Identification Of Novel Positive Strand Rna Viruses By Metagenomic Analysis Of Archaea Dominated Yellowstone Hot Springs
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Identification Of Novel Positive Strand Rna Viruses By Metagenomic Analysis Of Archaea Dominated Yellowstone Hot Springs
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Author : Benjamin Bolduc
language : en
Publisher:
Release Date : 2012
Identification Of Novel Positive Strand Rna Viruses By Metagenomic Analysis Of Archaea Dominated Yellowstone Hot Springs written by Benjamin Bolduc and has been published by this book supported file pdf, txt, epub, kindle and other format this book has been release on 2012 with Archaebacteria categories.
There are no known RNA viruses that infect Archaea. Filling this gap in our knowledge of viruses will enhance our understanding of the relationships between RNA viruses from the three domains of cellular life and, in particular, could shed light on the origin of the enormous diversity of RNA viruses infecting eukaryotes. We describe here the identification of novel RNA viral genome segments from high-temperature acidic hot springs in Yellowstone National Park in the United States. These hot springs harbor low-complexity cellular communities dominated by several species of hyperthermophilic Archaea. A viral metagenomics approach was taken to assemble segments of these RNA virus genomes from viral populations isolated directly from hot spring samples. Analysis of these RNA metagenomes demonstrated unique gene content that is not generally related to known RNA viruses of Bacteria and Eukarya. However, genes for RNA-dependent RNA polymerase (RdRp), a hallmark of positive-strand RNA viruses, were identified in two contigs. One of these contigs is approximately 5,600 nucleotides in length and encodes a polyprotein that also contains a region homologous to the capsid protein of nodaviruses, tetraviruses, and birnaviruses. Phylogenetic analyses of the RdRps encoded in these contigs indicate that the putative archaeal viruses form a unique group that is distinct from the RdRps of RNA viruses of Eukarya and Bacteria. Collectively, our findings suggest the existence of novel positive-strand RNA viruses that probably replicate in hyperthermophilic archaeal hosts and are highly divergent from RNA viruses that infect eukaryotes and even more distant from known bacterial RNA viruses. These positive-strand RNA viruses might be direct ancestors of RNA viruses of eukaryotes.
Analysis Of Archaeal Viruses And Characterization Of Their Communities In Yellowstone National Park
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Author : Benjamin Ian Bolduc
language : en
Publisher:
Release Date : 2014
Analysis Of Archaeal Viruses And Characterization Of Their Communities In Yellowstone National Park written by Benjamin Ian Bolduc and has been published by this book supported file pdf, txt, epub, kindle and other format this book has been release on 2014 with Archaebacteria categories.
Viruses infecting the Archaea - the third domain of life - are the least understood of all viruses. Despite only 100 archaeal viruses being described, work on these viruses revealed a remarkable level of morphological and genetic diversity unmatched by their bacterial and eukaryotic counterparts, whose numbers range over 6000. Study of these archaeal viruses could gain insight into fundamental aspects of biology and reveal underlying evolutionary connections spanning the three domains of life, including the origin of life. In addition, we understand very little about their community structures in natural environments. To address these daunting tasks, a viral metagenomics approach was undertaken using next generation sequencing technologies. Despite this, only a fragmented view of the viral communities is possible in natural ecosystems. Therefore, this dissertation sought to apply a network-based approach in combination with viral metagenomics to not only describe natural viral communities, but to find and characterize the first RNA viruses out of acidic, high-temperature hot springs in Yellowstone National Park, USA. These hot springs harbor low complexity cellular communities dominated by several species of hyperthermophilic Archaea. The results of this dissertation show that this approach can identify distinct viral populations and provide insights into the viral community. Furthermore, the viral communities of these hot springs are relatively stable over the course of the sampling time period. In addition, a number of viral clusters - each representing a viral family at the taxonomic level - are likely previously uncharacterized DNA viruses infecting archaeal hosts. This approach demonstrates the utility of combining viral community sequencing with a network analysis to understand viral community structures in natural ecosystems. Additional analysis of these viral metagenomes led to the identification of novel RNA viral genome segments. Since no RNA virus infecting Archaea is known to exist, this dissertation also sought to more fully characterize these sequences. Genes for RNA-dependent RNA polymerases, a hallmark of positive-strand RNA viruses were identified, suggesting the existence of novel positive-strand RNA viruses likely replicating in hyperthermophilic archaeal hosts and are highly divergent from RNA viruses infecting eukaryotes and are even more distant from known bacterial RNA viruses.
