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Identification And Elucidation Of Mechanisms Involved In Microbial Community Dynamics Using Systems Biology
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Book Synopsis Identification and Elucidation of Mechanisms Involved in Microbial Community Dynamics Using Systems Biology by : Mallory Michelle Leong Embree
Download or read book Identification and Elucidation of Mechanisms Involved in Microbial Community Dynamics Using Systems Biology written by Mallory Michelle Leong Embree and published by . This book was released on 2014 with total page 144 pages. Available in PDF, EPUB and Kindle. Book excerpt: Microbial communities play a key role in the natural environment. However, the study of these communities if often limited by the inability to cultivate individual community members. Although culture-independent meta-level analyses are useful for establishing the basic structure of the community, they often mask the role individual species fulfill within the community, stymieing our ability to understand and thus manipulate the community phenotype. Within this dissertation, microbial communities involved in global carbon cycling are studied from a species-centric perspective. First, the ferric uptake regulator (Fur) is studied in Fe(III)-reducing Geobacter sulfurreducens, a common member of subsurface soil environments. Chromatin immunopreciptation was utilized to establish the genome-wide binding profile of Fur. This dataset coupled with gene expression datasets derived from a variety of iron conditions was used to elucidate the iron stimulon and Fur regulon of G.sulfurreducens. Additional physiological and transcriptional analyses of G. sulfurreducens grown with various Fe(II) concentrations revealed the depth of Fur's involvement in energy metabolism. Next, single cell de novo sequencing and metatranscriptomics was used to reveal the intricate metabolic interactions of a 15-year-old alkane-degrading methanogenic consortium. The methanogenic consortium oxidizes saturated hydrocarbons under anoxic conditions through a thus far unknown biochemical process. The genome sequence of a dominant bacterial member belonging to the family of Syntrophace was sequenced and served as the basis for metabolic reconstruction. Metatranscriptomic data highlighted metabolically active genes of this bacterium. Subsequent genome analysis assisted in the identification of critical genes and pathways involved in anaerobic alkane metabolism. When perturbed by butyric or caprylic acid, the species composition of the alkane-degrading community shifts to accommodate the change. Although some species persist and remain active despite the shift, major ecological succession by these dormant microbes leads to a new, stable community optimized to digest the newly added substrate. The final chapter of this thesis describes the study of these poorly characterized genera from the species perspective using metagenomic binning, metatranscriptomics, and metabolic modeling. Subsequent community analysis revealed that energetic requirements, amino acid auxotrophies, and strategic antimicrobial usage all contribute to the robustness of the community. Collectively, these results suggest that the multidimensional interactions utilized by natural communities bolster their stability during environmental perturbation and promote the maintenance of high species richness.
Book Synopsis Promise and Challenges in Systems Microbiology by : National Research Council
Download or read book Promise and Challenges in Systems Microbiology written by National Research Council and published by National Academies Press. This book was released on 2004-04-04 with total page 48 pages. Available in PDF, EPUB and Kindle. Book excerpt: Microbiologists have become interested in applying "systems biology" to understand and harness complex biological processes in microbial communities. A systems approach, which attempts to use comparative, high-throughput assays, and mathematical or computational models, has been used to generate a picture of system-wide activity that can yield insight into processes operating within a single cell. But the concept of integrating advances in genomics, proteomics, and metabolomics and incorporating them into mathematical models can also be applied to microbial ecosystems, which typically occur in consortia of related and unrelated organisms. Research on microbial communities using a system-based approach could provide a broader perspective on controls on biological processes and how they operate in and among microorganisms. The National Academies of Sciences, Engineering, and Medicine held a workshop on "Progress and Promises of Systems Microbiology" in August 2003, with the intent of providing a forum for discussion of the tools, technology, and programs that are needed to advance the study of microorganisms through a systems approach. Participants also discussed ways to encourage collaboration among scientists of different disciplines. This report summarizes the presentations and discussions from the workshop.
