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Applications Of Next Generation Sequencing Ngs Technologies To Decipher The Oral Microbiome In Systemic Health And Disease Book in PDF, ePub and Kindle version is available to download in english. Read online anytime anywhere directly from your device. Click on the download button below to get a free pdf file of Applications Of Next Generation Sequencing Ngs Technologies To Decipher The Oral Microbiome In Systemic Health And Disease book. This book definitely worth reading, it is an incredibly well-written.
Author : Thuy Do,Dongmei Deng,Naile Dame-Teixeira
Publisher : Frontiers Media SA
Page : 223 pages
File Size : 47,7 Mb
Release : 2022-02-09
Category : Science
ISBN : 9782889743087
Author : Florence Carrouel,Denis Bourgeois,Lucio Souza Gonçalves,Josué da Costa Lima-Junior
Publisher : Frontiers Media SA
Page : 145 pages
File Size : 43,8 Mb
Release : 2022-03-10
Category : Science
ISBN : 9782889746415
Author : Jennifer Ronholm,Sabah Bidawid,Sandra Torriani
Publisher : Frontiers Media SA
Page : 302 pages
File Size : 54,5 Mb
Release : 2018-04-26
Category : Electronic
ISBN : 9782889454631
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.
Author : Tomomi Hashizume-Takizawa,Ana Carolina Morandini,Loreto Abusleme,Sinem Esra Sahingur
Publisher : Frontiers Media SA
Page : 119 pages
File Size : 40,9 Mb
Release : 2022-01-04
Category : Science
ISBN : 9782889719327
Author : Egija Zaura,Alex Mira
Publisher : Frontiers Media SA
Page : 118 pages
File Size : 49,5 Mb
Release : 2015-07-27
Category : Infectious and parasitic diseases
ISBN : 9782889195763
The oral cavity harbors an immense diversity of microorganisms, including bacteria, fungi, archaea, protozoa and viruses. At health, oral microbial community is thought to be in a state of homeostasis, even after numerous perturbations (e.g., toothbrushing, food intake) a day. The breach in this homeostasis can occur for instance if the perturbations become too excessive (e.g., frequent carbohydrate intake leading to acidification of the community) or the host is compromised (e.g., inadequate immune response resulting in persistent inflammation of periodontal tissue). Aggressive antimicrobial therapy (e.g., antibiotics in case of periodontal disease or preventive antibiotic therapy before and after dental extractions) is commonly applied with all the negative consequences of this approach. So far little is known on the interplay between the environmental, host and microbial factors in maintaining an ecological balance. What are the prerequisites for a healthy oral ecosystem? Can we restore an unbalanced oral microbiome? How stable is the oral microbiome through time and how robust it is to external perturbations? Gaining new insights in the ecological factors sustaining oral health will lead to conceptually new therapies and preventive programs. Recent advances in high throughput technologies have brought microbiology as a science to a new era, allowing an open-ended approach instead of focusing on few opportunistic pathogens. With this topic we would like to integrate the current high-throughput ‘omics’ tools such as metagenomics, metatranscriptomics, metaproteomics or metabolomics with biochemical, physiological, genetic or clinical parameters within the oral microbial ecosystem. We aim to address questions underlying the regulation of the ecological balance in the oral cavity by including the following areas: • Ecology of oral microbiome at health • Ecology of oral microbiome under oral diseases • Ecology of oral microbiome during non-oral diseases • Shifts in the oral microbiome by therapeutic approaches (e.g., antimicrobials, replacement therapy, pre- and probiotics) • Modeling of oral ecological shifts (e.g., animal models, in vitro microcosm models) • Complex inter- and intra-kingdom interactions (e.g., bacterial-fungal-host) related to oral ecology • Environmental (e.g., diet, tobacco), host-related (e.g., immune response, saliva composition and flow) and biotic (e.g., bacterial competition) factors influencing oral ecology • Geographic variation in oral microbial ecology and diversity
Author : Michael G. Newman,Perry R. Klokkevold,Satheesh Elangovan,Yvonne Kapila
Publisher : Elsevier Health Sciences
Page : 1877 pages
File Size : 45,5 Mb
Release : 2023-04-28
Category : Medical
ISBN : 9780323878883
Learn and master a range of clinical techniques and achieve therapeutic goals with Newman and Carranza’s Clinical Periodontology and Implantology, 14th Edition! Unmatched for its comprehensive approach, this resource provides detailed, up-to-date information on the etiology and pathogenesis of periodontal disease. Basic and advanced evidence-based information on the various treatment modalities employed in periodontics and implantology is presented in an easy-to-read format, with callout boxes throughout the text highlighting the clinical relevance of foundational basic science information. Full-color photos and radiographic images depict periodontal conditions and procedures, and the Atlas of Periodontal Pathology is one of the most comprehensive ever compiled in a periodontal textbook. Written by a team of leading experts led by Michael G. Newman, this text not only demonstrates how to perform periodontal procedures but explains the evidence supporting each treatment and provides knowledge on how to achieve the best possible outcomes of periodontal therapy and implant treatment. An eBook version is included with print purchase, providing access to all the text, figures, and references, plus the ability to search, customize content, make notes and highlights, and have content read aloud. The eBook version included with print purchase also includes Periopixel 3D color illustrations, a periodontal classification calculator and interactive learning tool, review questions, case studies, videos, 3D animations, and more! This edition features new chapters on Precision Medicine, Pocket Reduction Therapy, Periodontal Referral, and Digital Implant Workflows, as well as an updated glossary of terms linked to the eBook. It also features first-of-its-kind content on the effects of COVID-19 on treatment from key opinion leaders in this area. Case studies reflect the new format of the Integrated National Board Dental Exam (INBDE). Full-color photos, illustrations, radiographs, animations, simulations, and videos demonstrate how to perform periodontal and implant procedures. Current information on clinical techniques in periodontology and the latest advances in basic science. Evidence-based treatment planning provides knowledge on how to achieve the best possible outcomes of periodontal therapy and implant treatment. Extensive color atlas of periodontal pathology Internationally known experts contribute chapters on their areas of specialty. An eBook version is included with print purchase, providing access to all the text, figures, and references, plus the ability to search, customize content, make notes and highlights, and have content read aloud.
