Microbial Genome Methods

Author : Kenneth W. Adolph
Publisher : CRC Press
Page : 310 pages
File Size : 51,5 Mb
Release : 1996-08-28
Category : Science
ISBN : 0849344107

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Microbial Genome Methods by Kenneth W. Adolph Pdf

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.

Author : David Wayne Ussery,Trudy M. Wassenaar,Stefano Borini
Publisher : Springer Science & Business Media
Page : 272 pages
File Size : 47,8 Mb
Release : 2009-02-26
Category : Science
ISBN : 9781848002548

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Computing for Comparative Microbial Genomics by David Wayne Ussery,Trudy M. Wassenaar,Stefano Borini Pdf

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.

Author : Claire M. Fraser,Timothy Read,Karen E. Nelson
Publisher : Humana Press
Page : 0 pages
File Size : 50,7 Mb
Release : 2010-12-09
Category : Science
ISBN : 1617374113

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Microbial Genomes by Claire M. Fraser,Timothy Read,Karen E. Nelson Pdf

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.

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 : 44,8 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.

Author : Ying Xu,J. Peter Gogarten
Publisher : World Scientific
Page : 494 pages
File Size : 40,9 Mb
Release : 2008
Category : Medical
ISBN : 9781860949821

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Computational Methods for Understanding Bacterial and Archaeal Genomes by Ying Xu,J. Peter Gogarten Pdf

Over 500 prokaryotic genomes have been sequenced to date, and thousands more have been planned for the next few years. While these genomic sequence data provide unprecedented opportunities for biologists to study the world of prokaryotes, they also raise extremely challenging issues such as how to decode the rich information encoded in these genomes. This comprehensive volume includes a collection of cohesively written chapters on prokaryotic genomes, their organization and evolution, the information they encode, and the computational approaches needed to derive such information. A comparative view of bacterial and archaeal genomes, and how information is encoded differently in them, is also presented. Combining theoretical discussions and computational techniques, the book serves as a valuable introductory textbook for graduate-level microbial genomics and informatics courses.

Author : Francis Martin,Stephane Uroz
Publisher : Springer Nature
Page : 370 pages
File Size : 46,7 Mb
Release : 2022-12-15
Category : Science
ISBN : 9781071628713

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Microbial Environmental Genomics (MEG) by Francis Martin,Stephane Uroz Pdf

This volume guides researchers on how to characterize, image rare, and hitherto unknown taxa and their interactions, to identify new functions and biomolecules and to understand how environmental changes condition the activity and the response of the organisms living with us and in our environment. Chapters cover different organism types (i.e., archaea, bacteria, fungi, protest, microfauna and microeukaryotes) and propose detailed protocols to produce high quality DNA, to analyse active microbial communities directly involved in complex interactions or processes through stable isotope probing, to identify and characterize of new functional genes, to image in situ interactions and to apply bioinformatics analysis tools to complex metagenomic or RNAseq sequence data. 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 cutting-edge, Microbial Environmental Genomics (MEG): Methods and Protocols, Second Edition aims to serve as a primary research reference for researchers in microbiology working to in the expanding field of molecular ecology and environmental genomics.

Author : F.J. de Bruijn,James R. Lupski,G.M. Weinstock
Publisher : Springer Science & Business Media
Page : 786 pages
File Size : 44,9 Mb
Release : 2012-12-06
Category : Science
ISBN : 9781461563693

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Bacterial Genomes by F.J. de Bruijn,James R. Lupski,G.M. Weinstock Pdf

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.

Author : Brendan Wren,Nick Dorrell
Publisher : Unknown
Page : 0 pages
File Size : 44,6 Mb
Release : 2003
Category : Medical
ISBN : 0127877665

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Functional Microbial Genomics by Brendan Wren,Nick Dorrell Pdf

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 organ

Author : Institute of Medicine,Board on Global Health,Forum on Microbial Threats
Publisher : National Academies Press
Page : 429 pages
File Size : 48,6 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.