Book Synopsis Microbes in Land Use Change Management by : Jay Shankar Singh
Download or read book Microbes in Land Use Change Management written by Jay Shankar Singh and published by Elsevier. This book was released on 2021-08-20 with total page 611 pages. Available in PDF, EPUB and Kindle. Book excerpt: Microbes in Land Use Change Management details the various roles of microbial resources in management of land uses and how the microbes can be used for the source of income due to their cultivation for the purpose of biomass and bioenergy production. Using various techniques, the disturbed and marginal lands may also be restored eco-friendly in present era to fulfil the feeding needs of mankind around the globe. Microbes in Land Use Change Management provides standard and up to date information towards the land use change management using various microbial technologies to enhance the productivity of agriculture. Needless to say that Microbes in Land Use Change Management also considers the areas including generation of alternative energy sources, restoration of degraded and marginal lands, mitigation of global warming gases and next generation -omics technique etc. Land use change affects environment conditions and soil microbial community. Microbial population and its species diversity have influence in maintaining ecosystem balance. The study of changes of microbial population provides an idea about the variation occurring in a specific area and possibilities of restoration. Meant for a multidisciplinary audience Microbes in Land Use Change Management shows the need of next-generation omics technologies to explore microbial diversity. Describes the role of microbes in generation of alternative source of energy Gives recent information related to various microbial technology and their diversified applications Provides thorough insight in the problems related to landscape dynamics, restoration of soil, reclamation of lands mitigation of global warming gases etc. eco-friendly way using versatility of microbes Includes microbial tools and technology in reclamation of degraded, disturbed and marginal lands, mitigation of global warming gases
Download or read book DOE Genomics written by and published by . This book was released on 2005 with total page 320 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Beyond Conventional Models: Expanding Experimental Systems for Animal-Microbiome Interaction Research by : Henning Seedorf
Download or read book Beyond Conventional Models: Expanding Experimental Systems for Animal-Microbiome Interaction Research written by Henning Seedorf and published by Frontiers Media SA. This book was released on 2022-10-21 with total page 204 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Author :Paul E. Kolenbrander Publisher :American Society for Microbiology Press ISBN 13 :1555815030 Total Pages :617 pages Book Rating :4.5/5 (558 download)
Book Synopsis Oral Microbial Communities by : Paul E. Kolenbrander
Download or read book Oral Microbial Communities written by Paul E. Kolenbrander and published by American Society for Microbiology Press. This book was released on 2011-08-02 with total page 617 pages. Available in PDF, EPUB and Kindle. Book excerpt: Understand how the intricacies of multispecies community life are related to human oral health. * Explores the immense opportunities presented by readily accessible, genetically tractable, genome-sequenced oral species that naturally form multispecies communities. * Highlights model systems that study oral bacterial interactions, including biofilm growth using saliva as the source of nutrition. * Emphasizes the use of genomic inquiry to probe the human oral microbiome.
Book Synopsis Aquatic Microbial Communities by : John Cairns
Download or read book Aquatic Microbial Communities written by John Cairns and published by . This book was released on 1977 with total page 720 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Author :National Academies of Sciences, Engineering, and Medicine Publisher :National Academies Press ISBN 13 :0309449839 Total Pages :318 pages Book Rating :4.3/5 (94 download)
Book Synopsis Microbiomes of the Built Environment by : National Academies of Sciences, Engineering, and Medicine
Download or read book Microbiomes of the Built Environment written by National Academies of Sciences, Engineering, and Medicine and published by National Academies Press. This book was released on 2017-10-06 with total page 318 pages. Available in PDF, EPUB and Kindle. Book excerpt: People's desire to understand the environments in which they live is a natural one. People spend most of their time in spaces and structures designed, built, and managed by humans, and it is estimated that people in developed countries now spend 90 percent of their lives indoors. As people move from homes to workplaces, traveling in cars and on transit systems, microorganisms are continually with and around them. The human-associated microbes that are shed, along with the human behaviors that affect their transport and removal, make significant contributions to the diversity of the indoor microbiome. The characteristics of "healthy" indoor environments cannot yet be defined, nor do microbial, clinical, and building researchers yet understand how to modify features of indoor environmentsâ€"such as building ventilation systems and the chemistry of building materialsâ€"in ways that would have predictable impacts on microbial communities to promote health and prevent disease. The factors that affect the environments within buildings, the ways in which building characteristics influence the composition and function of indoor microbial communities, and the ways in which these microbial communities relate to human health and well-being are extraordinarily complex and can be explored only as a dynamic, interconnected ecosystem by engaging the fields of microbial biology and ecology, chemistry, building science, and human physiology. This report reviews what is known about the intersection of these disciplines, and how new tools may facilitate advances in understanding the ecosystem of built environments, indoor microbiomes, and effects on human health and well-being. It offers a research agenda to generate the information needed so that stakeholders with an interest in understanding the impacts of built environments will be able to make more informed decisions.
Book Synopsis Control Theory and Systems Biology by : Pablo A. Iglesias
Download or read book Control Theory and Systems Biology written by Pablo A. Iglesias and published by MIT Press. This book was released on 2010 with total page 359 pages. Available in PDF, EPUB and Kindle. Book excerpt: A survey of how engineering techniques from control and systems theory can be used to help biologists understand the behavior of cellular systems.
