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Applied Genomics of Foodborne Pathogens

Author: Xiangyu Deng

Publisher: Springer

Published: 2017-01-23

Total Pages: 205

ISBN-13: 3319437518

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This book provides a timely and thorough snapshot into the emerging and fast evolving area of applied genomics of foodborne pathogens. Driven by the drastic advance of whole genome shot gun sequencing (WGS) technologies, genomics applications are becoming increasingly valuable and even essential in studying, surveying and controlling foodborne microbial pathogens. The vast opportunities brought by this trend are often at odds with the lack of bioinformatics know-how among food safety and public health professionals, since such expertise is not part of a typical food microbiology curriculum and skill set. Further complicating the challenge is the large and ever evolving body of bioinformatics tools that can obfuscate newcomers to this area. Although reviews, tutorials and books are not in short supply in the fields of bioinformatics and genomics, until now there has not been a comprehensive and customized source of information designed for and accessible to microbiologists interested in applying cutting-edge genomics in food safety and public health research. This book fills this void with a well-selected collection of topics, case studies, and bioinformatics tools contributed by experts at the forefront of foodborne pathogen genomics research.

Book Synopsis Applied Genomics of Foodborne Pathogens by : Xiangyu Deng

Download or read book Applied Genomics of Foodborne Pathogens written by Xiangyu Deng and published by Springer. This book was released on 2017-01-23 with total page 205 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides a timely and thorough snapshot into the emerging and fast evolving area of applied genomics of foodborne pathogens. Driven by the drastic advance of whole genome shot gun sequencing (WGS) technologies, genomics applications are becoming increasingly valuable and even essential in studying, surveying and controlling foodborne microbial pathogens. The vast opportunities brought by this trend are often at odds with the lack of bioinformatics know-how among food safety and public health professionals, since such expertise is not part of a typical food microbiology curriculum and skill set. Further complicating the challenge is the large and ever evolving body of bioinformatics tools that can obfuscate newcomers to this area. Although reviews, tutorials and books are not in short supply in the fields of bioinformatics and genomics, until now there has not been a comprehensive and customized source of information designed for and accessible to microbiologists interested in applying cutting-edge genomics in food safety and public health research. This book fills this void with a well-selected collection of topics, case studies, and bioinformatics tools contributed by experts at the forefront of foodborne pathogen genomics research.

Genomics of Foodborne Bacterial Pathogens

Author: Martin Wiedmann

Publisher: Springer

Published: 2013-04-19

Total Pages: 0

ISBN-13: 9781461428022

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Foodborne illnesses caused by various bacterial, viral, and fungal pathogens lead to a high number of morbidity and mortality in the U.S. and throughout the world. Recent advances in microbial genomics have significantly improved our understanding of the physiology, evolution, ecology, epidemiology, and pathogenesis of different foodborne pathogens. This book focuses on the genomics of foodborne bacterial pathogens. It begins with a brief overview of the recent advances in microbial genomics and the impact of genomics on food safety research. Then, eight chapters follow that elaborate some in-depth reviews on the genomics of several common foodborne bacterial pathogens including Bacillus, Campylobacter, Clostridium, Escherichia coli, Listeria, Salmonella, Staphylococcus, and Vibrio. Finally, the last four chapters focus on some current genomic, transcriptomic, and proteomic technologies and their applications in studying the epidemiology, evolution, and pathogenesis of foodborne bacterial pathogens. Genomics of Foodborne Bacterial Pathogens can be used as a reference by scientists and professionals in academia, government, and industry who are interested in understanding microbial genomics and using genomics tools to study foodborne bacterial pathogens. This book can also be used as a textbook for instructors and professors who teach food microbiology or microbial genomics-related courses at the post-graduate level.

