Download or read book Phylogenetic and Metabolic Diversity of Microbial Communities Inhabiting Deep sea Hydrothermal Ecosystems written by Elizabeth McCliment and published by ProQuest. This book was released on 2007 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt:

Download or read book Hydrothermal microbial ecosystems written by Andreas Teske and published by Frontiers Media SA. This book was released on 2015-11-24 with total page 286 pages. Available in PDF, EPUB and Kindle. Book excerpt: The papers in the "Hydrothermal Vent" e-book cover a range of microbiological research in deep and shallow hydrothermal environments, from high temperature “black smokers,” to diffuse flow habitats and episodically discharging subsurface fluids, to the hydrothermal plumes. Together they provide a snapshot of current research interests in a field that has evolved rapidly since the discovery of hydrothermal vents in 1977. Hydrothermally influenced microbial habitats and communities represent a wide spectrum of geological setting, chemical in-situ regimes, and biotic communities; the classical examples of basalt-hosted black smoker chimneys at active mid-ocean spreading centers have been augmented by hydrothermally heated and chemically altered sediments, microbiota fueled by serpentinization reactions, and low-temperature vents with unusual menus of electron donors. Environmental gradients and niches provide habitats for unusual or unprecedented microorganisms and microbial ecosystems. The discovery of novel extremophiles underscores untapped microbial diversity in hydrothermal vent microbial communities. Different stages of hydrothermal activity, from early onset to peak activity, gradual decline, and persistence of cold and fossil vent sites, correspond to different colonization waves by microorganisms as well as megafauna. Perhaps no other field in microbiology is so intertwined with the geological and geochemical evolution of the oceans, and promises so many biochemical and physiological discoveries still to be made within the unexhausted richness of extreme microbial life.

Download or read book Microbial Ecology of Active Marine Hydrothermal Vent Deposits written by Gilberto Eugene Flores and published by . This book was released on 2011 with total page 178 pages. Available in PDF, EPUB and Kindle. Book excerpt: The discovery of deep-sea hydrothermal vents in 1977 revealed an ecosystem supported by chemosynthesis with a rich diversity of invertebrates, Archaea and Bacteria. While the invertebrate vent communities are largely composed of endemic species and exist in different biogeographical provinces, the possible factors influencing the distribution patterns of free-living Archaea and Bacteria are still being explored. In particular, how differences in the geologic setting of vent fields influence microbial communities and populations associated with active vent deposits remains largely unknown. The overall goal of the studies presented in this dissertation was to examine the links between the geologic setting of hydrothermal vent fields and microorganisms associated with actively venting mineral deposits at two levels of biological organization. At the community level, bar-coded pyrosequencing of a segment of the archaeal and bacterial 16S rRNA gene was employed to characterize and compare the microbial communities associated with numerous deposits from several geochemically different vent fields. Results from these studies suggest that factors influencing end-member fluid chemistry, such as host-rock composition and degassing of magmatic volatiles, help to structure the microbial communities at the vent field scale. At the population level, targeted cultivation-dependent and -independent studies were conducted in order to expand our understanding of thermoacidophily in diverse hydrothermal environments. Results of these studies expanded the phylogenetic and physiological diversity of thermoacidophiles in deep-sea vent environments and provided clues to factors that are influencing the biogeography of an important thermoacidophilic archaeal lineage. Overall, these studies have increased our understanding of the interplay between geologic processes and microorganisms in deep-sea hydrothermal environments.

