Microbial Genomic Islands In Adaptation And Pathogenicity

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Microbial Genomic Islands in Adaptation and Pathogenicity

Indra Mani,Vijai Singh,Khalid J. Alzahrani,Dinh-Toi Chu
Microbial Genomic Islands in Adaptation and Pathogenicity Book PDF

Author : Indra Mani,Vijai Singh,Khalid J. Alzahrani,Dinh-Toi Chu
Publisher : Springer Nature
Page : 369 pages
File Size : 54,8 Mb
Release : 2023-03-31
Category : Science
ISBN : 9789811993428

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Microbial Genomic Islands in Adaptation and Pathogenicity by Indra Mani,Vijai Singh,Khalid J. Alzahrani,Dinh-Toi Chu Pdf

This book elucidates the role of microbial genomic islands (GEIs) in genome stability, plasticity, evolutionary adaptation, and pathogenicity in the bacterial population. The initial chapters of the book present tools, including bioinformatics, artificial intelligence, machine learning, next-generation sequencing, and molecular biology techniques, for the analysis of the genomic islands. The book also discusses the importance of genomic islands in bacterial speciation, acquisition of genes related to resistome, nitrogen fixation, mobilomes, and nutritional fitness and adaptation. It provides recent advances in understanding microbial genomic islands' distribution, evolution, and mechanistic modes of behavior in pathogenic, non-pathogenic, and environmental species. This book is a valuable source for beginners in molecular microbiology, students, researchers, clinicians, stakeholders, and policymakers interested in understanding the role of GEIs in the adaptive evolution of microorganisms. ​

Pathogenicity Islands and the Evolution of Pathogenic Microbes

J. Hacker,J.B. Kaper
Pathogenicity Islands and the Evolution of Pathogenic Microbes Book PDF

Author : J. Hacker,J.B. Kaper
Publisher : Springer Science & Business Media
Page : 240 pages
File Size : 55,8 Mb
Release : 2013-03-09
Category : Science
ISBN : 9783662092170

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Pathogenicity Islands and the Evolution of Pathogenic Microbes by J. Hacker,J.B. Kaper Pdf

It has been known for a number of years that not only pathogenicity islands but also plasmids and bacteriophages are able to carry genes whose products are involved in pathogenic processes. Accordingly, such elements and their products play an important role in pathogenesis due to the intestinal E. coli as well due to Shigellae. Another interesting aspect which is reflected in different articles is that genomes evolve by acquisition of new pieces of DNA following gene transfer, but also by genome reduction. Different mechanisms include the deletion of sequences or the elimination of functions by the accumulation of point mutations or rearrangements.

Pathogenicity Islands and the Evolution of Pathogenic Microbes

J. Hacker,James Kaper
Pathogenicity Islands and the Evolution of Pathogenic Microbes Book PDF

Author : J. Hacker,James Kaper
Publisher : Springer
Page : 234 pages
File Size : 40,7 Mb
Release : 2002-03-01
Category : Science
ISBN : 3540426817

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Pathogenicity Islands and the Evolution of Pathogenic Microbes by J. Hacker,James Kaper Pdf

It has been known for a number of years that not only pathogenicity islands but also plasmids and bacteriophages are able to carry genes whose products are involved in pathogenic processes. Accordingly, such elements and their products play an important role in pathogenesis due to the intestinal E. coli as well due to Shigellae. Another interesting aspect which is reflected in different articles is that genomes evolve by acquisition of new pieces of DNA following gene transfer, but also by genome reduction. Different mechanisms include the deletion of sequences or the elimination of functions by the accumulation of point mutations or rearrangements.

The New Science of Metagenomics

National Research Council,Division on Earth and Life Studies,Board on Life Sciences,Committee on Metagenomics: Challenges and Functional Applications
The New Science of Metagenomics Book PDF

Author : National Research Council,Division on Earth and Life Studies,Board on Life Sciences,Committee on Metagenomics: Challenges and Functional Applications
Publisher : National Academies Press
Page : 170 pages
File Size : 42,5 Mb
Release : 2007-06-24
Category : Science
ISBN : 9780309106764

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The New Science of Metagenomics by National Research Council,Division on Earth and Life Studies,Board on Life Sciences,Committee on Metagenomics: Challenges and Functional Applications Pdf

