Download or read book Microbial Genomes written by Claire M. Fraser and published by Humana Press. This book was released on 2010-12-09 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: This collection of diverse articles by the pioneers of modern genomics takes stock of the current state of the field and elucidates the contribution that sequencing genomes has made to our understanding of microbial metabolism and evolution. Through twenty-eight thought-provoking chapters, the authors describe some of the most common computational methods and their applications to studying pathogenic microorganisms, show how genomics can be used to reconstruct the history and dynamism of the microbial world, and discuss issues as diverse as reconstruction of metabolic pathways, cell cycle processes, microbial evolution, metagenomics, and vaccine development. Additional chapters deal with microarrays and expression analysis and the role of genomic in drug discovery.
Download or read book Microbial Functional Genomics written by Jizhong Zhou and published by John Wiley & Sons. This book was released on 2004-03-19 with total page 624 pages. Available in PDF, EPUB and Kindle. Book excerpt: Microbial Functional Genomics offers a timely summary of the principles, approaches, and applications. It presents a comprehensive review of microbial functional genomics, covering microbial diversity, microbial genome sequencing, genomic technologies, genome-wide functional analysis, applied functional genomics, and future directions. An introduction will offer a definition of the field and an overview of the historical and comparative genomics aspects.
Download or read book The New Science of Metagenomics written by National Research Council and published by National Academies Press. This book was released on 2007-06-24 with total page 170 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.
Download or read book Microbial Diversity in the Genomic Era written by Surajit Das and published by Academic Press. This book was released on 2018-09-20 with total page 715 pages. Available in PDF, EPUB and Kindle. Book excerpt: Microbial Diversity in the Genomic Era presents insights on the techniques used for microbial taxonomy and phylogeny, along with their applications and respective pros and cons. Though many advanced techniques for the identification of any unknown bacterium are available in the genomics era, a far fewer number of the total microbial species have been discovered and identified to date. The assessment of microbial taxonomy and biosystematics techniques discovered and practiced in the current genomics era with suitable recommendations is the prime focus of this book. Discusses the techniques used for microbial taxonomy and phylogeny with their applications and respective pros and cons Reviews the evolving field of bacterial typing and the genomic technologies that enable comparative analysis of multiple genomes and the metagenomes of complex microbial environments Provides a uniform, standard methodology for species designation
Download or read book Bacterial Genomics written by Aswin Sai Narain Seshasayee and published by Cambridge University Press. This book was released on 2015-03-05 with total page 227 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents the application of genomic tools to examine bacterial adaptation. The emphasis is on data analysis and interpretation.
Download or read book Computing for Comparative Microbial Genomics written by David Wayne Ussery and published by Springer Science & Business Media. This book was released on 2009-02-26 with total page 272 pages. Available in PDF, EPUB and Kindle. Book excerpt: Overview and Goals This book describes how to visualize and compare bacterial genomes. Sequencing technologies are becoming so inexpensive that soon going for a cup of coffee will be more expensive than sequencing a bacterial genome. Thus, there is a very real and pressing need for high-throughput computational methods to compare hundreds and thousands of bacterial genomes. It is a long road from molecular biology to systems biology, and in a sense this text can be thought of as a path bridging these ? elds. The goal of this book is to p- vide a coherent set of tools and a methodological framework for starting with raw DNA sequences and producing fully annotated genome sequences, and then using these to build up and test models about groups of interacting organisms within an environment or ecological niche. Organization and Features The text is divided into four main parts: Introduction, Comparative Genomics, Transcriptomics and Proteomics, and ? nally Microbial Communities. The ? rst ? ve chapters are introductions of various sorts. Each of these chapters represents an introduction to a speci? c scienti? c ? eld, to bring all readers up to the same basic level before proceeding on to the methods of comparing genomes. First, a brief overview of molecular biology and of the concept of sequences as biological inf- mation are given.
Download or read book The Science and Applications of Microbial Genomics written by Institute of Medicine and published by National Academies Press. This book was released on 2013-05-02 with total page 429 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.