Download or read book The Social Biology of Microbial Communities written by Institute of Medicine and published by National Academies Press. This book was released on 2012-12-10 with total page 633 pages. Available in PDF, EPUB and Kindle. Book excerpt: Beginning with the germ theory of disease in the 19th century and extending through most of the 20th century, microbes were believed to live their lives as solitary, unicellular, disease-causing organisms . This perception stemmed from the focus of most investigators on organisms that could be grown in the laboratory as cellular monocultures, often dispersed in liquid, and under ambient conditions of temperature, lighting, and humidity. Most such inquiries were designed to identify microbial pathogens by satisfying Koch's postulates.3 This pathogen-centric approach to the study of microorganisms produced a metaphorical "war" against these microbial invaders waged with antibiotic therapies, while simultaneously obscuring the dynamic relationships that exist among and between host organisms and their associated microorganisms-only a tiny fraction of which act as pathogens. Despite their obvious importance, very little is actually known about the processes and factors that influence the assembly, function, and stability of microbial communities. Gaining this knowledge will require a seismic shift away from the study of individual microbes in isolation to inquiries into the nature of diverse and often complex microbial communities, the forces that shape them, and their relationships with other communities and organisms, including their multicellular hosts. On March 6 and 7, 2012, the Institute of Medicine's (IOM's) Forum on Microbial Threats hosted a public workshop to explore the emerging science of the "social biology" of microbial communities. Workshop presentations and discussions embraced a wide spectrum of topics, experimental systems, and theoretical perspectives representative of the current, multifaceted exploration of the microbial frontier. Participants discussed ecological, evolutionary, and genetic factors contributing to the assembly, function, and stability of microbial communities; how microbial communities adapt and respond to environmental stimuli; theoretical and experimental approaches to advance this nascent field; and potential applications of knowledge gained from the study of microbial communities for the improvement of human, animal, plant, and ecosystem health and toward a deeper understanding of microbial diversity and evolution. The Social Biology of Microbial Communities: Workshop Summary further explains the happenings of the workshop.

Download or read book Microbial Diversity Metabolic Potential and Transcriptional Activity Along the Inner Continental Shelf of the Northeast Pacific Ocean written by Anthony D. Bertagnolli and published by . This book was released on 2012 with total page 127 pages. Available in PDF, EPUB and Kindle. Book excerpt: Continental shelves located along eastern boundary currents occupy relatively small volumes of the world's oceans, yet are responsible for a large proportion of global primary production. The Oregon coast is among these ecosystems. Recent analyses of dissolved oxygen at shallow depths in the water column has suggested increasing episodes of hypoxia and anoxia, events that are detrimental to larger macro-faunal species. Microbial communities, however, are metabolically diverse, capable of utilizing alternative electron donors and acceptors, and can withstand transient periods of low dissolved oxygen. Understanding the phylogenetic and metabolic diversity of microorganisms in these environments is important for assessing the impact hypoxic events have on local and global biogeochemistry. Several molecular ecology tools were used to answer questions about the distribution patterns and activities of microorganisms residing along the coast of Oregon in this dissertation. Ribosomal rRNA fingerprinting and sequence analyses of samples collected during 2007-2008 suggested that bacterial community structure was not substantially influenced by changes in dissolved oxygen. However, substantial depth dependent changes were observed, with samples collected in the bottom boundary layer (BBL) displaying significant differences from those collected in the surface layer. Phylogenetic analyses of bacterial rRNA genes revealed novel phylotypes associated with this area of the water column, including groups with close evolutionary relationships to putative or characterized sulfur oxidizing bacteria (SOB). Analysis of metagenomes and metatranscriptomes collected during 2009 suggested increasing abundances of chemolithoautrophic organisms and their activities in the BBL. Thaumarchaea displayed significant depth dependent increases during the summer, and were detected at maximal frequencies during periods of hypoxia, suggesting that nitrification maybe influenced by local changes in dissolved oxygen. Metagenomic analysis of samples collected from 2010 revealed substantial variability in the metabolic potential of the microbial communities from different water masses. Samples collected during the spring, prior to upwelling clustered independently of those collected during the summer, during a period of upwelling, and did not display any clear stratification. Samples collected during the summer did cluster based on depth, consistent with previous observations, and increases in the relative abundances of chemolithotrophic gene suites were observed in the BBL during stratified conditions, suggesting that the metabolic potential for these processes is a repeatable feature along the Oregon coast. Overall, these observations suggest that depth impacts microbial community diversity, metabolic potential, and transcriptional activity in shallow areas of the Northeast Pacific Ocean. The increase in lithotrophic genes and transcripts in the BBL suggests that this microbial community includes many organisms that are able to use inorganic electron donors for respiration. We speculate that the dissolved organic material in the BBL is semi-labile and not available for immediate oxidation, favoring the growth for microorganisms that are able to use alternative electron donors.