Book Synopsis CRISPR-Cas Systems by : Rodolphe Barrangou
Download or read book CRISPR-Cas Systems written by Rodolphe Barrangou and published by Springer Science & Business Media. This book was released on 2012-12-13 with total page 300 pages. Available in PDF, EPUB and Kindle. Book excerpt: CRISPR/Cas is a recently described defense system that protects bacteria and archaea against invasion by mobile genetic elements such as viruses and plasmids. A wide spectrum of distinct CRISPR/Cas systems has been identified in at least half of the available prokaryotic genomes. On-going structural and functional analyses have resulted in a far greater insight into the functions and possible applications of these systems, although many secrets remain to be discovered. In this book, experts summarize the state of the art in this exciting field.
Book Synopsis (Endo)symbiotic Methanogenic Archaea by : Johannes H. P. Hackstein
Download or read book (Endo)symbiotic Methanogenic Archaea written by Johannes H. P. Hackstein and published by Springer. This book was released on 2018-11-22 with total page 261 pages. Available in PDF, EPUB and Kindle. Book excerpt: This updated monograph deals with methanogenic endosymbionts of anaerobic protists, in particular ciliates and termite flagellates, and with methanogens in the gastrointestinal tracts of vertebrates and arthropods. Further chapters discuss the genomic consequences of living together in symbiotic associations, the role of methanogens in syntrophic degradation, and the function and evolution of hydrogenosomes, hydrogen-producing organelles of certain anaerobic protists. Methanogens are prokaryotic microorganisms that produce methane as an end-product of a complex biochemical pathway. They are strictly anaerobic archaea and occupy a wide variety of anoxic environments. Methanogens also thrive in the cytoplasm of anaerobic unicellular eukaryotes and in the gastrointestinal tracts of animals and humans. The symbiotic methanogens in the gastrointestinal tracts of ruminants and other “methanogenic” mammals contribute significantly to the global methane budget; especially the rumen hosts an impressive diversity of methanogens. This makes this updated volume an interesting read for scientists and students in Microbiology and Physiology.
Book Synopsis Measuring Biological Diversity by : Anne E. Magurran
Download or read book Measuring Biological Diversity written by Anne E. Magurran and published by John Wiley & Sons. This book was released on 2013-04-18 with total page 274 pages. Available in PDF, EPUB and Kindle. Book excerpt: This accessible and timely book provides a comprehensive overview of how to measure biodiversity. The book highlights new developments, including innovative approaches to measuring taxonomic distinctness and estimating species richness, and evaluates these alongside traditional methods such as species abundance distributions, and diversity and evenness statistics. Helps the reader quantify and interpret patterns of ecological diversity, focusing on the measurement and estimation of species richness and abundance. Explores the concept of ecological diversity, bringing new perspectives to a field beset by contradictory views and advice. Discussion spans issues such as the meaning of community in the context of ecological diversity, scales of diversity and distribution of diversity among taxa Highlights advances in measurement paying particular attention to new techniques such as species richness estimation, application of measures of diversity to conservation and environmental management and addressing sampling issues Includes worked examples of key methods in helping people to understand the techniques and use available computer packages more effectively
Book Synopsis Advances in Soil Microbiology: Recent Trends and Future Prospects by : Tapan Kumar Adhya
Download or read book Advances in Soil Microbiology: Recent Trends and Future Prospects written by Tapan Kumar Adhya and published by Springer. This book was released on 2018-02-28 with total page 208 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents a comprehensive collection of articles illustrating the importance of microbial community structure and function for ecosystem sustainability and environmental reclamation. It addresses a diverse range of topics, including microbial diversity, physiology, genomics, ecosystem function, interaction, metabolism, and the fruitful use of microbial communities for crop productivity and environmental remediation. In addition, the book explores issues ranging from general concepts on the diversity of microorganisms in soil, and ecosystem function to the evolution and taxonomy of soil microbiota, with future prospects. It covers cutting-edge methods in soil microbial ecological studies, rhizosphere microflora, the role of organic matter in plant productivity, biological nitrogen fixation and its genetics, microbial transformation of plant nutrients in soil, plant-growth-promoting rhizobacteria, and organic matter transformation. The book also discusses the application of microbes in biodegradation of xenobiotic contaminants. It covers bio-fertilizers and their role in sustainable agriculture and soil health, biological control of insect pests and plant pathogens, and the latest tools of omics in soil microbiology, i.e. genomics, proteomics, transcriptomics and metabolomics, which offer pioneering approaches to the exploration of microbial structure and function.
