New Insights Into Microbial Ecology Through Subtle Nucleotide Variation

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New Insights into Microbial Ecology through Subtle Nucleotide Variation

Author : A. Murat Eren
Publisher : Frontiers Media SA
ISBN 13 : 2889199886
Total Pages : 135 pages
Book Rating : 4.8/5 (891 download)

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Book Synopsis New Insights into Microbial Ecology through Subtle Nucleotide Variation by : A. Murat Eren

Download or read book New Insights into Microbial Ecology through Subtle Nucleotide Variation written by A. Murat Eren and published by Frontiers Media SA. This book was released on 2016-10-26 with total page 135 pages. Available in PDF, EPUB and Kindle. Book excerpt: The 16S ribosomal RNA gene commonly serves as a molecular marker for investigating microbial community composition and structure. Vast amounts of 16S rRNA amplicon data generated from environmental samples thanks to the recent advances in sequencing technologies allowed microbial ecologists to explore microbial community dynamics over temporal and spatial scales deeper than ever before. However, widely used methods for the analysis of bacterial communities generally ignore subtle nucleotide variations among high-throughput sequencing reads and often fail to resolve ecologically meaningful differences between closely related organisms in complex microbial datasets. Lack of proper partitioning of the sequencing data into relevant units often masks important ecological patterns. Our research topic contains articles that use oligotyping to demonstrate the importantance of high-resolution analyses of marker gene data, and providides further evidence why microbial ecologists should open the "black box" of OTUs identified through arbitrary sequence similarity thresholds.

An Integrated Analysis of Microbiomes and Metabolomics

Author : Yinglin Xia
Publisher : American Chemical Society
ISBN 13 : 0841299544
Total Pages : 205 pages
Book Rating : 4.8/5 (412 download)

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Book Synopsis An Integrated Analysis of Microbiomes and Metabolomics by : Yinglin Xia

Download or read book An Integrated Analysis of Microbiomes and Metabolomics written by Yinglin Xia and published by American Chemical Society. This book was released on 2022-03-25 with total page 205 pages. Available in PDF, EPUB and Kindle. Book excerpt: Because the microbial community is dynamic, an individual’s microbiota at a given time is varied, and many factors, including age, host genetics, diet, and the local environment, significantly change the microbiota. Thus, microbiome researchers have naturally expanded their research to look for insights into the interaction of the microbiome with other “omics”. Metabolites (small molecules) are the intermediate or end products of metabolism. Metabolites have various functions. The microbial-derived metabolites play an important role in the function of the microbiome. Thus, the advancement in microbiome studies is becoming particularly critical for the integration of microbial DNA sequencing data with other omics data, especially microbiome-metabolomics integration.

Bioinformatic and Statistical Analysis of Microbiome Data

Author : Yinglin Xia
Publisher : Springer Nature
ISBN 13 : 3031213912
Total Pages : 717 pages
Book Rating : 4.0/5 (312 download)

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Book Synopsis Bioinformatic and Statistical Analysis of Microbiome Data by : Yinglin Xia

Download or read book Bioinformatic and Statistical Analysis of Microbiome Data written by Yinglin Xia and published by Springer Nature. This book was released on 2023-06-16 with total page 717 pages. Available in PDF, EPUB and Kindle. Book excerpt: This unique book addresses the bioinformatic and statistical modelling and also the analysis of microbiome data using cutting-edge QIIME 2 and R software. It covers core analysis topics in both bioinformatics and statistics, which provides a complete workflow for microbiome data analysis: from raw sequencing reads to community analysis and statistical hypothesis testing. It includes real-world data from the authors’ research and from the public domain, and discusses the implementation of QIIME 2 and R for data analysis step-by-step. The data as well as QIIME 2 and R computer programs are publicly available, allowing readers to replicate the model development and data analysis presented in each chapter so that these new methods can be readily applied in their own research. Bioinformatic and Statistical Analysis of Microbiome Data is an ideal book for advanced graduate students and researchers in the clinical, biomedical, agricultural, and environmental fields, as well as those studying bioinformatics, statistics, and big data analysis.

