Download or read book 16S RRNA Gene Microarray Analysis of Microbial Communities in Ethanol stimulated Subsurface Sediment written by and published by . This book was released on 2011 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt:

Download or read book An Integrated Investigation of Ruminal Microbial Communities Using 16s RRNA Gene based Techniques written by Min Seok Kim and published by . This book was released on 2011 with total page 196 pages. Available in PDF, EPUB and Kindle. Book excerpt: Abstract: Ruminant animals obtain most of their nutrients from fermentation products produced by a ruminal microbiome. Since the 16S rRNA gene (rrs) was used as a phylogenetic marker in studies of ruminal microbiome, the ruminal microbiome that is not culturable has been identified. Recently microarray or pyrosequencing analysis has been greatly contributed to identifying numerous rrs sequences at the same time. However, few studies have used the microarray or pyrosequencing analysis to investigate the ruminal microbiome. The overall objective of my study was to examine ruminal microbial diversity as affected by dietary modification and to compare microbial diversity between the liquid and adherent fractions using the microarray and pyrosequencing analysis. In the first study (Chapter 3), a meta-analysis of all the rrs sequences of rumen origin deposited in the RDP database was performed. Collectively, 5,271 and 943 OTUs of bacteria and archaea, respectively, were identified at 0.03 phylogenetic distance. The predominant bacterial phyla were Firmicutes and Bacteroidetes, while the largest archaeal phylum was Euryarchaeota. More than 50% of all the bacterial sequences could not be classified into any known genus. In the second study (Chapter 4), select cultured bacteria and uncultured bacteria were quantified using specific real-time PCR assay. The populations of some uncultured bacteria were as abundant as those of major cellulolytic cultured bacteria. In the third study (Chapter 5), the diversity of ruminal microbiome in cattle was examined using rrs clone libraries. Six known rrs clones were used to validate the phylogenetic microarray (Chapter 6). In the fourth study (Chapter 6), a phylogenetic microarray that detects 1,600 OTUs of ruminal bacteria was developed in a 6x5K format based on the OTUs identified in Chapter 3. The utility of the phylogenetic microarray (referred to as RumenArray) was tested in comparative analysis of fractionated bacterial microbiomes obtained from sheep fed two different diets. Species-level OTUs are commonly defined at 0.03 phylogenetic distance based on full-length rrs sequences. However, the current 454 pyrosequencing method is not able to produce full-length rrs sequences. To identify a region or phylogenetic distance that can support species richness estimate as reliably as full-length rrs sequences, in the fifth study I compared datasets of partial rrs sequences corresponding to different variable regions with a dataset of nearly full-length rrs sequences (Chapter 7). The results indicated that the V1-V3 and the V1-V4 regions at 0.04 distance provide more accurate estimates than other partial regions. Based on the results obtained in Chapter 7, pyrosequencing analysis was performed to investigate bacterial diversity in the rumen of cattle as affected by supplementation of monensin or fat in my sixth study (Chapter 8). Supplementary fat resulted in significant shift of bacterial populations when compared to the control diet, but supplementary monensin did not. The overall results of the above studies provided further insights into the microbial microbiome as affected by different diets and different fractions. Integration of RumenArray and pyrosequencing techniques will improve our understanding of the ruminal microbiome and its integration with nutritional studies.

Download or read book Abstracts of the General Meeting of the American Society for Microbiology written by American Society for Microbiology. General Meeting and published by . This book was released on 2007 with total page 852 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Download or read book Environmental Genomics written by C. Cristofre Martin and published by Springer Science & Business Media. This book was released on 2008-01-18 with total page 363 pages. Available in PDF, EPUB and Kindle. Book excerpt: Here is a manual for an environmental scientist who wishes to embrace genomics to answer environmental questions. The volume covers: gene expression profiling, whole genome and chromosome mutation detection, and methods to assay genome diversity and polymorphisms within a particular environment. This book provides a systematic framework for determining environmental impact and ensuring human health and the sustainability of natural populations.