Download or read book The Microbiology of Deep Sea Hydrothermal Vents written by David M. Karl and published by Springer. This book was released on 1995-07-14 with total page 328 pages. Available in PDF, EPUB and Kindle. Book excerpt: The Microbiology of Deep-Sea Hydrothermal Vents is the first comprehensive treatment of the microbiology of these unusual deep-sea ecosystems. It includes information on microbial biodiversity, ecology, physiology, and the origin of life. It is the first volume available on the subject. All chapters are written by leaders in their respective fields who have made substantial contributions to the current understanding of these novel deep-sea habitats. Much of the book's material is entirely new and forward looking. Individual chapters examine the geologic setting and chemistry of deep-sea hydrothermal vents, growth at high temperatures, microbe-metal interactions and mineral deposition, stable isotopes, and more. This reference presents a unique interdisciplinary approach to the study of hydrothermal vents. Because of its thorough coverage of the subject, the book will continue to be a valuable resource for researchers in this field for the next decade.

Download or read book Phylogenetic and Physiological Diversity of Subseafloor Microbial Communities at Deep sea Seamounts written by Julie A. Huber and published by . This book was released on 2004 with total page 328 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Download or read book Environmental Metagenomics to Assess Microbial Community Diversity in the Deep sea Using 16S RDNA Amplification written by Mandy Hyun-Joo Kim and published by . This book was released on 2005 with total page 94 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Download or read book Physiology and Molecular Ecology of Chemolithoautotrophic Nitrate Reducing Bacteria at Deep Sea Hydrothermal Vents written by and published by . This book was released on 2007 with total page 115 pages. Available in PDF, EPUB and Kindle. Book excerpt: At hydrothermal vent systems, the ability of microorganisms to use sulfur containing compounds for metabolic purposes has been long established while little is known regarding nitrogen metabolism. The objective of this thesis was to gain a better understanding of how microorganisms are involved in the cycling of nitrogen at deep sea hydrothermal vents through culture dependent and independent methods, isolation of novel nitrate reducing microorganisms, and phylogenetic surveys (16S rRNA gene, citrate lyase (aclA and aclB), and periplasmic nitrate reductase (napA)) of isolates and environmental samples. Sulfide, fluid, and bacterial filament samples from three separate hydrothermal vent sites (Rainbow, Logatchev, and Broken Spur) along the Mid Atlantic Ridge (MAR) and from 9° N on the East Pacific Rise (EPR) were used for isolation and phylogenetic surveys. Several novel autotrophic nitrate ammonifying bacterial strains belonging to the Epsilonproteobacteria were isolated with strain TB2 described as a new species, Caminibacter mediatlanticus. Phylogenetic surveys of the 16S rRNA gene, aclB, and napA showed the dominance of C. mediatlanticus related organisms at the Rainbow hydrothermal vent system indicating that we had successfully isolated an environmentally relevant organism. The environmental survey for napA was the first to be completed for deep sea hydrothermal vents. The phylogenetic survey of napA in reference organisms and environmental samples indicated that there is a wide diversity of Epsilonproteobacterial related sequences present at hydrothermal vents, with the greatest diversity seen within the mesophilic temperature range. It also appears that the periplasmic nitrate reductase gene (napA) is possibly being laterally transferred between members among the Epsilonproteobacteria.