Statistical Data Analysis of Microbiomes and Metabolomics

Author : Yinglin Xia
Publisher : American Chemical Society
ISBN 13 : 0841299161
Total Pages : 229 pages
Book Rating : 4.8/5 (412 download)

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Book Synopsis Statistical Data Analysis of Microbiomes and Metabolomics by : Yinglin Xia

Download or read book Statistical Data Analysis of Microbiomes and Metabolomics written by Yinglin Xia and published by American Chemical Society. This book was released on 2022-02-03 with total page 229 pages. Available in PDF, EPUB and Kindle. Book excerpt: Compared with other research fields, both microbiome and metabolomics data are complicated and have some unique characteristics, respectively. Thus, choosing an appropriate statistical test or method is a very important step in the analysis of microbiome and metabolomics data. However, this is still a difficult task for those biomedical researchers without a statistical background and for those biostatisticians who do not have research experiences in these fields. Graduate students studying microbiome and metabolomics; statisticians, working on microbiome and metabolomics projects, either for their own research, or for their collaborative research for experimental design, grant application, and data analysis; and researchers who investigate biomedical and biochemical projects with the microbiome, metabolome, and multi-omics data analysis will benefit from reading this work.

Microbiomes of the Built Environment

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)

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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.

Game Changer-Next Generation Sequencing and Its Impact on Food Microbiology

Author : Jennifer Ronholm
Publisher : Frontiers Media SA
ISBN 13 : 2889454630
Total Pages : 302 pages
Book Rating : 4.8/5 (894 download)

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Book Synopsis Game Changer-Next Generation Sequencing and Its Impact on Food Microbiology by : Jennifer Ronholm

Download or read book Game Changer-Next Generation Sequencing and Its Impact on Food Microbiology written by Jennifer Ronholm and published by Frontiers Media SA. This book was released on 2018-04-26 with total page 302 pages. Available in PDF, EPUB and Kindle. Book excerpt: Advances in next-generation sequencing technologies (NGS) are revolutionizing the field of food microbiology. Microbial whole genome sequencing (WGS) can provide identification, characterization, and subtyping of pathogens for epidemiological investigations at a level of precision previously not possible. This allows for connections and source attribution to be inferred between related isolates that may be overlooked by traditional techniques. The archiving and global sharing of genome sequences allow for retrospective analysis of virulence genes, antimicrobial resistance markers, mobile genetic elements and other novel genes. The advent of high-throughput 16S rRNA amplicon sequencing, in combination with the advantages offered by massively parallel second-generation sequencing for metagenomics, enable intensive studies on the microbiomes of food products and the impact of foods on the human microbiome. These studies may one day lead to the development of reliable culture-independent methods for food monitoring and surveillance. Similarly, RNA-seq has provided insights into the transcriptomes and hence the behaviour of bacterial pathogens in food, food processing environments, and in interaction with the host at a resolution previously not achieved through the use of microarrays and/or RT-PCR. The vast un-tapped potential applications of NGS along with its rapidly declining costs, give this technology the ability to contribute significantly to consumer protection, global trade facilitation, and increased food safety and security. Despite the rapid advances, challenges remain. How will NGS data be incorporated into our existing global food safety infrastructure? How will massive NGS data be stored and shared globally? What bioinformatics solutions will be used to analyse and optimise these large data sets? This Research Topic discusses recent advances in the field of food microbiology made possible through the use of NGS.

The Social Biology of Microbial Communities

Author : Institute of Medicine
Publisher : National Academies Press
ISBN 13 : 0309264324
Total Pages : 633 pages
Book Rating : 4.3/5 (92 download)

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Book Synopsis The Social Biology of Microbial Communities by : Institute of Medicine

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 2013-01-10 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.

Textbook of Periodontics

Author : Shalu Bathla
Publisher : Jaypee Brothers Medical Publishers
ISBN 13 : 9390595363
Total Pages : 699 pages
Book Rating : 4.3/5 (95 download)

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Book Synopsis Textbook of Periodontics by : Shalu Bathla

Download or read book Textbook of Periodontics written by Shalu Bathla and published by Jaypee Brothers Medical Publishers. This book was released on 2021-02-10 with total page 699 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Biological Diversity

Author : L. N. Petrov
Publisher : Nova Publishers
ISBN 13 : 9781590335284
Total Pages : 262 pages
Book Rating : 4.3/5 (352 download)

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Book Synopsis Biological Diversity by : L. N. Petrov

Download or read book Biological Diversity written by L. N. Petrov and published by Nova Publishers. This book was released on 2003 with total page 262 pages. Available in PDF, EPUB and Kindle. Book excerpt: One of the cornerstones of life's wonders is the vast array of species filling the planet. From plants to animals to humans, there is no shortage of beings to provide 'spice of life' variety is said to be. Periodically, scientists announce the discovery of a 'new' form of life, so it seems as if Earth is capable of producing new species just to keep us on our toes. At times, the immense breadth of living things can even feel overwhelming, as one pauses to ponder how numerically insignificant humans are when compared to the insect population. Given the biological diversity of the planet, it is incumbent upon humans to safeguard the natural beauty of the environment. To that end, conservation takes on special importance, necessitating the balancing of industrial expansion with preserving the flora and fauna surrounding us. This book is an important tool in understanding and researching the many different life forms spanning the globe. Collected here is a substantial and carefully selected listing of relevant literature on biological diversity and its conservation. Following this bibliography are author, title, and subject indexes to allow for further access to this information. The sheer bulk of the works about biological diversity can be so intimidating that a book such as this one becomes useful in sorting through the resources about the importance of life's variety.