Although we can't usually see them, microbes are essential for every part of human life-indeed all life on Earth. The emerging field of metagenomics offers a new way of exploring the microbial world that will transform modern microbiology and lead to practical applications in medicine, agriculture, alternative energy, environmental remediation, and many others areas. Metagenomics allows researchers to look at the genomes of all of the microbes in an environment at once, providing a "meta" view of the whole microbial community and the complex interactions within it. It's a quantum leap beyond traditional research techniques that rely on studying-one at a time-the few microbes that can be grown in the laboratory. At the request of the National Science Foundation, five Institutes of the National Institutes of Health, and the Department of Energy, the National Research Council organized a committee to address the current state of metagenomics and identify obstacles current researchers are facing in order to determine how to best support the field and encourage its success. The New Science of Metagenomics recommends the establishment of a "Global Metagenomics Initiative" comprising a small number of large-scale metagenomics projects as well as many medium- and small-scale projects to advance the technology and develop the standard practices needed to advance the field. The report also addresses database needs, methodological challenges, and the importance of interdisciplinary collaboration in supporting this new field.

The Pangenome

Hervé Tettelin,Duccio Medini
The Pangenome Book PDF

Author : Hervé Tettelin,Duccio Medini
Publisher : Springer Nature
Page : 311 pages
File Size : 48,5 Mb
Release : 2020-04-30
Category : Science
ISBN : 9783030382810

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The Pangenome by Hervé Tettelin,Duccio Medini Pdf

This open access book offers the first comprehensive account of the pan-genome concept and its manifold implications. The realization that the genetic repertoire of a biological species always encompasses more than the genome of each individual is one of the earliest examples of big data in biology that opened biology to the unbounded. The study of genetic variation observed within a species challenges existing views and has profound consequences for our understanding of the fundamental mechanisms underpinning bacterial biology and evolution. The underlying rationale extends well beyond the initial prokaryotic focus to all kingdoms of life and evolves into similar concepts for metagenomes, phenomes and epigenomes. The book’s respective chapters address a range of topics, from the serendipitous emergence of the pan-genome concept and its impacts on the fields of microbiology, vaccinology and antimicrobial resistance, to the study of microbial communities, bioinformatic applications and mathematical models that tie in with complex systems and economic theory. Given its scope, the book will appeal to a broad readership interested in population dynamics, evolutionary biology and genomics.

Genetics and Evolution of Infectious Diseases

Michel Tibayrenc
Genetics and Evolution of Infectious Diseases Book PDF

Author : Michel Tibayrenc
Publisher : Elsevier
Page : 773 pages
File Size : 50,6 Mb
Release : 2010-12-17
Category : Medical
ISBN : 9780123848901

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Genetics and Evolution of Infectious Diseases by Michel Tibayrenc Pdf

Genetics and Evolution of Infectious Diseases is at the crossroads between two major scientific fields of the 21st century: evolutionary biology and infectious diseases. The genomic revolution has upset modern biology and has revolutionized our approach to ancient disciplines such as evolutionary studies. In particular, this revolution is profoundly changing our view on genetically driven human phenotypic diversity, and this is especially true in disease genetic susceptibility. Infectious diseases are indisputably the major challenge of medicine. When looking globally, they are the number one killer of humans and therefore the main selective pressure exerted on our species. Even in industrial countries, infectious diseases are now far less under control than 20 years ago. The first part of this book covers the main features and applications of modern technologies in the study of infectious diseases. The second part provides detailed information on a number of the key infectious diseases such as malaria, SARS, avian flu, HIV, tuberculosis, nosocomial infections and a few other pathogens that will be taken as examples to illustrate the power of modern technologies and the value of evolutionary approaches. Takes an integrated approach to infectious diseases Includes contributions from leading authorities Provides the latest developments in the field

Bacterial Pathogenomics

Mark J. Pallen,Karen E. Nelson,Gail M. Preston
Bacterial Pathogenomics Book PDF

Author : Mark J. Pallen,Karen E. Nelson,Gail M. Preston
Publisher : Unknown
Page : 488 pages
File Size : 40,6 Mb
Release : 2007
Category : Medical
ISBN : UOM:39015074270326

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Bacterial Pathogenomics by Mark J. Pallen,Karen E. Nelson,Gail M. Preston Pdf

This landmark volume details progress in the fast-changing world of bacterial genomics and it includes contributions from a team of over forty world-renowned authors.