Download or read book Sequence Evolution Function written by Eugene V. Koonin and published by Springer Science & Business Media. This book was released on 2013-06-29 with total page 482 pages. Available in PDF, EPUB and Kindle. Book excerpt: Sequence - Evolution - Function is an introduction to the computational approaches that play a critical role in the emerging new branch of biology known as functional genomics. The book provides the reader with an understanding of the principles and approaches of functional genomics and of the potential and limitations of computational and experimental approaches to genome analysis. Sequence - Evolution - Function should help bridge the "digital divide" between biologists and computer scientists, allowing biologists to better grasp the peculiarities of the emerging field of Genome Biology and to learn how to benefit from the enormous amount of sequence data available in the public databases. The book is non-technical with respect to the computer methods for genome analysis and discusses these methods from the user's viewpoint, without addressing mathematical and algorithmic details. Prior practical familiarity with the basic methods for sequence analysis is a major advantage, but a reader without such experience will be able to use the book as an introduction to these methods. This book is perfect for introductory level courses in computational methods for comparative and functional genomics.
Download or read book Functional Microbial Genomics written by and published by Academic Press. This book was released on 2002-12-26 with total page 428 pages. Available in PDF, EPUB and Kindle. Book excerpt: Functional Microbial Genomics, edited by two leading experts in the field, provides the researcher with an up-to-date collection of articles on post-genome technologies central to studying the function of microorganisms. Since the release of the first complete genome sequence of a free-living organism in 1995, over 100 microbial genomes have been completely sequenced. The advent of new technologies for post-genomic analyses has allowed the rapid exploitation of this genome sequence information, heralding a golden era in microbial research. Functional Microbial Genomics provides in-depth accounts from scientists working with these new technologies explaining both the techniques and the ways in which they have been applied to the study of gene function in different microbial species. 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. * Bioinformatic approaches to genome sequence analysis * Details the design, construction and applications of DNA microarrays * Covers advances in bacterial proteome and metagenome analysis * Describes functional genomic approaches for novel antibiotic target and vaccine candidate discovery * Presents case studies where functional genomic analyses have revolutionized our understanding of model species
Download or read book Bacterial Genomes written by F.J. de Bruijn and published by Springer Science & Business Media. This book was released on 2012-12-06 with total page 786 pages. Available in PDF, EPUB and Kindle. Book excerpt: A wide range of microbiologists, molecular biologists, and molecular evolutionary biologists will find this new volume of singular interest. It summarizes the present knowledge about the structure and stability of microbial genomes, and reviews the techniques used to analyze and fingerprint them. Maps of approximately thirty important microbes, along with articles on the construction and relevant features of the maps are included. The volume is not intended as a complete compendium of all information on microbial genomes, but rather focuses on approaches, methods and good examples of the analysis of small genomes.
Download or read book Bacterial Genomes and Infectious Diseases written by Ricky V.L Chan and published by Springer Science & Business Media. This book was released on 2007-11-06 with total page 276 pages. Available in PDF, EPUB and Kindle. Book excerpt: The first bacterial genome, Haemophilus influenzae, was completely sequenced, annotated, and published in 1995. Today, more than 200 prokaryotic (archaeal and bacterial) genomes have been completed and over 500 prokaryotic genomes are in va- ous stages of completion. Seventeen eukaryotic genomes plus four eukaryotic chro- somes have been completed. The concept of achieving better understanding of an organism through knowledge of the complete genomic sequence was first demonstrated in 1978 when the first bacteriophage genome, X174, was sequenced. Complete genomic sequences of prokaryotes have led to a better understanding of the biology and evolution of the microbes, and, for pathogens, facilitated identification of new vaccine candidates, putative virulence genes, targets for antibiotics, new strategy for rapid diagnosis, and investigation of bacteria–host interactions and disease mec- nisms. Recent increased interest in microbial pathogens and infectious diseases is largely attributed to the re-emergence of infectious diseases like tuberculosis, emergence of new infectious diseases like AIDS and severe acute respiratory syndrome, the problem of an increasing rate of emergence of antibiotic-resistant variants of pathogens, and the fear of bioterrorism. Microbes are highly diverse and abundant in the biosphere. Less than 1% of these morphologically identified microbes can be cultured in vitro using standard techniques and conditions. With such abundance of microbes in nature, we can expect to see new variants and new species evolve and a small number will emerge as pathogens to humans.