Microbial Ecology in States of Health and Disease

Author : Institute of Medicine
Publisher : National Academies Press
ISBN 13 : 0309290651
Total Pages : 436 pages
Book Rating : 4.3/5 (92 download)

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Book Synopsis Microbial Ecology in States of Health and Disease by : Institute of Medicine

Download or read book Microbial Ecology in States of Health and Disease written by Institute of Medicine and published by National Academies Press. This book was released on 2014-02-18 with total page 436 pages. Available in PDF, EPUB and Kindle. Book excerpt: Individually and collectively, resident microbes play important roles in host health and survival. Shaping and shaped by their host environments, these microorganisms form intricate communities that are in a state of dynamic equilibrium. This ecologic and dynamic view of host-microbe interactions is rapidly redefining our view of health and disease. It is now accepted that the vast majority of microbes are, for the most part, not intrinsically harmful, but rather become established as persistent, co-adapted colonists in equilibrium with their environment, providing useful goods and services to their hosts while deriving benefits from these host associations. Disruption of such alliances may have consequences for host health, and investigations in a wide variety of organisms have begun to illuminate the complex and dynamic network of interaction - across the spectrum of hosts, microbes, and environmental niches - that influence the formation, function, and stability of host-associated microbial communities. Microbial Ecology in States of Health and Disease is the summary of a workshop convened by the Institute of Medicine's Forum on Microbial Threats in March 2013 to explore the scientific and therapeutic implications of microbial ecology in states of health and disease. Participants explored host-microbe interactions in humans, animals, and plants; emerging insights into how microbes may influence the development and maintenance of states of health and disease; the effects of environmental change(s) on the formation, function, and stability of microbial communities; and research challenges and opportunities for this emerging field of inquiry.

Environmental Chemicals, the Human Microbiome, and Health Risk

Author : National Academies of Sciences, Engineering, and Medicine
Publisher : National Academies Press
ISBN 13 : 0309468698
Total Pages : 123 pages
Book Rating : 4.3/5 (94 download)

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Book Synopsis Environmental Chemicals, the Human Microbiome, and Health Risk by : National Academies of Sciences, Engineering, and Medicine

Download or read book Environmental Chemicals, the Human Microbiome, and Health Risk written by National Academies of Sciences, Engineering, and Medicine and published by National Academies Press. This book was released on 2018-03-01 with total page 123 pages. Available in PDF, EPUB and Kindle. Book excerpt: A great number of diverse microorganisms inhabit the human body and are collectively referred to as the human microbiome. Until recently, the role of the human microbiome in maintaining human health was not fully appreciated. Today, however, research is beginning to elucidate associations between perturbations in the human microbiome and human disease and the factors that might be responsible for the perturbations. Studies have indicated that the human microbiome could be affected by environmental chemicals or could modulate exposure to environmental chemicals. Environmental Chemicals, the Human Microbiome, and Health Risk presents a research strategy to improve our understanding of the interactions between environmental chemicals and the human microbiome and the implications of those interactions for human health risk. This report identifies barriers to such research and opportunities for collaboration, highlights key aspects of the human microbiome and its relation to health, describes potential interactions between environmental chemicals and the human microbiome, reviews the risk-assessment framework and reasons for incorporating chemicalâ€"microbiome interactions.

Microbes and Microbial Technology

Author : Iqbal Ahmad
Publisher : Springer Science & Business Media
ISBN 13 : 144197931X
Total Pages : 522 pages
Book Rating : 4.4/5 (419 download)

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Book Synopsis Microbes and Microbial Technology by : Iqbal Ahmad

Download or read book Microbes and Microbial Technology written by Iqbal Ahmad and published by Springer Science & Business Media. This book was released on 2011-02-01 with total page 522 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book focuses on successful application of microbial biotechnology in areas such as medicine, agriculture, environment and human health.