Microbial Evolution and Co-Adaptation

Institute of Medicine,Board on Global Health,Forum on Microbial Threats
Microbial Evolution and Co Adaptation Book PDF

Author : Institute of Medicine,Board on Global Health,Forum on Microbial Threats
Publisher : National Academies Press
Page : 330 pages
File Size : 42,5 Mb
Release : 2009-05-10
Category : Science
ISBN : 9780309131216

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Microbial Evolution and Co-Adaptation by Institute of Medicine,Board on Global Health,Forum on Microbial Threats Pdf

Dr. Joshua Lederberg - scientist, Nobel laureate, visionary thinker, and friend of the Forum on Microbial Threats - died on February 2, 2008. It was in his honor that the Institute of Medicine's Forum on Microbial Threats convened a public workshop on May 20-21, 2008, to examine Dr. Lederberg's scientific and policy contributions to the marketplace of ideas in the life sciences, medicine, and public policy. The resulting workshop summary, Microbial Evolution and Co-Adaptation, demonstrates the extent to which conceptual and technological developments have, within a few short years, advanced our collective understanding of the microbiome, microbial genetics, microbial communities, and microbe-host-environment interactions.

The Comprehensive Sourcebook of Bacterial Protein Toxins

Joseph E. Alouf,Daniel Ladant,Michel R. Popoff
The Comprehensive Sourcebook of Bacterial Protein Toxins Book PDF

Author : Joseph E. Alouf,Daniel Ladant,Michel R. Popoff
Publisher : Elsevier
Page : 1072 pages
File Size : 43,9 Mb
Release : 2005-12-20
Category : Science
ISBN : 9780080456980

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The Comprehensive Sourcebook of Bacterial Protein Toxins by Joseph E. Alouf,Daniel Ladant,Michel R. Popoff Pdf

This book describes the major achievements and discoveries relevant to bacterial protein toxins since the turn of the new century illustrated by the discovery of more than fifty novel toxins (many of them identified through genome screening). The establishment of the three-dimensional crystal structure of more than 20 toxins during the same period offers deeper knowledge of structure-activity relationships and provides a framework to understand how toxins recognize receptors, penetrate membranes and interact with and modify intracellular substrates. Edited by two of the most highly regarded experts in the field from the Institut Pasteur, France 14 brand new chapters dedicated to coverage of historical and general aspects of toxinology Includes the major toxins of both basic and clinical interest are described in depth Details applied aspects of toxins such as therapy, vaccinology, and toolkits in cell biology Evolutionary and functional aspects of bacterial toxins evaluated and summarized Toxin applications in cell biology presented Therapy (cancer therapy, dystonias) discussed Vaccines (native and genetically engineered vaccines) featured Toxins discussed as biological weapons, comprising chapters on anthrax, diphtheria, ricin etc.

The Gut-Brain Axis

Niall Hyland,Catherine Stanton
The Gut Brain Axis Book PDF

Author : Niall Hyland,Catherine Stanton
Publisher : Elsevier
Page : 544 pages
File Size : 53,7 Mb
Release : 2023-12-15
Category : Medical
ISBN : 9780323983020

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The Gut-Brain Axis by Niall Hyland,Catherine Stanton Pdf

The Gut-Brain Axis: Dietary, Probiotic, and Prebiotic Interventions on the Microbiota, Second Edition presents the most advances on how the gut microbiome influences central nervous system and brain function introduced in the first edition. The book also describes how environmental influences which affect the microbiota, including, diet, exercise, and early-life, impact on the gut-brain axis. The second edition contains new chapters on metabolomics and the gut-brain-axis; dietary factors in the maintenance of a healthy brain ; the role of gut microbes in neurodegenerative disorders; the link between exercise and the gut-brain-axis; and infant Nutrition, the microbiome and neurodevelopment. In addition, the second edition presents coverage of mechanisms underlying neurological disease; approaches to investigate the role of the microbiome in brain and behavior, and 'next generation' probiotics and prebiotics. The Gut-Brain Axis: Dietary, Probiotic, and Prebiotic Interventions on the Microbiota, Second Edition continues to be the “go-to resource for further exploration of the microbiota. Includes new chapters focused on metabolomics and the gut-brain axis; dietary polyphenols to maintain healthier brain measures and cognitive function; the role of gut microbes in Parkinson’s Disease; the microbiota-gut-brain axis in psychosis; exploration of exercise and the gut-brain axis; and coverage of pediatric nutrition Updated chapters reflect on the most recent advances on the role of the microbiome and gut-brain axis in early-life, aging, cognition, metabolism, neurodevelopmental disorders, as well as on the enteric nervous system Addresses the role of diet and the gut-brain axis across several chapters with unique author insights and perspectives Examines common mechanisms and pathways by which the microbiota may influence brain and behavior Discusses strategies to explore the contribution of the microbiome to the gut-brain axis; methods to enhance therapeutic strategies targeted toward the microbiota; and presents a case study demonstrating a rational screening approach to increase translational success

