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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.
Advances in geomicrobiology have progressed at an accelerated pace in recent years. Ehrlich's Geomicrobiology, Sixth Edition surveys various aspects of the field, including the microbial role in elemental cycling and in the formation and degradation of minerals and fossil fuels. Unlike the fifth edition, the sixth includes many expert contributors
This book provides a comprehensive summary of research to date in the field of stable iron isotope geochemistry. Since research began in this field 20 years ago, the field has grown to become one of the major research fields in "non-traditional" stable isotope geochemistry. This book reviews all aspects of the field, from low-temperature to high-temperature processes, biological processes, and cosmochemical processes. It provides a detailed history and state-of-the art summary about analytical methods to determine Fe-isotope ratios and discusses analytical and sample prospects.
A solid introduction to stable isotopes that can also be used as an instructive review for more experienced researchers and professionals. The book approaches the use of isotopes from the perspective of ecological and biological research, but its concepts can be applied within other disciplines. A novel, step-by-step spreadsheet modeling approach is also presented for circulating tracers in any ecological system, including any favorite system an ecologist might dream up while sitting at a computer. The author’s humorous and lighthearted style painlessly imparts the principles of isotope ecology. The online material contains color illustrations, spreadsheet models, technical appendices, and problems and answers.
Cyanobacteria have existed for 3.5 billion years, yet they are still the most important photosynthetic organisms on the planet for cycling carbon and nitrogen. The ecosystems where they have key roles range from the warmer oceans to many Antarctic sites. They also include dense nuisance growths in nutrient-rich lakes and nitrogen-fixers which aid the fertility of rice-fields and many soils, especially the biological soil crusts of arid regions. Molecular biology has in recent years provided major advances in our understanding of cyanobacterial ecology. Perhaps for more than any other group of organisms, it is possible to see how the ecology, physiology, biochemistry, ultrastructure and molecular biology interact. This all helps to deal with practical problems such as the control of nuisance blooms and the use of cyanobacterial inocula to manage semi-desert soils. Large-scale culture of several organisms, especially "Spirulina" (Arthrospira), for health food and specialist products is increasingly being expanded for a much wider range of uses. In view of their probable contribution to past oil deposits, much attention is currently focused on their potential as a source of biofuel. Please visit http://extras.springer.com/ to view Extra Materials belonging to this volume. This book complements the highly successful Ecology of Cyanobacteria and integrates the discoveries of the past twelve years with the older literature.
This edited volume is provides an authoritative synthesis of knowledge about the history of life. All the major groups of organisms are treated, by the leading workers in their fields. With sections on: The Importance of Knowing the Tree of Life; The Origin and Radiation of Life on Earth; The Relationships of Green Plants; The Relationships of Fungi; and The Relationships of Animals. This book should prove indispensable for evolutionary biologists, taxonomists, ecologists interested in biodiversity, and as a baseline sourcebook for organismic biologists, botanists, and microbiologists. An essential reference in this fundamental area.
The Sourcebook for Teaching Science is a unique, comprehensive resource designed to give middle and high school science teachers a wealth of information that will enhance any science curriculum. Filled with innovative tools, dynamic activities, and practical lesson plans that are grounded in theory, research, and national standards, the book offers both new and experienced science teachers powerful strategies and original ideas that will enhance the teaching of physics, chemistry, biology, and the earth and space sciences.
This book discusses how aquatic microbial communities develop interactive metabolic coordination both within and between species to optimize their energetics. It explains that microbial community structuration often includes functional stratification among a multitude of organisms that variously exist either suspended in the water, lodged in sediments, or bound to one another as biofilms on solid surfaces. The authors describe techniques that can be used for preparing and distributing microbiologically safe drinking water, which presents the challenge of successfully removing the pathogenic members of the aquatic microbial community and then safely delivering that water to consumers. Drinking water distribution systems have their own microbial ecology, which we must both understand and control in order to maintain the safety of the water supply. Since studying aquatic microorganisms often entails identifying them, the book also discusses techniques for successfully isolating and cultivating bacteria. As such, it appeals to microbiologists, microbial ecologists and water quality scientists.
Today's microorganisms represent the vast majority of biodiversity on Earth and have survived nearly 4 billion years of evolutionary change. However, we still know little about the processes of evolution as applied to microorganisms and microbial populations. Microbial evolution occurred and continues to take place in a vast variety of environmental conditions that range from anoxic to oxic, from hot to cold, from free-living to symbiotic, etc. Some of these physicochemical conditions are considered "extreme", particularly when inhabitants are limited to microorganisms. It is easy to imagine that microbial life in extreme environments is somehow more constrained and perhaps subjected to different evolutionary pressures. But what do we actually know about microbial evolution under extreme conditions and how can we apply that knowledge to other conditions? Appealingly, extreme environments with their relatively limited numbers of inhabitants can serve as good model systems for the study of evolutionary processes. A look at the microbial inhabitants of today's extreme environments provides a snapshot in time of evolution and adaptation to extreme conditions. These adaptations manifest at different levels from established communities and species to genome content and changes in specific genes that result in altered function or gene expression. But as a recent (2011) report from the American Academy of Microbiology observes: "A complex issue in the study of microbial evolution is unraveling the process of evolution from that of adaptation. In many cases, microbes have the capacity to adapt to various environmental changes by changing gene expression or community composition as opposed to having to evolve entirely new capabilities." We have learned much about how microbes are adapted to extreme conditions but relatively little is known about these adaptations evolved. How did the different processes of evolution such as mutation, immigration, horizontal (lateral) gene transfer, recombination, hybridization, genetic drift, fixation, positive and negative selection, and selective screens contribute to the evolution of these genes, genomes, microbial species, communities, and functions? What are typical rates of these processes? How prevalent are each of these processes under different conditions? This book explores the current state of knowledge about microbial evolution under extreme conditions and addresses the following questions: What is known about the processes of microbial evolution (mechanisms, rates, etc.) under extreme conditions? Can this knowledge be applied to other systems and what is the broader relevance? What remains unknown and requires future research? These questions will be addressed from several perspectives including different extreme environments, specific organisms, and specific evolutionary processes.
This volume on iron-sulfur proteins includes chapters that describe the initial discovery of iron-sulfur proteins in the 1960s to elucidation of the roles of iron sulfur clusters as prosthetic groups of enzymes, such as the citric acid cycle enzyme, aconitase, and numerous other proteins, ranging from nitrogenase to DNA repair proteins. The capacity of iron sulfur clusters to accept and delocalize single electrons is explained by basic chemical principles, which illustrate why iron sulfur proteins are uniquely suitable for electron transport and other activities. Techniques used for detection and stabilization of iron-sulfur clusters, including EPR and Mossbauer spectroscopies, are discussed because they are important for characterizing unrecognized and elusive iron sulfur proteins. Recent insights into how nitrogenase works have arisen from multiple advances, described here, including studies of high-resolution crystal structures. Numerous chapters discuss how microbes, plants, and animals synthesize these complex prosthetic groups, and why it is important to understand the chemistry and biogenesis of iron sulfur proteins. In addition to their vital importance in mitochondrial respiration, numerous iron sulfur proteins are important in maintenance of DNA integrity. Multiple rare human diseases with different clinical presentations are caused by mutations of genes in the iron sulfur cluster biogenesis pathway. Understanding iron sulfur proteins is important for understanding a rapidly expanding group of metabolic pathways important in all kingdoms of life, and for understanding processes ranging from nitrogen fixation to human disease.