Automation: Genomic and Functional Analyses

Author : Alister G. Craig
Publisher : Elsevier
ISBN 13 : 9780121948603
Total Pages : 296 pages
Book Rating : 4.9/5 (486 download)

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Book Synopsis Automation: Genomic and Functional Analyses by : Alister G. Craig

Download or read book Automation: Genomic and Functional Analyses written by Alister G. Craig and published by Elsevier. This book was released on 1999-02 with total page 296 pages. Available in PDF, EPUB and Kindle. Book excerpt: Evaluation and functional analysis, to provide insight into this "new age" of research based on genomic and chemical screening. Key Features * Describes automated procedures used in microbiology and molecular biology * Includes developments in robotics and vision systems * Features automation in library picking, presentation and analysis * Discusses paralogous duplications in microbial genomes * Covers deciphering genomes through automated large-scale sequencing * Describes and stresses the need for functional analyses * Internationally acclaimed contributors, including Professor Leroy Hood.

Microbial Environmental Genomics (MEG)

Author : Francis Martin
Publisher : Springer Nature
ISBN 13 : 1071628712
Total Pages : 370 pages
Book Rating : 4.0/5 (716 download)

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Book Synopsis Microbial Environmental Genomics (MEG) by : Francis Martin

Download or read book Microbial Environmental Genomics (MEG) written by Francis Martin and published by Springer Nature. This book was released on 2022-12-15 with total page 370 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.

Environmental Microbiology: Fundamentals and Applications

Author : Jean-Claude Bertrand
Publisher : Springer
ISBN 13 : 940179118X
Total Pages : 933 pages
Book Rating : 4.4/5 (17 download)

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Book Synopsis Environmental Microbiology: Fundamentals and Applications by : Jean-Claude Bertrand

Download or read book Environmental Microbiology: Fundamentals and Applications written by Jean-Claude Bertrand and published by Springer. This book was released on 2015-01-26 with total page 933 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book is a treatise on microbial ecology that covers traditional and cutting-edge issues in the ecology of microbes in the biosphere. It emphasizes on study tools, microbial taxonomy and the fundamentals of microbial activities and interactions within their communities and environment as well as on the related food web dynamics and biogeochemical cycling. The work exceeds the traditional domain of microbial ecology by revisiting the evolution of cellular prokaryotes and eukaryotes and stressing the general principles of ecology. The overview of the topics, authored by more than 80 specialists, is one of the broadest in the field of environmental microbiology. The overview of the topics, authored by more than 80 specialists, is one of the broadest in the field of environmental microbiology.

A New Biology for the 21st Century

Author : National Research Council
Publisher : National Academies Press
ISBN 13 : 0309147867
Total Pages : 113 pages
Book Rating : 4.3/5 (91 download)

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Book Synopsis A New Biology for the 21st Century by : National Research Council

Download or read book A New Biology for the 21st Century written by National Research Council and published by National Academies Press. This book was released on 2009-11-20 with total page 113 pages. Available in PDF, EPUB and Kindle. Book excerpt: Now more than ever, biology has the potential to contribute practical solutions to many of the major challenges confronting the United States and the world. A New Biology for the 21st Century recommends that a "New Biology" approach-one that depends on greater integration within biology, and closer collaboration with physical, computational, and earth scientists, mathematicians and engineers-be used to find solutions to four key societal needs: sustainable food production, ecosystem restoration, optimized biofuel production, and improvement in human health. The approach calls for a coordinated effort to leverage resources across the federal, private, and academic sectors to help meet challenges and improve the return on life science research in general.

Strengthening Forensic Science in the United States

Author : National Research Council
Publisher : National Academies Press
ISBN 13 : 0309142393
Total Pages : 348 pages
Book Rating : 4.3/5 (91 download)

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Book Synopsis Strengthening Forensic Science in the United States by : National Research Council

Download or read book Strengthening Forensic Science in the United States written by National Research Council and published by National Academies Press. This book was released on 2009-07-29 with total page 348 pages. Available in PDF, EPUB and Kindle. Book excerpt: Scores of talented and dedicated people serve the forensic science community, performing vitally important work. However, they are often constrained by lack of adequate resources, sound policies, and national support. It is clear that change and advancements, both systematic and scientific, are needed in a number of forensic science disciplines to ensure the reliability of work, establish enforceable standards, and promote best practices with consistent application. Strengthening Forensic Science in the United States: A Path Forward provides a detailed plan for addressing these needs and suggests the creation of a new government entity, the National Institute of Forensic Science, to establish and enforce standards within the forensic science community. The benefits of improving and regulating the forensic science disciplines are clear: assisting law enforcement officials, enhancing homeland security, and reducing the risk of wrongful conviction and exoneration. Strengthening Forensic Science in the United States gives a full account of what is needed to advance the forensic science disciplines, including upgrading of systems and organizational structures, better training, widespread adoption of uniform and enforceable best practices, and mandatory certification and accreditation programs. While this book provides an essential call-to-action for congress and policy makers, it also serves as a vital tool for law enforcement agencies, criminal prosecutors and attorneys, and forensic science educators.