Download or read book Advances in Microbial Physiology written by and published by Academic Press. This book was released on 2019-05-22 with total page 530 pages. Available in PDF, EPUB and Kindle. Book excerpt: Advances in Microbial Physiology, Volume 74, the latest release in this ongoing series, continues the long tradition of topical, important, cutting-edge reviews in microbiology. The book contains updates in the field, with comprehensive chapters covering The electrifying physiology of Geobacter bacteria 30 years on, Adaptive morphogenesis in bacteria, Bacterial energetics and respiratory metabolism, Bacteria respiration during infection, Regulation of Organohalide Respiration, Bioenergetics of Campylobacter jejuni, Formate Hydrogenlyases, Bioenergetical Aspects of the Bacterial and Archaeal Hydrogen Metabolism, and more. Contains contributions from leading authorities in microbial physiology Informs and updates on all the latest developments in the field of microbial physiology

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 Individual Microbe Single Cell Analysis and Agent Based Modelling written by Johan H. J. Leveau and published by Frontiers Media SA. This book was released on 2019-02-19 with total page 187 pages. Available in PDF, EPUB and Kindle. Book excerpt: Recent technological advances in single-cell microbiology, using flow cytometry, microfluidics, x-ray fluorescence microprobes, and single-cell -omics, allow for the observation of individuals within populations. Simultaneously, individual-based models (or more generally agent-based models) allow for individual microbes to be simulated. Bridging these techniques forms the foundation of individual-based ecology of microbes (µIBE). µIBE has elucidated genetic and phenotypic heterogeneity that has important consequences for a number of human interests, including antibiotic or biocide resistance, the productivity and stability of industrial fermentations, the efficacy of food preservatives, and the potential of pathogens to cause disease. Individual-based models can help us to understand how these sets of traits of individual microbes influence the above. This eBook compiles all publications from a recent Research Topic in Frontiers in Microbiology. It features recent research where individual observational and/or modelling techniques are applied to gain unique insights into the ecology of microorganisms. The Research Topic “The Individual Microbe: Single-Cell Analysis and Agent-Based Modelling” arose from the 2016 @ASM conference of the same name hosted by the American Society for Microbiology at its headquarters in Washington, D.C. We are grateful to ASM for funding and hosting this conference.

Download or read book Applied Microbiology and Molecular Biology in Oilfield Systems written by Corinne Whitby and published by Springer Science & Business Media. This book was released on 2010-10-13 with total page 273 pages. Available in PDF, EPUB and Kindle. Book excerpt: Applied Microbiology and Molecular Biology in Oil Field Systems addresses the major problems microbes cause in oil fields, (e.g. biocorrosion and souring) and how beneficial microbial activities may be exploited (e.g. MEOR and biofuels). The book describes theoretical and practical approaches to specific Molecular Microbiological Methods (MMM), and is written by leading authorities in the field from both academia and industry. The book describes how MMM can be applied to faciliate better management of oil reservoirs and downstream processes. The book is innovative in that it utilises real industrial case studies which gives useful technical and scientific information to researchers, engineers and microbiologists working with oil, gas and petroleum systems.

Download or read book The Prokaryotes written by Edward F. DeLong and published by Springer. This book was released on 2014-10-13 with total page 567 pages. Available in PDF, EPUB and Kindle. Book excerpt: The Prokaryotes is a comprehensive, multi-authored, peer reviewed reference work on Bacteria and Achaea. This fourth edition of The Prokaryotes is organized to cover all taxonomic diversity, using the family level to delineate chapters. Different from other resources, this new Springer product includes not only taxonomy, but also prokaryotic biology and technology of taxa in a broad context. Technological aspects highlight the usefulness of prokaryotes in processes and products, including biocontrol agents and as genetics tools. The content of the expanded fourth edition is divided into two parts: Part 1 contains review chapters dealing with the most important general concepts in molecular, applied and general prokaryote biology; Part 2 describes the known properties of specific taxonomic groups. Two completely new sections have been added to Part 1: bacterial communities and human bacteriology. The bacterial communities section reflects the growing realization that studies on pure cultures of bacteria have led to an incomplete picture of the microbial world for two fundamental reasons: the vast majority of bacteria in soil, water and associated with biological tissues are currently not culturable, and that an understanding of microbial ecology requires knowledge on how different bacterial species interact with each other in their natural environment. The new section on human microbiology deals with bacteria associated with healthy humans and bacterial pathogenesis. Each of the major human diseases caused by bacteria is reviewed, from identifying the pathogens by classical clinical and non-culturing techniques to the biochemical mechanisms of the disease process. The 4th edition of The Prokaryotes is the most complete resource on the biology of prokaryotes. The following volumes are published consecutively within the 4th Edition: Prokaryotic Biology and Symbiotic Associations Prokaryotic Communities and Ecophysiology Prokaryotic Physiology and Biochemistry Applied Bacteriology and Biotechnology Human Microbiology Actinobacteria Firmicutes Alphaproteobacteria and Betaproteobacteria Gammaproteobacteria Deltaproteobacteria and Epsilonproteobacteria Other Major Lineages of Bacteria and the Archaea