Download or read book Geomicrobiology of the Ocean Crust The Phylogenetic Diversity Abundance and Distribution of Microbial Communities Inhabiting Basalt and Implications for Rock Alteration Processes written by and published by . This book was released on 2007 with total page 220 pages. Available in PDF, EPUB and Kindle. Book excerpt: Basaltic ocean crust has the potential to host one of the largest endolithic communities on Earth. This portion of the biosphere, however, remains largely unexplored. In this study, we utilize molecular biological, microscopic, and geochemical tools to gain a better understanding of the geomicrobiology of the ocean crust. Specifically, we examine the phylogenetic diversity of microorganisms inhabiting basaltic lavas, the activities and abundances of these microorganisms, the spatial extent of the biosphere, and the potential effect that microbial activity has on the geochemistry of the ocean crust and overlying water column. Our study demonstrates that young, fresh volcanic lavas near mid-ocean ridges host an incredibly diverse and dense population of microorganisms dominated by Bacteria, quite distinct from the microbial communities found in surrounding deep seawater and hydrothermal vents. Furthermore, these communities may contribute to the elemental cycling of Fe, S, Mn, N, and C in this environment. The inability to definitively identify microorganisms in drill-cores of old (> 15 Ma) ocean crust, however, implies that these once prolific communities may become scarce as the crust ages and moves further away from the ridge axis. Finally, we provide evidence suggesting that these communities are fueled by oxidative alteration reactions occurring in the basaltic crust.

Download or read book Integrated omics Study of Deep sea Microbial Community and New Pseudoalteromonas Isolate written by Jieying Wu and published by . This book was released on 2013 with total page 169 pages. Available in PDF, EPUB and Kindle. Book excerpt: This thesis research focuses on phylogenetic and functional studies of microbial communities in deep-sea water, an untapped reservoir of high metabolic and genetic diversity of microorganisms. The presence of photosynthetic cyanobacteria and diatoms is an interesting and unexpected discovery during a 16S ribosomal rRNA-based community structure analyses for microbial communities in the deep-sea water of the Pacific Ocean. Both RT-PCR and qRT-PCR approaches were employed to detect expression of the genes involved in photosynthesis of photoautotrophic organisms. Positive results were obtained and further proved the functional activity of these detected photosynthetic microbes in the deep-sea. Metagenomic and metatranscriptomic data was obtained, integrated, and analyzed from deep-sea microbial communities, including both prokaryotes and eukaryotes, from four different deep-sea sites ranging from the mesopelagic to the pelagic ocean. The RNA/DNA ratio was employed as an index to show the strength of metabolic activity of deep-sea microbes. These taxonomic and functional analyses of deep-sea microbial communities revealed a `defensive' life style of microbial communities living in the deep-sea water. Pseudoalteromonas sp. WG07 was subjected to transcriptomic analysis by application of RNA-Seq technology through the transcriptomic annotation using the genomes of closely related surface-water strain Pseudoalteromonas haloplanktis TAC125 and sediment strain Pseudoalteromonas sp. SM9913. The transcriptome survey and related functional analysis of WG07 revealed unique features different from TAC125 and SM9913 and provided clues as to how it adapted to its environmental niche. Also, a comparative transcriptomic analysis of WG07 revealed transcriptome changes between its exponential and stationary growing phases.

Download or read book Deep Subsurface Microbiology written by Andreas Teske and published by Frontiers Media SA. This book was released on 2015-07-01 with total page 305 pages. Available in PDF, EPUB and Kindle. Book excerpt: Deep subsurface microbiology is a highly active and rapidly advancing research field at the interface of microbiology and the geosciences; it focuses on the detection, identification, quantification, cultivation and activity measurements of bacteria, archaea and eukaryotes that permeate the subsurface biosphere of deep marine sediments and the basaltic ocean and continental crust. The deep subsurface biosphere abounds with uncultured, only recently discovered and – at best - incompletely understood microbial populations. In spatial extent and volume, Earth's subsurface biosphere is only rivaled by the deep sea water column. So far, no deep subsurface sediment has been found that is entirely devoid of microbial life; microbial cells and DNA remain detectable at sediment depths of more than 1 km; microbial life permeates deeply buried hydrocarbon reservoirs, and is also found several kilometers down in continental crust aquifers. Severe energy limitation, either as electron acceptor or donor shortage, and scarcity of microbially degradable organic carbon sources are among the evolutionary pressures that have shaped the genomic and physiological repertoire of the deep subsurface biosphere. Its biogeochemical role as long-term organic carbon repository, inorganic electron and energy source, and subduction recycling engine continues to be explored by current research at the interface of microbiology, geochemistry and biosphere/geosphere evolution. This Research Topic addresses some of the central research questions about deep subsurface microbiology and biogeochemistry: phylogenetic and physiological microbial diversity in the deep subsurface; microbial activity and survival strategies in severely energy-limited subsurface habitats; microbial activity as reflected in process rates and gene expression patterns; biogeographic isolation and connectivity in deep subsurface microbial communities; the ecological standing of subsurface biospheres in comparison to the surface biosphere – an independently flourishing biosphere, or mere survivors that tolerate burial (along with organic carbon compounds), or a combination of both? Advancing these questions on Earth’s deep subsurface biosphere redefines the habitat range, environmental tolerance, activity and diversity of microbial life.