Book Synopsis Genomics of Foodborne Bacterial Pathogens by : Martin Wiedmann

Download or read book Genomics of Foodborne Bacterial Pathogens written by Martin Wiedmann and published by Springer. This book was released on 2013-04-19 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Foodborne illnesses caused by various bacterial, viral, and fungal pathogens lead to a high number of morbidity and mortality in the U.S. and throughout the world. Recent advances in microbial genomics have significantly improved our understanding of the physiology, evolution, ecology, epidemiology, and pathogenesis of different foodborne pathogens. This book focuses on the genomics of foodborne bacterial pathogens. It begins with a brief overview of the recent advances in microbial genomics and the impact of genomics on food safety research. Then, eight chapters follow that elaborate some in-depth reviews on the genomics of several common foodborne bacterial pathogens including Bacillus, Campylobacter, Clostridium, Escherichia coli, Listeria, Salmonella, Staphylococcus, and Vibrio. Finally, the last four chapters focus on some current genomic, transcriptomic, and proteomic technologies and their applications in studying the epidemiology, evolution, and pathogenesis of foodborne bacterial pathogens. Genomics of Foodborne Bacterial Pathogens can be used as a reference by scientists and professionals in academia, government, and industry who are interested in understanding microbial genomics and using genomics tools to study foodborne bacterial pathogens. This book can also be used as a textbook for instructors and professors who teach food microbiology or microbial genomics-related courses at the post-graduate level.

Pan-genomics: Applications, Challenges, and Future Prospects

Author: Debmalya Barh

Publisher: Academic Press

Published: 2020-03-06

Total Pages: 476

ISBN-13: 0128170778

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Pan-genomics: Applications, Challenges, and Future Prospects covers current approaches, challenges and future prospects of pan-genomics. The book discusses bioinformatics tools and their applications and focuses on bacterial comparative genomics in order to leverage the development of precise drugs and treatments for specific organisms. The book is divided into three sections: the first, an "overview of pan-genomics and common approaches, brings the main concepts and current approaches on pan-genomics research; the second, “case studies in pan-genomics, thoroughly discusses twelve case, and the last, “current approaches and future prospects in pan-multiomics , encompasses the developments on omics studies to be applied on bacteria related studies. This book is a valuable source for bioinformaticians, genomics researchers and several members of biomedical field interested in understanding further bacterial organisms and their relationship to human health. Covers the entire spectrum of pangenomics, highlighting the use of specific approaches, case studies and future perspectives Discusses current bioinformatics tools and strategies for exploiting pangenomics data Presents twelve case studies with different organisms in order to provide the audience with real examples of pangenomics applicability

Book Synopsis Pan-genomics: Applications, Challenges, and Future Prospects by : Debmalya Barh

Download or read book Pan-genomics: Applications, Challenges, and Future Prospects written by Debmalya Barh and published by Academic Press. This book was released on 2020-03-06 with total page 476 pages. Available in PDF, EPUB and Kindle. Book excerpt: Pan-genomics: Applications, Challenges, and Future Prospects covers current approaches, challenges and future prospects of pan-genomics. The book discusses bioinformatics tools and their applications and focuses on bacterial comparative genomics in order to leverage the development of precise drugs and treatments for specific organisms. The book is divided into three sections: the first, an "overview of pan-genomics and common approaches, brings the main concepts and current approaches on pan-genomics research; the second, “case studies in pan-genomics, thoroughly discusses twelve case, and the last, “current approaches and future prospects in pan-multiomics , encompasses the developments on omics studies to be applied on bacteria related studies. This book is a valuable source for bioinformaticians, genomics researchers and several members of biomedical field interested in understanding further bacterial organisms and their relationship to human health. Covers the entire spectrum of pangenomics, highlighting the use of specific approaches, case studies and future perspectives Discusses current bioinformatics tools and strategies for exploiting pangenomics data Presents twelve case studies with different organisms in order to provide the audience with real examples of pangenomics applicability

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

Author: Jennifer Ronholm

Publisher: Frontiers Media SA

Published: 2018-04-26

Total Pages: 302

ISBN-13: 2889454630

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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.

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.