Author : Thomas M. Schmidt
Publisher : Academic Press
Page : 3248 pages
File Size : 41,6 Mb
Release : 2019-09-11
Category : Science
ISBN : 9780128117378
Encyclopedia of Microbiology, Fourth Edition, Five Volume Set gathers both basic and applied dimensions in this dynamic field that includes virtually all environments on Earth. This range attracts a growing number of cross-disciplinary studies, which the encyclopedia makes available to readers from diverse educational backgrounds. The new edition builds on the solid foundation established in earlier versions, adding new material that reflects recent advances in the field. New focus areas include `Animal and Plant Microbiomes’ and ‘Global Impact of Microbes`. The thematic organization of the work allows users to focus on specific areas, e.g., for didactical purposes, while also browsing for topics in different areas. Offers an up-to-date and authoritative resource that covers the entire field of microbiology, from basic principles, to applied technologies Provides an organic overview that is useful to academic teachers and scientists from different backgrounds Includes chapters that are enriched with figures and graphs, and that can be easily consulted in isolation to find fundamental definitions and concepts
Author : Guy R. Adami
Publisher : Humana
Page : 0 pages
File Size : 48,9 Mb
Release : 2022-09-03
Category : Science
ISBN : 1071615203
This volume discusses the oral microbiome, and oral and systemic health. The chapters in this book cover topics such as analytical techniques for identifying and measuring oral bacteria; strategies for controlling common sources of variability in oral microbiome methods for viral bacterial and fungal analysis; ways to study oral DNA and RNA samples to identify molecular pathways to disease; approaches to functional assays for oral bacteriophage, antibiotic purging of systemic bacteria; and metaproteomic analysis of various oral samples. Written in the highly 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 laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Cutting-edge and practical, The Oral Microbiome: Methods and Protocols is a valuable resource for any scientist or researcher looking to further study this exciting and developing field.
Author : Institute of Medicine,Board on Global Health,Forum on Microbial Threats
Publisher : National Academies Press
Page : 429 pages
File Size : 49,9 Mb
Release : 2013-05-02
Category : Science
ISBN : 9780309268196
Over the past several decades, new scientific tools and approaches for detecting microbial species have dramatically enhanced our appreciation of the diversity and abundance of the microbiota and its dynamic interactions with the environments within which these microorganisms reside. The first bacterial genome was sequenced in 1995 and took more than 13 months of work to complete. Today, a microorganism's entire genome can be sequenced in a few days. Much as our view of the cosmos was forever altered in the 17th century with the invention of the telescope, these genomic technologies, and the observations derived from them, have fundamentally transformed our appreciation of the microbial world around us. On June 12 and 13, 2012, the Institute of Medicine's (IOM's) Forum on Microbial Threats convened a public workshop in Washington, DC, to discuss the scientific tools and approaches being used for detecting and characterizing microbial species, and the roles of microbial genomics and metagenomics to better understand the culturable and unculturable microbial world around us. Through invited presentations and discussions, participants examined the use of microbial genomics to explore the diversity, evolution, and adaptation of microorganisms in a wide variety of environments; the molecular mechanisms of disease emergence and epidemiology; and the ways that genomic technologies are being applied to disease outbreak trace back and microbial surveillance. Points that were emphasized by many participants included the need to develop robust standardized sampling protocols, the importance of having the appropriate metadata, data analysis and data management challenges, and information sharing in real time. The Science and Applications of Microbial Genomics summarizes this workshop.