Download or read book Issues in Ecosystem Ecology 2012 Edition written by and published by ScholarlyEditions. This book was released on 2013-01-10 with total page 293 pages. Available in PDF, EPUB and Kindle. Book excerpt: Issues in Ecosystem Ecology / 2012 Edition is a ScholarlyEditions™ eBook that delivers timely, authoritative, and comprehensive information about Microbial Ecology. The editors have built Issues in Ecosystem Ecology: 2012 Edition on the vast information databases of ScholarlyNews.™ You can expect the information about Microbial Ecology in this eBook to be deeper than what you can access anywhere else, as well as consistently reliable, authoritative, informed, and relevant. The content of Issues in Ecosystem Ecology: 2012 Edition has been produced by the world’s leading scientists, engineers, analysts, research institutions, and companies. All of the content is from peer-reviewed sources, and all of it is written, assembled, and edited by the editors at ScholarlyEditions™ and available exclusively from us. You now have a source you can cite with authority, confidence, and credibility. More information is available at http://www.ScholarlyEditions.com/.

Download or read book Microbial Ecology of Deep sea Hydrothermal Vents written by Ileana Pérez-Rodríguez and published by . This book was released on 2012 with total page 100 pages. Available in PDF, EPUB and Kindle. Book excerpt: The global influence of mid-oceanic ridges (MOR) first became apparent through continental drifting--its immanent force easily appreciated in today's resulting continents. The role of MORs as a source of global-ocean chemistry is less apparent but equally immense. Key to these processes is fluid-rock reactions between circulating seawater and hot new basalt. With the discovery of hydrothermal vent ecosystems in the 1970's, yet another important consequence of rock-fluid interaction was established in chemosynthesis. Early photographic descriptions of "frosted white and yellow precipitates" covering basalt rocks close to discharged hydrothermal fluids, with benthic communities emerging from them, referred to the now known chemosynthetic biofilms that interact with hydrothermal fluids. These microorganisms have a pivotal role in transforming the geochemistry of Earth's oceans. The main objectives of this dissertation are to study anaerobic chemosynthetic vent microorganisms, and to explore the molecular ecology of these biofilm communities. Initial approaches included isolation of anaerobic chemosynthetic microorganisms resulting in the description of two novel bacterial species: the epsilonproteobacterium Nautilia nitratireducens strain MB-1T, and Phorcys thermohydrogeniphilus strain HB-8T, a new genus in the Aquificales. Both bacteria are obligate thermophilic anaerobes, capable of hydrogen oxidation coupled to sulfur- and nitrate-reduction. Further investigation focused on mechanisms regulating vent biofilms, the dominant growth strategy in vent microbial communities. Quorum-sensing (QS), a mechanism relying on cell density and the production of extracellular signals for cell-cell communication, is used by many microbial species to regulate biofilm formation. One QS signal is Autoinducer-2, whose precursor is synthesized by the LuxS enzyme. To study QS in vent environments, Caminibacter mediatlanticus and Sulfurovum lithotrophicum, cultured members of the well represented Epsilonproteobacteria, were used as model systems. The luxS gene and transcripts were detected in their genomes and during growth, respectively; these luxS-expressing cultures induced bioluminescence, a QS response, in a Vibrio harveyi reporter strain. Detection of luxS transcripts in-situ, also indicated that QS is likely occurring in natural vent biofilms. This data demonstrates that vent Epsilonproteobacteria posses the luxS/AI-2 system for cell-cell communication. This work is relevant to our overall understanding of microbial phenotypic plasticity in response to environmental factors.