Author : Alessio Mengoni,Marco Galardini,Marco Fondi
Publisher : Unknown
Page : 298 pages
File Size : 53,8 Mb
Release : 2015
Category : Bacterial genetics
ISBN : 149391720X

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Bacterial Pangenomics by Alessio Mengoni,Marco Galardini,Marco Fondi Pdf

Author : Vijay Tripathi,Pradeep Kumar,Pooja Tripathi,Amit Kishore
Publisher : Springer Nature
Page : 285 pages
File Size : 43,9 Mb
Release : 2019-11-05
Category : Science
ISBN : 9789811387395

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Microbial Genomics in Sustainable Agroecosystems by Vijay Tripathi,Pradeep Kumar,Pooja Tripathi,Amit Kishore Pdf

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.

Author : Thomas J. Dougherty,Steven J. Projan
Publisher : CRC Press
Page : 272 pages
File Size : 53,7 Mb
Release : 2003-05-14
Category : Medical
ISBN : 0203911466

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Microbial Genomics and Drug Discovery by Thomas J. Dougherty,Steven J. Projan Pdf

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.

Author : Anonim
Publisher : Academic Press
Page : 0 pages
File Size : 40,5 Mb
Release : 2013-10-08
Category : Science
ISBN : 012407863X

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Microbial Metagenomics, Metatranscriptomics, and Metaproteomics by Anonim Pdf

This new volume of Methods in Enzymology continues the legacy of this premier serial with quality chapters authored by leaders in the field. This volume covers microbial metagenomics, metatranscriptomics, and metaproteomics, and includes chapters on such topics as in-solution FISH for single cell genome preparation, preparation of BAC libraries from marine microbial community DNA, and preparation of microbial community cDNA for metatranscriptomic analysis in marine plankton.

Author : Jörg Hacker,Ulrich Dobrindt
Publisher : John Wiley & Sons
Page : 616 pages
File Size : 55,8 Mb
Release : 2006-12-13
Category : Science
ISBN : 9783527607518

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Pathogenomics by Jörg Hacker,Ulrich Dobrindt Pdf

The first book on this young, highly dynamic, and expanding field. This comprehensive, interdisciplinary text focuses on those pathogenic bacteria that are of high scientific and public health interest, yet which also display great potential for the development of new diagnostic, prophylactic and therapeutic procedures. The authors cover all aspects of pathogenomics, including methods, genomics and applications. In addition, the ongoing development of genome, transcriptome, proteome and bioinformatic analyses of pathogenic microorganisms and their host interactions makes for a comprehensive introduction to the field of modern genomic analysis. This result is invaluable to researchers and students wishing to gain a general overview of microbial functional genome analysis and pathogenesis, while also representing a good starting point for those new to the area.

Author : Dennis C. Gross,Ann Lichens-Park,Chittaranjan Kole
Publisher : Springer
Page : 283 pages
File Size : 43,6 Mb
Release : 2014-06-16
Category : Science
ISBN : 9783642553783

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Genomics of Plant-Associated Bacteria by Dennis C. Gross,Ann Lichens-Park,Chittaranjan Kole Pdf

This book describes how genomics has revolutionized our scientific understanding of agriculturally important plant-associated bacteria. Each chapter focuses on the genomics of particular bacteria: the first described plant pathogen, Erwinia amylovora; phytoplasmas lacking cell walls; fastidious, phloem-restricted liberibacters; Pseudomonas syringae, which is a genetically tractable model system; Xanthomonas citri, which causes a disease that can devastate citrus crops and Pseudomonas fluorescens, which can protect plants from diseases. Topics considered in this volume include the importance of horizontal gene transfer in originating new bacterial strains and species and advances in transcriptomics that allow us to describe the complex regulatory networks critical to plant-microbe interactions. The availability of the Xanthomonas oryzae genome has led to new technologies in genome editing, which will revolutionize approaches to genetic engineering, even in eukaryotes. The contributions show how genomics has greatly accelerated progress toward understanding the biology of these bacteria and how that understanding can be translated into novel crop protection methods.