance, evolution of pathogenic mechanisms, genetic approaches to understanding bacterial pathogenesis and in vivo studies of mutants, antigenic variation, bacterial invasion, toxins, environmental control of gene expression, regulatory networks in gene control, and attenuation of virulence through auxotrophy. The book will provide a state of the art reference for researchers in all areas concerned with bacterial infection and will also be useful as an advanced text.
Download or read book Molecular Basis of Specific Mechanism for Bacterial Adaptation written by Marcos López Pérez and published by . This book was released on 2020 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Since the appearance of Darwin's book, "The Origin of Species," adaptation is one of the processes that explains the diversity of species in ecosystems. Adaptive phenomena in the 19th century and until the mid-20th century have been analyzed in macroscopic biological systems, however since the second half of the 20th century and to date the development of disciplines such as Molecular Biology, has allowed us to delve into the mechanisms that regulate cell physiology. The molecular bases that allow explaining the adaptation processes of microorganisms to their environment have special relevance, because through their analysis it is possible to size the complexity of these mechanisms that involve receptors of a protein nature associated with transduction chains that transport the information flow to genomic DNA, and which subsequently involves the emission of a response through the expression of specific genes. From the point of view of the adaptive phenomenon analysis, the approach through the molecular bases makes it possible to understand the enormous diversity of the microbial world. Mainly for two reasons, on the one hand the presence of micro gradients in the bacterial ecological niches that are continuously fluctuating, which forces the microorganisms to a rapid adaptation phenomenon. And on the other hand, horizontal gene transfer phenomena, which allow bacteria the information exchange. These two elements carry great intensity in establishing new relationships. This phenomenon is especially relevant if it is related to a concept that Darwin cites in the Origin of Species, "The tangled riverbank", where it is emphasized that the new interactions establishment is the basic driving force for the new species generation. This mechanism is explained by the positive feedback loop generation, whereby ecosystems with high levels of biological diversity generate new interactions that lead to new species, which in turn tends to make the ecosystem network more complex. This complexity analyzed in its molecular bases allows to generate new research questions that can be applied to other knowledge areas, such as Biotechnology. The analysis of the molecular bases of the microorganisms adequacy, makes it possible to identify and characterize mechanisms that implemented in different pharmaceutical areas and agricultural industry has led to the product generation with high added value, a clear example of this economic development is the enzyme industry and even recombinant protein production. Finally, it is convenient to emphasize the need to incorporate the analysis of the molecular bases of adaptation from the perspective of omics techniques. Techniques that allow the study of processes and mechanisms to be approached from a global perspective. This book summarizes some topics of special relevance referring to adaptive processes of different microorganisms of special relevance both in basic and applied research.
Download or read book Bacterial Cell to Cell Communication written by Donald R. Demuth and published by Cambridge University Press. This book was released on 2006-02-23 with total page 340 pages. Available in PDF, EPUB and Kindle. Book excerpt: Many bacterial diseases are caused by organisms growing together as communities or biofilms. These microorganisms have the capacity to coordinately regulate specific sets of genes by sensing and communicating amongst themselves utilizing a variety of signals. This book examines the mechanisms of quorum sensing and cell-to-cell communication in bacteria and the roles that these processes play in regulating virulence, bacterial interactions with host tissues, and microbial development. Recent studies suggest that microbial cell-to-cell communication plays an important role in the pathogenesis of a variety of disease processes. Furthermore, some bacterial signal molecules may possess immunomodulatory activity. Thus, understanding the mechanisms and outcomes of bacterial cell-to-cell communication has important implications for appreciating host-pathogen interactions and ultimately may provide new targets for antimicrobial therapies that block or interfere with these communication networks.
Download or read book Molecular Detection of Human Bacterial Pathogens written by Dongyou Liu and published by CRC Press. This book was released on 2011-04-18 with total page 1258 pages. Available in PDF, EPUB and Kindle. Book excerpt: As more original molecular protocols and subsequent modifications are described in the literature, it has become difficult for those not directly involved in the development of these protocols to know which are most appropriate to adopt for accurate identification of bacterial pathogens. Molecular Detection of Human Bacterial Pathogens addresses th
Download or read book Functions and Mechanisms of Bacterial Protein Homeostasis and Stress Responses written by Axel Mogk and published by Frontiers Media SA. This book was released on 2022-02-01 with total page 334 pages. Available in PDF, EPUB and Kindle. Book excerpt: The Cover Image for This Research Topic is Used With Permission of the Authors and Publishers of the Following Article: Winkler J, Seybert A, König L, Pruggnaller S, Haselmann U, Sourjik V, Weiss M, Frangakis AS, Mogk A, Bukau B.EMBO J. 2010 Mar 3;29(5):910-23. doi: 10.1038/emboj.2009.412. Epub 2010 Jan 21
Download or read book Molecular Networks of Pathogenicity Control in Xanthomonas Phaseoli Pv Manihotis written by David Octavio Botero Rozo and published by . This book was released on 2018 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt: Cassava (Manihot esculenta Crantz) is one the most important crops around the world due to its environmental resistance and industrial utility. Xanthomonas phaseoli pv. manihotis (Xpm) is the causal agent of the cassava bacterial blight, the main bacterial disease of cassava. In Xanthomonas, several studies have been performed in the fields of transcriptomics, metabolomics, population genetics, and phylogenetics. However, few studies of gene expression profiles for pathogens in planta have been performed in the Xanthomonas genus, or in other plant pathogens. Moreover, few studies have analyzed the pathogenic system as whole. Systems biology is a new interdisciplinary field that has allowed to investigate organisms as a whole, where the totality of the system is greater than the independent addition of the parts. The scope of this thesis is to study the molecular mechanisms involved in pathogenicity of Xpm both in vitro and in planta. The gene expression profiles of mutants of Xpm related with molecular mechanisms of pathogenicity were studied in vitro. Furthermore, the interaction between cassava and Xpm in planta was also studied using gene expression profiles. The thesis is divided in three chapters. The first chapter responds to the need of having an updated review of network biology in bacterial pathogens and how this field of systems biology can help to understand the molecular mechanism of plant-pathogen interactions. The second chapter presents the first metabolic model of Xpm, reconstructed at a genome-scale, revealing important features of Xpm related with pathogenicity, virulence and bacterial defense. The final chapter analyzes the gene expression profiles of Xpm in planta during the interaction with cassava.
Download or read book Sensory Mechanisms in Bacteria written by Stephen Spiro and published by Caister Academic Press Limited. This book was released on 2010 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Bacteria have evolved with extraordinary abilities to regulate aspects of their behavior (such as gene expression) in response to signals in the intracellular and extracellular environment. Key to this are the diverse macromolecules (proteins or RNA) that sense change through direct interactions with chemical or physical stimuli. In recent years, there have been tremendous advances in understanding the structure and function of these signal receptors, and how interaction with the signal triggers changes in their activity and downstream events. For some systems, this understanding extends to the atomic level. In this unique book, an international team of experts reviews a selection of important model systems, providing a timely snapshot of the current state of research in the field. Sensory Mechanisms in Bacteria opens with an introductory chapter that reviews the diversity of signal recognition mechanisms, illustrating the breadth of the field. Subsequent chapters include descriptions of the sensing of ligands (-ketoglutarate, adenylate energy charge, glutamine, and xenobiotic compounds), chemoreceptors, iron-sulfur cluster-based sensors, metal-dependent and metal-responsive sensors, thiol-based sensors, and PDZ domains as sensors of other proteins. The book is essential reading for everyone with an interest in sensory mechanisms, regulatory networks, and responses to environmental stress in bacteria.
Download or read book The Social Biology of Microbial Communities written by Institute of Medicine and published by National Academies Press. This book was released on 2013-01-10 with total page 633 pages. Available in PDF, EPUB and Kindle. Book excerpt: Beginning with the germ theory of disease in the 19th century and extending through most of the 20th century, microbes were believed to live their lives as solitary, unicellular, disease-causing organisms . This perception stemmed from the focus of most investigators on organisms that could be grown in the laboratory as cellular monocultures, often dispersed in liquid, and under ambient conditions of temperature, lighting, and humidity. Most such inquiries were designed to identify microbial pathogens by satisfying Koch's postulates.3 This pathogen-centric approach to the study of microorganisms produced a metaphorical "war" against these microbial invaders waged with antibiotic therapies, while simultaneously obscuring the dynamic relationships that exist among and between host organisms and their associated microorganisms-only a tiny fraction of which act as pathogens. Despite their obvious importance, very little is actually known about the processes and factors that influence the assembly, function, and stability of microbial communities. Gaining this knowledge will require a seismic shift away from the study of individual microbes in isolation to inquiries into the nature of diverse and often complex microbial communities, the forces that shape them, and their relationships with other communities and organisms, including their multicellular hosts. On March 6 and 7, 2012, the Institute of Medicine's (IOM's) Forum on Microbial Threats hosted a public workshop to explore the emerging science of the "social biology" of microbial communities. Workshop presentations and discussions embraced a wide spectrum of topics, experimental systems, and theoretical perspectives representative of the current, multifaceted exploration of the microbial frontier. Participants discussed ecological, evolutionary, and genetic factors contributing to the assembly, function, and stability of microbial communities; how microbial communities adapt and respond to environmental stimuli; theoretical and experimental approaches to advance this nascent field; and potential applications of knowledge gained from the study of microbial communities for the improvement of human, animal, plant, and ecosystem health and toward a deeper understanding of microbial diversity and evolution. The Social Biology of Microbial Communities: Workshop Summary further explains the happenings of the workshop.
Download or read book Bacterial Signaling written by Reinhard Krämer and published by John Wiley & Sons. This book was released on 2009-12-09 with total page 513 pages. Available in PDF, EPUB and Kindle. Book excerpt: Providing a comprehensive insight into cellular signaling processes in bacteria with a special focus on biotechnological implications, this is the first book to cover intercellular as well as intracellular signaling and its relevance for biofilm formation, host pathogen interactions, symbiotic relationships, and photo- and chemotaxis. In addition, it deals in detail with principal bacterial signaling mechanisms -- making this a valuable resource for all advanced students in microbiology. Dr. Krämer is a world-renowned expert in intracellular signaling and its implications for biotechnology processes, while Dr. Jung is an expert on intercellular signaling and its relevance for biomedicine and agriculture.