Download or read book Thermophilic and Halophilic Extremophiles in Eurasian Environments written by Hongchen Jiang and published by Frontiers Media SA. This book was released on 2019-05-17 with total page 151 pages. Available in PDF, EPUB and Kindle. Book excerpt: The eBook is the product of a partnership between the Norwegian Eurasia Program and the China Silk Road Program. At the present, our knowledge on microbiology and biogeochemistry from Eurasian (hyper)saline and thermal ecosystems is limited. Such information is essential to the field and contributes to a comprehensive understanding of microbial metabolic pathways and functions involved in biogeochemical processes in extreme ecosystems. This eBook includes a series of recent progress in microbial diversity, ecological functions, and biogeochemistry in Eurasian (hyper)saline and thermal ecosystems with the use of next generation sequencing, omics technologies and interdisciplinary collaboration. We hope that this eBook would serve as a model for international cooperation and as a source of inspiration for more achievements in Eurasian (hyper)saline and thermal ecosystems in the future. The complete list of authors and co-authors includes 68 highly-qualified specialists from 9 countries. All chapters in the eBook were edited by authoritative experts. We would like to emphasize the great goodwill, esteem and cooperation extended to each other among the authors, reviewers and editors who contributed to the successful completion of this eBook.

Download or read book Extremophiles in Deep Sea Environments written by K. Horikoshi and published by Springer Science & Business Media. This book was released on 2012-12-06 with total page 323 pages. Available in PDF, EPUB and Kindle. Book excerpt: Many organisms in deep-sea environments are extremophiles thriving in extreme conditions: high pressure, high or low temperature, or high concentrations of inorganic compounds. This book presents the microbiology of extremophiles living in the deep sea and describes the isolation, cultivation, and taxonomic identification of microorganisms retrieved from the Mariana Trench, the world's deepest point. Also explained are techniques for recovering pressure-loving bacteria, the barophiles (piezophiles), and for whole genome analysis of Bacillus halodurans C-125. Physiological analysis of the pressure effect in Saccharomyces cerevisiae and Escherichia coli is used to answer the question of how deep-sea organisms survive under high hydrostatic pressure. These research results are useful in both basic science and industrial applications. Readers discover a new microbial world in the ocean depths, with state-of-the-science information on extremophiles.

Download or read book The Deep Hot Biosphere written by Thomas Gold and published by Springer Science & Business Media. This book was released on 2013-12-01 with total page 248 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book sets forth a set of truly controversial and astonishing theories: First, it proposes that below the surface of the earth is a biosphere of greater mass and volume than the biosphere the total sum of living things on our planet's continents and in its oceans. Second, it proposes that the inhabitants of this subterranean biosphere are not plants or animals as we know them, but heat-loving bacteria that survive on a diet consisting solely of hydrocarbons that is, natural gas and petroleum. And third and perhaps most heretically, the book advances the stunning idea that most hydrocarbons on Earth are not the byproduct of biological debris ("fossil fuels"), but were a common constituent of the materials from which the earth itself was formed some 4.5 billion years ago. The implications are astounding. The theory proposes answers to often-asked questions: Is the deep hot biosphere where life originated, and do Mars and other seemingly barren planets contain deep biospheres? Even more provocatively, is it possible that there is an enormous store of hydrocarbons upwelling from deep within the earth that can provide us with abundant supplies of gas and petroleum? However far-fetched these ideas seem, they are supported by a growing body of evidence, and by the indisputable stature and seriousness Gold brings to any scientific debate. In this book we see a brilliant and boldly original thinker, increasingly a rarity in modern science, as he develops potentially revolutionary ideas about how our world works.