Download or read book Bergey s Manual of Systematic Bacteriology written by David R. Boone and published by Springer Science & Business Media. This book was released on 2012-01-13 with total page 717 pages. Available in PDF, EPUB and Kindle. Book excerpt: Bacteriologists from all levels of expertise and within all specialties rely on this Manual as one of the most comprehensive and authoritative works. Since publication of the first edition of the Systematics, the field has undergone revolutionary changes, leading to a phylogenetic classification of prokaryotes based on sequencing of the small ribosomal subunit. The list of validly named species has more than doubled since publication of the first edition, and descriptions of over 2000 new and realigned species are included in this new edition along with more in-depth ecological information about individual taxa and extensive introductory essays by leading authorities in the field.

Download or read book Microorganisms in Environmental Management written by T. Satyanarayana and published by Springer Science & Business Media. This book was released on 2012-01-02 with total page 827 pages. Available in PDF, EPUB and Kindle. Book excerpt: Microbes and their biosynthetic capabilities have been invaluable in finding solutions for several intractable problems mankind has encountered in maintaining the quality of the environment. They have, for example, been used to positive effect in human and animal health, genetic engineering, environmental protection, and municipal and industrial waste treatment. Microorganisms have enabled feasible and cost-effective responses which would have been impossible via straightforward chemical or physical engineering methods. Microbial technologies have of late been applied to a range of environmental problems, with considerable success. This survey of recent scientific progress in usefully applying microbes to both environmental management and biotechnology is informed by acknowledgement of the polluting effects on the world around us of soil erosion, the unwanted migration of sediments, chemical fertilizers and pesticides, and the improper treatment of human and animal wastes. These harmful phenomena have resulted in serious environmental and social problems around the world, problems which require us to look for solutions elsewhere than in established physical and chemical technologies. Often the answer lies in hybrid applications in which microbial methods are combined with physical and chemical ones. When we remember that these highly effective microorganisms, cultured for a variety of applications, are but a tiny fraction of those to be found in the world around us, we realize the vastness of the untapped and beneficial potential of microorganisms. At present, comprehending the diversity of hitherto uncultured microbes involves the application of metagenomics, with several novel microbial species having been discovered using culture-independent approaches. Edited by recognized leaders in the field, this penetrating assessment of our progress to date in deploying microorganisms to the advantage of environmental management and biotechnology will be widely welcomed.

Download or read book Desk Encyclopedia of Microbiology written by Moselio Schaechter and published by Academic Press. This book was released on 2010-04-19 with total page 1277 pages. Available in PDF, EPUB and Kindle. Book excerpt: The Desk Encyclopedia of Microbiology, Second Edition is a single-volume comprehensive guide to microbiology for the advanced reader. Derived from the six volume e-only Encyclopedia of Microbiology, Third Edition, it bridges the gap between introductory texts and specialized reviews. Covering topics ranging from the basic science of microbiology to the current "hot" topics in the field, it will be invaluable for obtaining background information on a broad range of microbiological topics, preparing lectures and preparing grant applications and reports. - The most comprehensive single-volume source providing an overview of microbiology to non-specialists - Bridges the gap between introductory texts and specialized reviews - Provides concise and general overviews of important topics within the field making it a helpful resource when preparing for lectures, writing reports, or drafting grant applications