Biocommunication Of Archaea
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Author : Guenther Witzany
language : en
Publisher: Springer
Release Date : 2017-09-27
Biocommunication Of Archaea written by Guenther Witzany and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2017-09-27 with Science categories.
Archaea represent a third domain of life with unique properties not found in the other domains. Archaea actively compete for environmental resources. They perceive themselves and can distinguish between ‘self’ and ‘non-self’. They process and evaluate available information and then modify their behaviour accordingly. They assess their surroundings, estimate how much energy they need for particular goals, and then realize the optimum variant. These highly diverse competences show us that this is possible owing to sign(aling)- mediated communication processes within archaeal cells (intra-organismic), between the same, related and different archaeal species (interorganismic), and between archaea and nonarchaeal organisms (transorganismic). This is crucial in coordinating growth and development, shape and dynamics. Such communication must function both on the local level and between widely separated colony parts. This allows archaea to coordinate appropriate response behaviors in a differentiated manner to their current developmental status and physiological influences. This book will orientate further investigations on how archaeal ecosphere inhabitants communicate with each other to coordinate their behavioral patterns and whats the role of viruses in this highly dynamic interactional networks.
Microbial Ecology Of Extreme Environments
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Author : Caroline Chénard
language : en
Publisher: Springer
Release Date : 2017-03-15
Microbial Ecology Of Extreme Environments written by Caroline Chénard and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2017-03-15 with Science categories.
This book explores microbial lifestyles, biochemical adaptations, and trophic interactions occurring in extreme environments. By summarizing the latest findings in the field it provides a valuable reference for future studies. Spark ideas for biotechnological and commercial exploitation of microbiomes at the extremes of life are presented. Chapters on viruses complement this highly informative book. In a vertical journey through the microbial biosphere it covers aspects of cold environments, hot environments, extreme saline environments, and extreme pressure environments, and more. From the deep sea, through polar deserts, up to the clouds in the air - the diversity of microbial life in all habitats is described, explored, and comprehensively reviewed. Possible biotechnical applications are discussed. This book aims to provide a useful reference for those who want to start a research program in extreme microbiology and, hopefully, inspire new research directions.
Thermophilic Microbes In Environmental And Industrial Biotechnology
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Author : Tulasi Satyanarayana
language : en
Publisher: Springer Science & Business Media
Release Date : 2013-03-25
Thermophilic Microbes In Environmental And Industrial Biotechnology written by Tulasi Satyanarayana and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2013-03-25 with Medical categories.
The existence of life at high temperatures is quiet fascinating. At elevated temperatures, only microorganisms are capable of growth and survival. Many thermophilic microbial genera have been isolated from man-made (washing machines, factory effluents, waste streams and acid mine effluents) and natural (volcanic areas, geothermal areas, terrestrial hot springs, submarine hydrothermal vents, geothermally heated oil reserves and oil wells, sun-heated litter and soils/sediments) thermal habitats throughout the world. Both culture-dependent and culture-independent approaches have been employed for understanding the diversity of microbes in hot environments. Interest in their diversity, ecology, and physiology has increased enormously during the past few decades as indicated by the deliberations in international conferences on extremophiles and thermophiles held every alternate year and papers published in journals such as Extremophiles. Thermophilic moulds and bacteria have been extensively studied in plant biomass bioconversion processes as sources of industrial enzymes and as gene donors. In the development of third generation biofuels such as bioethanol, thermophilic fungal and bacterial enzymes are of particular interest. The book is aimed at bringing together scattered up-to-date information on various aspects of thermophiles such as the diversity of thermophiles and viruses of thermophiles, their potential roles in pollution control and bioremediation, and composting.
Advanced Techniques For Studying Microorganisms In Extreme Environments
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Author : Étienne Yergeau
language : en
Publisher: Walter de Gruyter GmbH & Co KG
Release Date : 2019-10-21
Advanced Techniques For Studying Microorganisms In Extreme Environments written by Étienne Yergeau and has been published by Walter de Gruyter GmbH & Co KG this book supported file pdf, txt, epub, kindle and other format this book has been release on 2019-10-21 with Science categories.
This book will highlight advanced techniques that were recently used for studying microorganisms in extreme environments. Recent technological leaps in the study of microorganisms in the environment now make it possible to comprehensively study microbes in the environment. Extreme environments could benefit from the application of these techniques, but many challenges such as low biomass, low activity and slow growth has prevented their wide adoption. This book will review recent application of state-of-the-art techniques in extreme environments, helping researcher and graduate students get a better knowledge of the tools available.