Pathogen Genomics: Empowering Infectious Disease Surveillance and Outbreak Investigations

Author: Marc Jean Struelens

Publisher: Frontiers Media SA

Published: 2020-07-03

Total Pages: 160

ISBN-13: 2889638227

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Book Synopsis Pathogen Genomics: Empowering Infectious Disease Surveillance and Outbreak Investigations by : Marc Jean Struelens

Download or read book Pathogen Genomics: Empowering Infectious Disease Surveillance and Outbreak Investigations written by Marc Jean Struelens and published by Frontiers Media SA. This book was released on 2020-07-03 with total page 160 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Handbook of Foodborne Diseases

Author: Dongyou Liu

Publisher: CRC Press

Published: 2018-10-29

Total Pages: 2582

ISBN-13: 1351863487

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Clearly linked to consumption of foods, beverages, and drinking water that contain pathogenic microbes, toxins, or other toxic agents, foodborne diseases have undergone a remarkable change of fortune in recent decades, from once rare and insignificant malaises to headline-grabbing and deadly outbreaks. Unquestionably, several factors have combined to make this happen. These include a prevailing demand for the convenience of ready-to-eat or heat-and-eat manufactured food products that allow ready entry and survival of some robust, temperature-insensitive microorganisms; a drastic reduction in the costs of air, sea, and road transportation that has taken some pathogenic microorganisms to where they were absent previously; an expanding world population that has stretched the boundary of human activity; and an ageing population whose weakened immune functions provide a fertile ground for opportunistic pathogens to invade and thrive. Given the diversity of causative agents (ranging from viruses, bacteria, yeasts, filamentous fungi, protozoa, helminthes, toxins, to toxic agents), and the ingenuity of pathogenic microbes to evolve through genetic reassortment, horizontal gene transfer, and/or random genetic mutation, it has become an enormous challenge to understand how foodborne agents are able to evade host immune defenses and induce diseases, and also to develop and apply innovative approaches for improved diagnosis, treatment, and prevention of foodborne diseases. Handbook of Foodborne Diseases summarizes the latest findings on more than 100 foodborne diseases and their causative agents. With contributions from international experts on foodborne pathogens, toxins, and toxic agents research, this volume provides state-of-the-art overviews on foodborne diseases in relation to their etiology, biology, epidemiology, clinical presentation, pathogenesis, diagnosis, treatment, and prevention. Apart from offering a comprehensive textbook for undergraduate and postgraduate students in food, medical, and veterinary microbiology, this volume constitutes a valuable reference on foodborne diseases for medical professionals and health authorities, and forms an informative educational resource for the general public.

Book Synopsis Handbook of Foodborne Diseases by : Dongyou Liu

Download or read book Handbook of Foodborne Diseases written by Dongyou Liu and published by CRC Press. This book was released on 2018-10-29 with total page 2582 pages. Available in PDF, EPUB and Kindle. Book excerpt: Clearly linked to consumption of foods, beverages, and drinking water that contain pathogenic microbes, toxins, or other toxic agents, foodborne diseases have undergone a remarkable change of fortune in recent decades, from once rare and insignificant malaises to headline-grabbing and deadly outbreaks. Unquestionably, several factors have combined to make this happen. These include a prevailing demand for the convenience of ready-to-eat or heat-and-eat manufactured food products that allow ready entry and survival of some robust, temperature-insensitive microorganisms; a drastic reduction in the costs of air, sea, and road transportation that has taken some pathogenic microorganisms to where they were absent previously; an expanding world population that has stretched the boundary of human activity; and an ageing population whose weakened immune functions provide a fertile ground for opportunistic pathogens to invade and thrive. Given the diversity of causative agents (ranging from viruses, bacteria, yeasts, filamentous fungi, protozoa, helminthes, toxins, to toxic agents), and the ingenuity of pathogenic microbes to evolve through genetic reassortment, horizontal gene transfer, and/or random genetic mutation, it has become an enormous challenge to understand how foodborne agents are able to evade host immune defenses and induce diseases, and also to develop and apply innovative approaches for improved diagnosis, treatment, and prevention of foodborne diseases. Handbook of Foodborne Diseases summarizes the latest findings on more than 100 foodborne diseases and their causative agents. With contributions from international experts on foodborne pathogens, toxins, and toxic agents research, this volume provides state-of-the-art overviews on foodborne diseases in relation to their etiology, biology, epidemiology, clinical presentation, pathogenesis, diagnosis, treatment, and prevention. Apart from offering a comprehensive textbook for undergraduate and postgraduate students in food, medical, and veterinary microbiology, this volume constitutes a valuable reference on foodborne diseases for medical professionals and health authorities, and forms an informative educational resource for the general public.