Author : Beiwen Zheng
Publisher : Frontiers Media SA
Page : 133 pages
File Size : 47,5 Mb
Release : 2023-12-28
Category : Science
ISBN : 9782832541753
Timely and accurate pathogen diagnosis is critical for effective treatment, outbreak prevention and precise antibiotics administration of infectious diseases, which remains a challenge in clinical practice. Metagenomic next generation sequencing (mNGS) allows researchers and laboratory specialists to analyze the mixed collection of sequencing reads in human clinical samples, including sequences from bacteria, viruses, fungi and parasites besides the host. This new technology shows great potential in pathogen diagnosis. The sensitivity and faster turnaround time are higher than conventional clinical microbiology tests, especially for fastidious and atypical pathogens. However, current mNGS based pathogen detection and diagnosis are facing challenges from both technical and practical aspects. First, sequencing noise can be introduced from different steps such as samples preparation, sequencing, data analysis and reporting algorithm. Also, the interpretation of the results such as detection limits and detection rates are not straightforward to clinicians, compared with traditional culture-based technologies. Such challenges and considerations should be fully addressed before the wild application of mNGS as a pathogen detection tool. Further, these clarifications might help to properly find the best clinical application scenarios, refine the medical treatments, and improve the clinical effectiveness of mNGS in complex infectious diseases. This Research Topic is focused on the application of mNGS for infectious diseases diagnosis and treatment, including experiment process and clinical usage. Its purpose is to level up the clarification of NGS process, to support the development of efficient experiment methods, data interpretation algorithms and to report good examples of related clinical applications. We hope this Research Topic could facilitate the discovery of novel methods and help NGS specialists and clinicians to know mutual concerns and work together to improve the clinical effectiveness of mNGS.
Author : Anonim
Publisher : Unknown
Page : 0 pages
File Size : 52,5 Mb
Release : 2018
Category : Electronic
ISBN : OCLC:1368416834
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.
Author : National Research Council,Division on Earth and Life Studies,Board on Life Sciences,Committee on Metagenomics: Challenges and Functional Applications
Publisher : National Academies Press
Page : 170 pages
File Size : 40,8 Mb
Release : 2007-06-24
Category : Science
ISBN : 9780309106764
Although we can't usually see them, microbes are essential for every part of human life-indeed all life on Earth. The emerging field of metagenomics offers a new way of exploring the microbial world that will transform modern microbiology and lead to practical applications in medicine, agriculture, alternative energy, environmental remediation, and many others areas. Metagenomics allows researchers to look at the genomes of all of the microbes in an environment at once, providing a "meta" view of the whole microbial community and the complex interactions within it. It's a quantum leap beyond traditional research techniques that rely on studying-one at a time-the few microbes that can be grown in the laboratory. At the request of the National Science Foundation, five Institutes of the National Institutes of Health, and the Department of Energy, the National Research Council organized a committee to address the current state of metagenomics and identify obstacles current researchers are facing in order to determine how to best support the field and encourage its success. The New Science of Metagenomics recommends the establishment of a "Global Metagenomics Initiative" comprising a small number of large-scale metagenomics projects as well as many medium- and small-scale projects to advance the technology and develop the standard practices needed to advance the field. The report also addresses database needs, methodological challenges, and the importance of interdisciplinary collaboration in supporting this new field.
Author : Ashraf F. Fouad
Publisher : John Wiley & Sons
Page : 472 pages
File Size : 49,5 Mb
Release : 2017-02-06
Category : Medical
ISBN : 9781118975503
Endodontic Microbiology, Second Edition presents a comprehensive reference to the microbiology, pathogenesis, management, and healing of endodontic pathosis, emphasizing the importance of biological sciences in understanding and managing endodontic disease and its interaction with systemic health. Provides a major revision to the first book to focus on the problems related to microbes in the root canal and periapical tissues Updates current knowledge in endodontic pathosis, especially regarding next generation sequencing and microbial virulence Presents useful diagrams, images, radiographs, and annotated histological images to illustrate the concepts Emphasizes the importance of biological science in understanding and managing endodontic disease Includes contributions from the leading researchers and educators in the field
Author : Philippe Langella,Francisco Guarner,Rebeca Martín
Publisher : Frontiers Media SA
Page : 333 pages
File Size : 44,6 Mb
Release : 2019-11-22
Category : Electronic
ISBN : 9782889631964
Author : Yoshiaki Nomura
Publisher : Mdpi AG
Page : 120 pages
File Size : 42,7 Mb
Release : 2022-01-06
Category : Science
ISBN : 3036528806
More than 700 species of bacteria are involved in the oral cavity. Specific pathogenic bacteria have been focused on as pathogenic bacteria for oral disease: dental caries and periodontal disease. However, these pathogenic bacteria occupy a tiny fraction of the overall oral microbiome. A high throughput genomic analysis system was developed. This technology innovation enables analysis of the whole bacteria. It is hypothesized that disturbance of the oral microbiome, so-called dysbiosis, leads to the development of some diseases. This book provides knowledge concerning recent advances in the oral microbiome for researchers as well as dental clinicians.