Bacteriophages
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Author : David R. Harper
language : en
Publisher: Springer Nature
Release Date : 2021-01-30
Bacteriophages written by David R. Harper and has been published by Springer Nature this book supported file pdf, txt, epub, kindle and other format this book has been release on 2021-01-30 with Medical categories.
This first major reference work dedicated to the mannifold industrial and medical applications of bacteriophages provides both theoretical and practical insights into the emerging field of bacteriophage biotechnology. The book introduces to bacteriophage biology, ecology and history and reviews the latest technologies and tools in bacteriophage detection, strain optimization and nanotechnology. Usage of bacteriophages in food safety, agriculture, and different therapeutic areas is discussed in detail. This book serves as essential guide for researchers in applied microbiology, biotechnology and medicine coming from both academia and industry.
Biocommunication Of Phages
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Author : Guenther Witzany
language : en
Publisher: Springer Nature
Release Date : 2020-06-29
Biocommunication Of Phages written by Guenther Witzany and has been published by Springer Nature this book supported file pdf, txt, epub, kindle and other format this book has been release on 2020-06-29 with Science categories.
This is the first book to systemize all levels of communicative behavior of phages. Phages represent the most diverse inhabitants on this planet. Until today they are completely underestimated in their number, skills and competences and still remain the dark matter of biology. Phages have serious effects on global energy and nutrient cycles. Phages actively compete for host. They can distinguish between ‘self’ and ‘non-self’ (complement same, preclude others). They process and evaluate available information and then modify their behaviour accordingly. These diverse competences show us that this capacity to evaluate information is possible owing to communication processes within phages (intra-organismic), between the same, related and different phage species (interorganismic), and between phages and non-phage organisms (transorganismic). This is crucial in coordinating infection strategies (lytic vs. lysogenic) and recombination in phage genomes. In 22 chapters, expert contributors review current research into the varying forms of phage biocommunication and Phagetherapy. Biocommunication of Phages aims to assess the current state of research, to orient further investigations on how phages communicate with each other to coordinate their behavioral patterns, and to inspire further investigation of the role of non-phage viruses (non-lytic, non-prokaryotic) in these highly dynamic interactional networks.
Plant Virus Host Interaction
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Author : R.K. Gaur
language : en
Publisher: Academic Press
Release Date : 2021-01-12
Plant Virus Host Interaction written by R.K. Gaur and has been published by Academic Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2021-01-12 with Science categories.
Plant Virus-Host Interaction: Molecular Approaches and Viral Evolution, Second Edition, provides comprehensive coverage of molecular approaches for virus-host interaction. The book contains cutting-edge research in plant molecular virology, including pathogenic viroids and transport by insect vectors, interference with transmission to control viruses, synergism with pivotal coverage of RNA silencing, and the counter-defensive strategies used by viruses to overcome the silencing response in plants. This new edition introduces new, emerging proteins involved in host-virus interactions and provides in-depth coverage of plant virus genes’ interactions with host, localization and expression. With contributions from leading experts, this is a comprehensive reference for plant virologists, molecular biologists and others interested in characterization of plant viruses and disease management. Introduces new, emerging proteins involved during the host-virus interaction and new virus strains that invade new crops through recombination, resorting and mutation Provides molecular approaches for virus-host interaction Highlights RNA silencing and counter-defensive strategies for disease management Discusses the socioeconomic implications of viral spread and mitigation techniques
Microbes From Hell
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Author : Patrick Forterre
language : en
Publisher: University of Chicago Press
Release Date : 2016-10-07
Microbes From Hell written by Patrick Forterre and has been published by University of Chicago Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2016-10-07 with Science categories.
Patrick Forterre is a leading expert on archaea and thermophiles, and in Microbes from Hell (originally published as Microbes de l enfer by Belin, 2007) he offers an engaging, colorful overview of Archaea: single-celled microorganisms that were initially found in extreme habitats such as Yellowstone s volcanic hot springs. He starts with a history of Archaea s discovery and the conceptual revolution it sparked in our understanding of life s evolution; then, in the second chapter, he provides a personal account of his own search for thermophiles. In chapter three, Mr. Forterre discusses the challenges of living in high-temperature environments along with the ways in which thermophiles have adapted to them. In chapters four and five, he examines their relationships to other organisms as well as their role in the early evolution of life. Last, he presents the latest discoveries in thermophile research."