Bad Bug Book

Author: Mark Walderhaug

Publisher: Createspace Independent Publishing Platform

Published: 2014-01-14

Total Pages: 292

ISBN-13: 9781495203619

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The Bad Bug Book 2nd Edition, released in 2012, provides current information about the major known agents that cause foodborne illness.Each chapter in this book is about a pathogen—a bacterium, virus, or parasite—or a natural toxin that can contaminate food and cause illness. The book contains scientific and technical information about the major pathogens that cause these kinds of illnesses.A separate “consumer box” in each chapter provides non-technical information, in everyday language. The boxes describe plainly what can make you sick and, more important, how to prevent it.The information provided in this handbook is abbreviated and general in nature, and is intended for practical use. It is not intended to be a comprehensive scientific or clinical reference.The Bad Bug Book is published by the Center for Food Safety and Applied Nutrition (CFSAN) of the Food and Drug Administration (FDA), U.S. Department of Health and Human Services.

Book Synopsis Bad Bug Book by : Mark Walderhaug

Download or read book Bad Bug Book written by Mark Walderhaug and published by Createspace Independent Publishing Platform. This book was released on 2014-01-14 with total page 292 pages. Available in PDF, EPUB and Kindle. Book excerpt: The Bad Bug Book 2nd Edition, released in 2012, provides current information about the major known agents that cause foodborne illness.Each chapter in this book is about a pathogen—a bacterium, virus, or parasite—or a natural toxin that can contaminate food and cause illness. The book contains scientific and technical information about the major pathogens that cause these kinds of illnesses.A separate “consumer box” in each chapter provides non-technical information, in everyday language. The boxes describe plainly what can make you sick and, more important, how to prevent it.The information provided in this handbook is abbreviated and general in nature, and is intended for practical use. It is not intended to be a comprehensive scientific or clinical reference.The Bad Bug Book is published by the Center for Food Safety and Applied Nutrition (CFSAN) of the Food and Drug Administration (FDA), U.S. Department of Health and Human Services.

Genomic Surveillance and Pandemic Preparedness

Author: Rajesh Pandey

Publisher: Elsevier

Published: 2023-06-29

Total Pages: 428

ISBN-13: 0443187681

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Genomic Surveillance and Pandemic Preparedness offers practical, in-depth instruction in where, how, and why genomic surveillance may be applied. Drawing heavily from the learnings during the COVID-19 pandemic, this book covers different aspects of microbes with a focus on viral genome sequencing and analysis, implementation and inference of genomic surveillance, and global data sharing best practices for future pandemic preparedness. Here, more than a dozen international authors consider host and pathogen genome interaction, population-level prevalence, individual disease susceptibility and gene protection, pathogen mutation evolutionary dynamics, RNA modulation of infection, pathogen diversity, and the role of coinfections and comorbidities in disease severity. A wide range of examples, from bacterial pathogens to fungal and viral infections, with an emphasis on recent COVID-19 analysis, are discussed. Finally, the authors provide step-by-step instruction in experimental and computational approaches for genomic surveillance, including nucleic acid isolation, sequencing library preparation, functional sequencing analysis, and bioinformatics pipelines. Throughout this book, importance is placed on inference—moving from genomic sequencing to meaningful genomic surveillance that bolsters pandemic preparedness. Highlights different aspects of genomic surveillance, from theory to implementation to inferences Covers a broad range of infectious diseases, with emphasis on recent COVID-19 studies Shares methods and approaches for sequencing-based pathogen detection, diagnostics, and surveillance Facilitates international collaboration in drug and vaccine development

Book Synopsis Genomic Surveillance and Pandemic Preparedness by : Rajesh Pandey

Download or read book Genomic Surveillance and Pandemic Preparedness written by Rajesh Pandey and published by Elsevier. This book was released on 2023-06-29 with total page 428 pages. Available in PDF, EPUB and Kindle. Book excerpt: Genomic Surveillance and Pandemic Preparedness offers practical, in-depth instruction in where, how, and why genomic surveillance may be applied. Drawing heavily from the learnings during the COVID-19 pandemic, this book covers different aspects of microbes with a focus on viral genome sequencing and analysis, implementation and inference of genomic surveillance, and global data sharing best practices for future pandemic preparedness. Here, more than a dozen international authors consider host and pathogen genome interaction, population-level prevalence, individual disease susceptibility and gene protection, pathogen mutation evolutionary dynamics, RNA modulation of infection, pathogen diversity, and the role of coinfections and comorbidities in disease severity. A wide range of examples, from bacterial pathogens to fungal and viral infections, with an emphasis on recent COVID-19 analysis, are discussed. Finally, the authors provide step-by-step instruction in experimental and computational approaches for genomic surveillance, including nucleic acid isolation, sequencing library preparation, functional sequencing analysis, and bioinformatics pipelines. Throughout this book, importance is placed on inference—moving from genomic sequencing to meaningful genomic surveillance that bolsters pandemic preparedness. Highlights different aspects of genomic surveillance, from theory to implementation to inferences Covers a broad range of infectious diseases, with emphasis on recent COVID-19 studies Shares methods and approaches for sequencing-based pathogen detection, diagnostics, and surveillance Facilitates international collaboration in drug and vaccine development

Foodborne Enterobacteriaceae of Animal Origin: Epidemic Characteristics of Drug Resistance, Pathogenic Mechanisms, and Novel Control Measures

Author: Fangkun Wang

Publisher: Frontiers Media SA

Published: 2021-11-25

Total Pages: 160

ISBN-13: 288971697X

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Book Synopsis Foodborne Enterobacteriaceae of Animal Origin: Epidemic Characteristics of Drug Resistance, Pathogenic Mechanisms, and Novel Control Measures by : Fangkun Wang

Download or read book Foodborne Enterobacteriaceae of Animal Origin: Epidemic Characteristics of Drug Resistance, Pathogenic Mechanisms, and Novel Control Measures written by Fangkun Wang and published by Frontiers Media SA. This book was released on 2021-11-25 with total page 160 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Microbiology for Food and Health

Author: Deepak Kumar Verma

Publisher: CRC Press

Published: 2019-12-11

Total Pages: 212

ISBN-13: 1000007251

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This book, Microbiology for Food and Health: Technological Developments and Advances, highlights the innovative microbiological approaches and advances made in the field of microbial food industries. The volume covers the most recent progress in the field of dairy and food microbiology, emphasizing the current progress, actual challenges, and successes of the latest technologies. This book looks at technological advances in starter cultures, prospective applications of food-grade microorganisms for food preservation and food safety, and innovative microbiological approaches and technologies in the food industry. The first series of chapters discuss the types, classification, and systematic uses of various starter cultures in addition to probiotics for various commercial fermentation processes. The book goes on to covers recent breakthroughs in microbial bioprocessing that can be employed in the food and health industry, such as, for an example, prospective antimicrobial applications of inherently present fermentative microflora against spoilage and pathogenic type microorganisms; the use of potential probiotic LAB biofilms for the control of formation of pathogenic biofilms by exclusion mechanisms, and more.

Book Synopsis Microbiology for Food and Health by : Deepak Kumar Verma

Download or read book Microbiology for Food and Health written by Deepak Kumar Verma and published by CRC Press. This book was released on 2019-12-11 with total page 212 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book, Microbiology for Food and Health: Technological Developments and Advances, highlights the innovative microbiological approaches and advances made in the field of microbial food industries. The volume covers the most recent progress in the field of dairy and food microbiology, emphasizing the current progress, actual challenges, and successes of the latest technologies. This book looks at technological advances in starter cultures, prospective applications of food-grade microorganisms for food preservation and food safety, and innovative microbiological approaches and technologies in the food industry. The first series of chapters discuss the types, classification, and systematic uses of various starter cultures in addition to probiotics for various commercial fermentation processes. The book goes on to covers recent breakthroughs in microbial bioprocessing that can be employed in the food and health industry, such as, for an example, prospective antimicrobial applications of inherently present fermentative microflora against spoilage and pathogenic type microorganisms; the use of potential probiotic LAB biofilms for the control of formation of pathogenic biofilms by exclusion mechanisms, and more.