Download or read book Biofilms in Wastewater Treatment written by Stefan Wuertz and published by IWA Publishing. This book was released on 2003-04-30 with total page 425 pages. Available in PDF, EPUB and Kindle. Book excerpt: The central theme of the book is the flow of information from experimental approaches in biofilm research to simulation and modeling of complex wastewater systems. Probably the greatest challenge in wastewater research lies in using the methods and the results obtained in one scientific discipline to design intelligent experiments in other disciplines, and eventually to improve the knowledge base the practitioner needs to run wastewater treatment plants. The purpose of Biofilms in Wastewater Treatment is to provide engineers with the knowledge needed to apply the new insights gained by researchers. The authors provide an authoritative insight into the function of biofilms on a technical and on a lab-scale, cover some of the exciting new basic microbiological and wastewater engineering research involving molecular biology techniques and microscopy, and discuss recent attempts to predict the development of biofilms. This book is divided into 3 sections: Modeling and Simulation; Architecture, Population Structure and Function; and From Fundamentals to Practical Application, which all start with a scientific question. Individual chapters attempt to answer the question and present different angles of looking at problems. In addition there is an extensive glossary to familiarize the non-expert with unfamiliar terminology used by microbiologists and computational scientists. The colour plate section of this book can be downloaded by clicking here. (PDF Format 1 MB)

Download or read book Molecular Identification Systematics and Population Structure of Prokaryotes written by Erko Stackebrandt and published by Springer. This book was released on 2013-01-02 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Systematic biology has a far wider application than merely the provision of a reliable classification scheme for new strains. With the framework of the hierarchic system stabilizing, genomes, noncoding regions, and genes and their products can now be evaluated in an evolutionary context. This book summarizes recent developments in the molecular characterization of cultured and as-yet uncultured prokaryotes, emphasizing the strengths and weaknesses of individual approaches. The chapters of the book are compiled to stimulate students to enter the field of bacterial diversity, presenting a broad spectrum of fascinating multifaceted disciplines that illuminate the paths to ecosystem functioning, communication within communities, symbiosis, life in extreme environments, astrobiology, and more.

Download or read book Microbial Aggregation written by Calleja and published by CRC Press. This book was released on 2018-05-04 with total page 282 pages. Available in PDF, EPUB and Kindle. Book excerpt: This text covers in detail bacteria and yeasts, including an overall perspective of microbial aggregation as fundamental form and function, which is presented here to include systems still to be treated in detail.

Download or read book Organohalide Respiring Bacteria written by Lorenz Adrian and published by Springer. This book was released on 2016-08-03 with total page 620 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book summarizes the current state of knowledge concerning bacteria that use halogenated organic compounds as respiratory electron acceptors. The discovery of organohalide-respiring bacteria has expanded the range of electron acceptors used for energy conservation, and serves as a prime example of how scientific discoveries are enabling innovative engineering solutions that have transformed remediation practice. Individual chapters provide in-depth background information on the discovery, isolation, phylogeny, biochemistry, genomic features, and ecology of individual organohalide-respiring genera, including Dehalococcoides, Dehalogenimonas, Dehalobacter, Desulfitobacterium and Sulfurospirillum, as well as organohalide-respiring members of the Deltaproteobacteria. The book introduces readers to the fascinating biology of organohalide-respiring bacteria, offering a valuable resource for students, engineers and practitioners alike.

Download or read book Microbiology and Molecular Diagnosis in Pathology written by Audrey Wanger and published by Elsevier. This book was released on 2017-06-13 with total page 312 pages. Available in PDF, EPUB and Kindle. Book excerpt: Microbiology and Molecular Diagnosis in Pathology: A Comprehensive Review for Board Preparation, Certification and Clinical Practice reviews all aspects of microbiology and molecular diagnostics essential to successfully passing the American Board of Pathology exam. This review book will also serve as a first resource for residents who want to become familiar with the diagnostic aspects of microbiology and molecular methods, as well as a refresher course for practicing pathologists. Opening chapters discuss issues of laboratory management, including quality control, biosafety, regulations, and proper handling and reporting of laboratory specimens. Review chapters give a quick overview of specific clinical infections as well as different types of bacteria, viruses, fungal infections, and infections caused by parasites. Following these, coverage focuses on diagnostic tools and specific tests: media for clinical microbiology, specific stains and tests for microbial identifications, susceptibility testing and use of antimicrobial agents, tests for detecting antibodies, antigens, and microbial infections. Two final chapters offer overviews on molecular diagnostics principles and methods as well as the application of molecular diagnostics in clinical practice. - Takes a practical and easy-to-read approach to understanding microbiology at an appropriate level for both board preparation as well as a professional refresher course - Covers all important clinical information found in larger textbooks in a more succinct and easy-to-understand manner - Covers essential concepts in microbiology in such a way that residents, fellows, and clinicians understand the methods and tests without having to become specialists in the field - Offers a quick overview of specific clinical infections as well as different types of bacteria, viruses, fungal infections, and infections caused by parasites