Ending the War Metaphor

Institute of Medicine,Board on Global Health,Forum on Microbial Threats
Ending the War Metaphor Book PDF

Author : Institute of Medicine,Board on Global Health,Forum on Microbial Threats
Publisher : National Academies Press
Page : 306 pages
File Size : 46,8 Mb
Release : 2006-07-09
Category : Medical
ISBN : 9780309096010

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Ending the War Metaphor by Institute of Medicine,Board on Global Health,Forum on Microbial Threats Pdf

Infectious diseases have existed longer than us, as long as us, or are relatively newer than us. It may be the case that a disease has existed for many, many years but has only recently begun affecting humans. At the turn of the century the number of deaths caused by infections in the United States had been falling steadily but since the '80s has seen an increase. In the past 30 years alone 37 new pathogens have been identified as human disease threats and 12% of known human pathogens have been classified as either emerging or remerging. Whatever the story, there is currently a "war" on infectious diseases. This war is simply the systematic search for the microbial "cause" of each disease, followed by the development of antimicrobial therapies. The "war" on infectious diseases, however, must be revisited in order to develop a more realistic and detailed picture of the dynamic interactions among and between host organisms and their diverse populations of microbes. Only a fraction of these microbes are pathogens. Thus, in order to explore the crafting of a new metaphor for host-microbe relationships, and to consider how such a new perspective might inform and prioritize biomedical research, the Forum on Microbial Threats of the Institute of Medicine (IOM) convened the workshop, Ending the War Metaphor: The Changing Agenda for Unraveling the Host-Microbe Relationship on March 16-17, 2005. Workshop participants examined knowledge and approaches to learning about the bacterial inhabitants of the human gut, the best known host-microbe system, as well as findings from studies of microbial communities associated with other mammals, fish, plants, soil, and insects. The perspective adopted by this workshop is one that recognizes the breadth and diversity of host-microbe relationships beyond those relative few that result in overt disease. Included in this summary are the reports and papers of individuals participating in the Forum as well as the views of the editors.

The Science and Applications of Microbial Genomics

Institute of Medicine,Board on Global Health,Forum on Microbial Threats
The Science and Applications of Microbial Genomics Book PDF

Author : Institute of Medicine,Board on Global Health,Forum on Microbial Threats
Publisher : National Academies Press
Page : 429 pages
File Size : 43,6 Mb
Release : 2013-05-02
Category : Science
ISBN : 9780309268196

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The Science and Applications of Microbial Genomics by Institute of Medicine,Board on Global Health,Forum on Microbial Threats Pdf

Over the past several decades, new scientific tools and approaches for detecting microbial species have dramatically enhanced our appreciation of the diversity and abundance of the microbiota and its dynamic interactions with the environments within which these microorganisms reside. The first bacterial genome was sequenced in 1995 and took more than 13 months of work to complete. Today, a microorganism's entire genome can be sequenced in a few days. Much as our view of the cosmos was forever altered in the 17th century with the invention of the telescope, these genomic technologies, and the observations derived from them, have fundamentally transformed our appreciation of the microbial world around us. On June 12 and 13, 2012, the Institute of Medicine's (IOM's) Forum on Microbial Threats convened a public workshop in Washington, DC, to discuss the scientific tools and approaches being used for detecting and characterizing microbial species, and the roles of microbial genomics and metagenomics to better understand the culturable and unculturable microbial world around us. Through invited presentations and discussions, participants examined the use of microbial genomics to explore the diversity, evolution, and adaptation of microorganisms in a wide variety of environments; the molecular mechanisms of disease emergence and epidemiology; and the ways that genomic technologies are being applied to disease outbreak trace back and microbial surveillance. Points that were emphasized by many participants included the need to develop robust standardized sampling protocols, the importance of having the appropriate metadata, data analysis and data management challenges, and information sharing in real time. The Science and Applications of Microbial Genomics summarizes this workshop.

Microbial Diversity in the Genomic Era

Surajit Das,Hirak Ranjan Dash
Microbial Diversity in the Genomic Era Book PDF

Author : Surajit Das,Hirak Ranjan Dash
Publisher : Elsevier
Page : 840 pages
File Size : 48,7 Mb
Release : 2024-03-23
Category : Science
ISBN : 9780443133213

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Microbial Diversity in the Genomic Era by Surajit Das,Hirak Ranjan Dash Pdf

Microbial Diversity in the Genomic Era, Second Edition presents techniques used for microbial taxonomy and phylogeny, along with their applications and respective strengths and challenges. Though many advanced techniques for the identification of unknown bacterium are available in the genomic era, a far fewer number of the total microbial species have been discovered and identified to date. With that in mind, this book incorporates recently developed biosystematics methods and approaches to assess microbial taxonomy, with suitable recommendations for where to apply them across the range of bacterial identification and infectious disease research. Here, international researchers in the field first provide a broad overview of microbial genomics research and microbiome directed medicine, followed by sections on molecular tools for microbial diversity research, extremophilic microbial diversity, functional microbial diversity across application areas, microbial diversity and infectious disease research, and future directions for research. Step-by-step methodologies are provided for key techniques, along with applied case studies breaking down recent research studies into the practical components, illuminating pathways for new studies across the field. This new edition has been fully updated to address advances in the field of microbiome directed medicine, and whole genome sequencing for studying microbial diversity, considering both recent technological advances and new applications areas, from extremophile studies to the latest approaches in human microbiome analysis. Instructs in techniques used for microbial taxonomy and phylogeny, with discussions of their applications and respective pros and cons Reviews the evolving field of microbial typing and the genomic technologies that enable comparative metagenomic analysis of complex microbial environments Covers microbiome directed translational research, as well as whole genome sequencing for studying microbial diversity, with newly added research protocols and case studies Reviews future applications in the field of microbiome directed medicine Features chapter contributions from global experts in the field

The Social Biology of Microbial Communities

Institute of Medicine,Board on Global Health,Forum on Microbial Threats
The Social Biology of Microbial Communities Book PDF

Author : Institute of Medicine,Board on Global Health,Forum on Microbial Threats
Publisher : National Academies Press
Page : 633 pages
File Size : 43,7 Mb
Release : 2013-01-10
Category : Medical
ISBN : 9780309264327

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The Social Biology of Microbial Communities by Institute of Medicine,Board on Global Health,Forum on Microbial Threats Pdf

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.

Encyclopedia of Bioinformatics and Computational Biology

Anonim
Encyclopedia of Bioinformatics and Computational Biology Book PDF

Author : Anonim
Publisher : Elsevier
Page : 3421 pages
File Size : 47,9 Mb
Release : 2018-08-21
Category : Medical
ISBN : 9780128114322

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Encyclopedia of Bioinformatics and Computational Biology by Anonim Pdf

Encyclopedia of Bioinformatics and Computational Biology: ABC of Bioinformatics, Three Volume Set combines elements of computer science, information technology, mathematics, statistics and biotechnology, providing the methodology and in silico solutions to mine biological data and processes. The book covers Theory, Topics and Applications, with a special focus on Integrative –omics and Systems Biology. The theoretical, methodological underpinnings of BCB, including phylogeny are covered, as are more current areas of focus, such as translational bioinformatics, cheminformatics, and environmental informatics. Finally, Applications provide guidance for commonly asked questions. This major reference work spans basic and cutting-edge methodologies authored by leaders in the field, providing an invaluable resource for students, scientists, professionals in research institutes, and a broad swath of researchers in biotechnology and the biomedical and pharmaceutical industries. Brings together information from computer science, information technology, mathematics, statistics and biotechnology Written and reviewed by leading experts in the field, providing a unique and authoritative resource Focuses on the main theoretical and methodological concepts before expanding on specific topics and applications Includes interactive images, multimedia tools and crosslinking to further resources and databases