Download or read book Microbial Genomics in Sustainable Agroecosystems written by Vijay Tripathi and published by Springer Nature. This book was released on 2019-11-05 with total page 285 pages. Available in PDF, EPUB and Kindle. Book excerpt: In recent decades, significant advances in new methodologies like DNA sequencing and high-throughput sequencing have been used to identify microorganisms and monitor their interactions with different environments. Microbial genomics techniques are opening new approaches to microbiology by revealing how microorganisms affect human beings and the environment. This book covers four major areas: 1) Environmental microbial genomics, 2) Microbial genomics in human health, 3) Microbial genomics in crop improvement and plant health protection, and 4) Genome analysis of microbial pathogens. Within these areas, the topics addressed include: microbial genome diversity, evolution, and microbial genome sequencing; bioinformatics and microarray-based genomic technologies; functional genomics of bioremediation of soil and water from organic and inorganic pollutants and carbon management; functional genomics of microbial pathogens and relevant microorganisms; functional genomics of model microorganisms; and applied functional genomics. Given its scope, the book offers a comprehensive source of information on the latest applications of microorganisms and microbial genomics to enhance the sustainability of agriculture and the environment.
Download or read book Microbial Genome Methods written by Kenneth W. Adolph and published by CRC Press. This book was released on 1996-08-28 with total page 310 pages. Available in PDF, EPUB and Kindle. Book excerpt: Learn to apply powerful molecular biology and genetics techniques to your microbial research with this easy-to-understand, practical guide. Microbial Genome Methods distills complex experimental procedures into fundamental techniques that can be readily adapted to your own research. In addition, this book provides background information specifically relevant to microbial research, as well as descriptions of expected results. The book is divided into two sections. Section one covers eukaryotic microbes, with emphasis on the yeast Saccharomyces cerevisiae. Section two covers prokaryotic microbes, focusing on Escherichia coli, and other important bacteria. These microbes were selected because they are widely studied and understood, but all information can be easily applied to the microbe you are investigating. Chapters are written by nationally and internationally recognized research scientists currently active in this field. Don't miss out on the tremendous boost these research techniques can give your work.
Download or read book Defrosting Ancient Microbes written by Scott Rogers and published by CRC Press. This book was released on 2019-09-10 with total page 255 pages. Available in PDF, EPUB and Kindle. Book excerpt: Ice is melting around the world and glaciers are disappearing. Water, which has been solid for thousands and even millions of years, is being released into streams, rivers, lakes and oceans. Embedded in this new fluid water, and now being released, are ancient microbes whose effects on today's organisms and ecosystems is unknown and unpredictable. These long sleeping microbes are becoming physiologically active and may accelerate global climate change. This book explores the emergence of these microbes. The implications for terrestrial life and the life that might exist elsewhere in the universe are explored. Key Selling Points: Explores the role of long frozen ancient microbes will have when released due to global warming Describes how ice preserves microbes and microbial genomes for thousands or millions of years Reviews work done on permafrost microbiology Identifies potential health hazards and environmental risks Examines implications for the search for extraterrestrial life.
Download or read book Microbial genomics challenge Darwin written by Didier Raoult and published by Frontiers E-books. This book was released on with total page 179 pages. Available in PDF, EPUB and Kindle. Book excerpt: The 200th anniversary of Darwin’s birthday was celebrated in 2009, making the concept of Darwinism even more popular than at the time it was originally proposed, to the extent that it has acquired quasi-religious status. His theory revolves around a Tree of Life in which all living organisms are considered to have descended from a single ancestor, and each node represents a common ancestor. It comprises hierarchy and dichotomy, which are typical characteristics of the post-biblical 19th century vision. Indeed, according to post-modern philosophy (also called the French theory) the majority of theories, including scientific ones, are based only on meta-narratives expressing the influence of a culture at a given time. Buddhism or Hinduism may have generated a very different story of evolution. Our way of thinking about life, and the way we describe evolution, have changed radically in the 21st century due to the genomic revolution. Comparative genome analyses have demonstrated that gene repertoires are characterized by plasticity, and there is strong evidence that nearly all genes have been exchanged at some point. Genomic data show that the genetic information of living organisms is inherited not only vertically but also laterally. Lateral gene transfers were at first observed only in bacteria, which contain genes originating from eukaryotes, Archaea and viruses. Such transfers were subsequently identified in all living organisms; giant viruses have chimeric genomes and the human genome is a mosaic of genes with eukaryotic, bacterial, and viral origins. We cannot identify a single common ancestor for the gene repertoire of any organism. Furthermore, a very high proportion of genes have been newly created through gene fusion or degradation, and others show no homology to sequences found in other species. It is now clear that every living organism has a variety of ancestors, while exchanges between species are intense, and the creation of new genes is frequent and permanent in all living organisms. Our current genomic knowledge contradicts the tree of life theory, as established by Darwin. Recent analyses have produced bushes rather than resolved trees, with the structure of some parts remaining elusive. It becomes more and more obvious that phylogenetic relationships are better described by forests and networks and that species evolution looks more like a rhizome. The chimerism and mosaic structure of all living organisms through both non-vertical inheritance and de novo creation can only be assimilated and described by a post-Darwinist concept. In this Research Topic we wish to highlight the influence of microbiology and genomics on our understanding of the complexity of gene repertoires, and also demonstrate how current knowledge does not support Darwin’s theory. Microbiology has offered a great advance in the way we perceive life. Evidence obtained from studies on bacterial and viral evolution, lateral inheritance, phylogenetic trees and biodiversity continues to challenge what constituted, until recently, an unimpeded dogma in biology.
Download or read book Microbial Pathogenomics written by Hilde de Reuse and published by Karger Medical and Scientific Publishers. This book was released on 2009-01-01 with total page 224 pages. Available in PDF, EPUB and Kindle. Book excerpt: 'Microbial Pathogenomics' contains a unique collection of reviews demonstrating how genomics has revolutionized our understanding of virulence, host-adaptation strategies and the evolution of bacterial pathogens. Current technologies - computational tools and functional approaches to genome analysis - are carefully documented and clearly illustrated. These include visualization tools for genome comparison, databases, in silico metabolic reconstructions and function prediction as well as interactomics for the study of protein-protein interactions. The concepts of pan-genomics and reverse vaccinology are introduced as strategies when addressing the challenge presented by bacterial diversity in the prevention and treatment of infectious diseases. The authors explore individual bacterial pathogens and discuss the mechanisms that have contributed to their evolutionary success. Special cases of host adaptation, for example, are illustrated by Helicobacter pylori and 'Mycobacterium tuberculosis' which are human-specific and highly persistent; further bacteria discussed include 'Escherichia coli, Campylobacter, Pseudomonas, Legionella, Bartonella, Burkholderia' and 'Staphylococcus'.'Microbial Pathogenomics' provides the reader with a global view of key aspects and future trends in bacterial pathogenomics and evaluates their impact on the understanding and treatment of infectious diseases. Well illustrated and accessible to both specialists and nonspecialists, it is recommended not only for researchers in microbiology, genomics and biotechnology, but also for lecturers and teachers.
Download or read book Microbial Genomics and Drug Discovery written by Thomas J. Dougherty and published by CRC Press. This book was released on 2003-05-14 with total page 272 pages. Available in PDF, EPUB and Kindle. Book excerpt: Exploring innovative routes of drug discovery in the postgenomic era, Microbial Genomics and Drug Discovery examines bioinformatic and genomic approaches for the identification, detection, selection, and validation of new antibacterial targets and vaccine candidates. The book discusses potential pathways for effective infection control, inhibition of antibacterial resistance, and acceleration of the drug discovery process. This comprehensive reference describes procedures to recognize common targets in various bacterial species for the design of broad-spectrum antibiotics and clearly illustrates the use of pathway tools in a genomics-based drug discovery project.