Book Synopsis Advanced Biological Processes for Wastewater Treatment by : Márcia Dezotti
Download or read book Advanced Biological Processes for Wastewater Treatment written by Márcia Dezotti and published by Springer. This book was released on 2017-09-12 with total page 301 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents recent developments in advanced biological treatment technologies that are attracting increasing attention or that have a high potential for large-scale application in the near future. It also explores the fundamental principles as well as the applicability of the engineered bioreactors in detail. It describes two of the emerging technologies: membrane bioreactors (MBR) and moving bed biofilm reactors (MBBR), both of which are finding increasing application worldwide thanks to their compactness and high efficiency. It also includes a chapter dedicated to aerobic granular sludge (AGS) technology, and discusses the main features and applications of this promising process, which can simultaneously remove organic matter, nitrogen and phosphorus and is considered a breakthrough in biological wastewater treatment. Given the importance of removing nitrogen compounds from wastewater, the latest advances in this area, including new processes for nitrogen removal (e.g. Anammox), are also reviewed. Developments in molecular biology techniques over the last twenty years provide insights into the complex microbial diversity found in biological treatment systems. The final chapter discusses these techniques in detail and presents the state-of-the-art in this field and the opportunities these techniques offer to improve process performance.
Book Synopsis Synthetic Biology 2020: Frontiers in Risk Analysis and Governance by : Benjamin D. Trump
Download or read book Synthetic Biology 2020: Frontiers in Risk Analysis and Governance written by Benjamin D. Trump and published by Springer Nature. This book was released on 2019-11-28 with total page 421 pages. Available in PDF, EPUB and Kindle. Book excerpt: Synthetic biology offers powerful remedies for some of the world’s most intractable problems, but these solutions are clouded by uncertainty and risk that few strategies are available to address. The incentives for continued development of this emerging technology are prodigious and obvious, and the public deserves assurances that all potential downsides are duly considered and minimized accordingly. Incorporating social science analysis within the innovation process may impose constraints, but its simultaneous support in making the end products more acceptable to society at large should be considered a worthy trade-off. Contributing authors in this volume represent diverse perspectives related to synthetic biology’s social sciences, and reflect on different areas of risk analysis and governance that have developed for the field. Such perspectives include leading scholarly discussion pertaining to risk assessment, governance, ethics, and communication. The chapters of this volume note that while the first twenty years of synthetic biology development have focused strongly on technological innovation and product development, the next twenty should emphasize the synergy between developers, policymakers, and publics to generate the most beneficial, well governed, and transparent technologies and products possible. Many chapters in this volume provide new data and approaches that demonstrate the feasibility for multi-stakeholder efforts involving policymakers, regulators, industrial developers, workers, experts, and societal representatives to share responsibilities in the production of effective and acceptable governance in the face of uncertain risk probabilities. A full consideration of such perspectives may prevent a world of draconian regulations based on an insufficient or incomplete understanding of the science that underpins synthetic biology, as well as any hesitancy or fear by the public to adopt its eventual products.
Book Synopsis Chemistry and Biochemistry of B12 by : Ruma Banerjee
Download or read book Chemistry and Biochemistry of B12 written by Ruma Banerjee and published by John Wiley & Sons. This book was released on 1999-11-03 with total page 960 pages. Available in PDF, EPUB and Kindle. Book excerpt: A Definitive New Reference for the Latest Advances in B_12 Chemistry and Biochemistry Over the past decade, the field of B_12 research has been revolutionized by such major breakthroughs as the unraveling of the entire biosynthetic pathway for this important vitamin. This comprehensive compendium surveys the wealth of information that has accumulated, covering in one volume virtually all aspects of the field-from physical and inorganic chemistry to enzymology, microbiology, medicine, and diagnostic and therapeutic applications. Edited by Dr. Ruma Banerjee, a highly respected and active member of the B_12 community, this work provides B_12 researchers with a dependable and up-to-date reference on the subject. Leading authorities from five continents explore such new areas as the structural biology of B_12-dependent enzymes, free-radical-mediated reaction mechanisms, biosynthesis, and much more. The role of B_12 in nutrition and disease, and B_12 transport, are also thoroughly examined. Complete with color illustrations and extensive references, Chemistry and Biochemistry of B_12 is a one-of-a-kind resource for biochemists, biophysicists, spectroscopists, microbiologists, molecular biologists, and anyone with an interest in "nature's most beautiful cofactor."
Book Synopsis Metabolomics, Proteomics and Gene Editing Approaches in Biofertilizer Industry by : Sukhminderjit Kaur
Download or read book Metabolomics, Proteomics and Gene Editing Approaches in Biofertilizer Industry written by Sukhminderjit Kaur and published by Springer Nature. This book was released on with total page 372 pages. Available in PDF, EPUB and Kindle. Book excerpt:
