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

Game Changer-Next Generation Sequencing and Its Impact on Food Microbiology
  • Author : Jennifer Ronholm,Sabah Bidawid,Sandra Torriani
  • Publisher :Unknown
  • Release Date :2018-04-26
  • Total pages :229
  • ISBN : 9782889454631
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Summary : 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.

Genomics of Foodborne Bacterial Pathogens

Genomics of Foodborne Bacterial Pathogens
  • Author : Martin Wiedmann,Wei Zhang
  • Publisher :Unknown
  • Release Date :2011-02-04
  • Total pages :524
  • ISBN : 1441976868
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Summary : 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.

Nutrition and Genomics

Nutrition and Genomics
  • Author : David Castle,Nola Ries
  • Publisher :Unknown
  • Release Date :2009-04-14
  • Total pages :312
  • ISBN : 0080920829
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Summary : Nutrigenomics is the rapidly developing field of science that studies nutrient-gene interaction. This field has broad implications for understanding the interaction of human genomics and nutrition, but can also have very specific implications for individual dietary recommendations in light of personal genetics. Predicted applications for nutrigenomics include genomics-based dietary guidelines and personalized nutrition based on individual genetic tests. These developments have sweeping ethical, legal and regulatory implications for individuals, corporations and governments. This book brings together experts in ethics, law, regulatory analysis, and communication studies to identify and address relevant issues in the emerging field of nutritional genomics. Contributing authors are experts in the social aspects of biotechnology innovation, with expertise in nutrigenomics. From addressing the concern that nutrigenomics will transform food into medicine and undermine pleasures associated with eating to the latest in the science of nutrigenomics, this book provides a world-wide perspective on the potential impact of nutrigenomics on our association with food. *Explores the rapidly developing, yet not fully understood, impact of nutrigenomics on the relationship to food medicalization, genetic privacy, nutrition and health. *Provides ground for further exploration to identify issues and provide analysis to aid in policy and regulation development *Provides ethical and legal insights into this unfolding science, as well as serving as a model for thinking about issues arising in other fields of science and technology

Genomics in Food Safety

Genomics in Food Safety
  • Author : Bart C Weimer
  • Publisher :Unknown
  • Release Date :2018-02-01
  • Total pages :248
  • ISBN : 0128016809
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Summary : Genomics in Food Safety, written by leading experts in the field, is a vital resource in understanding the impact of genomics on food safety. This volume defines the role of next generation sequencing (NGS), from the perspective of food science, genome sequencing technologies, and applications to provide a context for the power of genomics in food borne illnesses and outbreak detection and analysis. The book presents a wide coverage of topics, including pathogen diagnostics, antibiotic resistance, traceability, rapid detection methods using NGS, and regulation and surveillance to represent the most current issues and technologies in research today. Presents current and future perspectives in the highly emerging field of genomics and food safety, with coverage of emerging topics such as epigenetics and traceability Ideal for studies relating to microbial genomics, foodborne illness, foodborne pathogens, disease outbreak, and viral bioinformatics Provides solid coverage of microbial sequencing and disease outbreak detection and analysis Covers pathogen diagnostics, antibiotic resistance, traceability, rapid detection methods using NGS, and regulation and surveillance to represent the most current issues and technologies in research today

Advances in Microbial Food Safety

Advances in Microbial Food Safety
  • Author : J Sofos
  • Publisher :Unknown
  • Release Date :2014-11-25
  • Total pages :444
  • ISBN : 9781782421153
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Summary : Research and legislation in food microbiology continue to evolve, and outbreaks of foodborne disease place further pressure on the industry to provide microbiologically safe products. This second volume in the series Advances in Microbial Food Safety summarises major recent advances in this field, and complements volume 1 to provide an essential overview of developments in food microbiology. Part one opens the book with an interview with a food safety expert. Part two provides updates on single pathogens, and part three looks at pathogen detection, identification and surveillance. Part four covers pathogen control and food preservation. Finally, part five focuses on pathogen control management. Extends the breadth and coverage of the first volume in the series Includes updates on specific pathogens and safety for specific foods Reviews both detection and management of foodborne pathogens

Comprehensive Foodomics

Comprehensive Foodomics
  • Author : Anonim
  • Publisher :Unknown
  • Release Date :2020-11-12
  • Total pages :2330
  • ISBN : 9780128163962
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Summary : Comprehensive Foodomics offers a definitive collection of over 150 articles that provide researchers with innovative answers to crucial questions relating to food quality, safety and its vital and complex links to our health. Topics covered include transcriptomics, proteomics, metabolomics, genomics, green foodomics, epigenetics and noncoding RNA, food safety, food bioactivity and health, food quality and traceability, data treatment and systems biology. Logically structured into 10 focused sections, each article is authored by world leading scientists who cover the whole breadth of Omics and related technologies, including the latest advances and applications. By bringing all this information together in an easily navigable reference, food scientists and nutritionists in both academia and industry will find it the perfect, modern day compendium for frequent reference. List of sections and Section Editors: Genomics - Olivia McAuliffe, Dept of Food Biosciences, Moorepark, Fermoy, Co. Cork, Ireland Epigenetics & Noncoding RNA - Juan Cui, Department of Computer Science & Engineering, University of Nebraska-Lincoln, Lincoln, NE Transcriptomics - Robert Henry, Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St Lucia, Australia Proteomics - Jens Brockmeyer, Institute of Biochemistry and Technical Biochemistry, University Stuttgart, Germany Metabolomics - Philippe Schmitt-Kopplin, Research Unit Analytical BioGeoChemistry, Neuherberg, Germany Omics data treatment, System Biology and Foodomics - Carlos Leon Canseco, Visiting Professor, Biomedical Engineering, Universidad Carlos III de Madrid Green Foodomics - Elena Ibanez, Foodomics Lab, CIAL, CSIC, Madrid, Spain Food safety and Foodomics - Djuro Josić, Professor Medicine (Research) Warren Alpert Medical School, Brown University, Providence, RI, USA & Sandra Kraljević Pavelić, University of Rijeka, Department of Biotechnology, Rijeka, Croatia Food Quality, Traceability and Foodomics - Daniel Cozzolino, Centre for Nutrition and Food Sciences, The University of Queensland, Queensland, Australia Food Bioactivity, Health and Foodomics - Miguel Herrero, Department of Bioactivity and Food Analysis, Foodomics Lab, CIAL, CSIC, Madrid, Spain Brings all relevant foodomics information together in one place, offering readers a ‘one-stop,’ comprehensive resource for access to a wealth of information Includes articles written by academics and practitioners from various fields and regions Provides an ideal resource for students, researchers and professionals who need to find relevant information quickly and easily Includes content from high quality authors from across the globe

Nutritional Genomics

Nutritional Genomics
  • Author : Wayne R. Bidlack,Raymond L. Rodriguez
  • Publisher :Unknown
  • Release Date :2016-04-19
  • Total pages :448
  • ISBN : 9781439844533
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Summary : The notion of matching diet with an individual's genetic makeup is transforming the way the public views nutrition as a means of managing health and preventing disease. To fulfill the promise of nutritional genomics, researchers are beginning to reconcile the diverse properties of dietary factors with our current knowledge of genome structure and g

Applied Genomics of Foodborne Pathogens

Applied Genomics of Foodborne Pathogens
  • Author : Xiangyu Deng,Henk C. den Bakker,Rene S. Hendriksen
  • Publisher :Unknown
  • Release Date :2017-01-23
  • Total pages :205
  • ISBN : 9783319437514
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Summary : 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.

Food and Feed Safety Systems and Analysis

Food and Feed Safety Systems and Analysis
  • Author : Steven C Ricke,Griffiths G. Atungulu,Chase Rainwater,Si Hong Park
  • Publisher :Unknown
  • Release Date :2017-10-27
  • Total pages :424
  • ISBN : 9780128498880
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Summary : Food and Feed Safety Systems and Analysis discusses the integration of food safety with recent research developments in food borne pathogens. The book covers food systems, food borne ecology, how to conduct research on food safety and food borne pathogens, and developing educational materials to train incoming professionals in the field. Topics include data analysis and cyber security for food safety systems, control of food borne pathogens and supply chain logistics. The book uniquely covers current food safety perspectives on integrating food systems concepts into pet food manufacturing, as well as data analyses aspects of food systems. Explores cutting edge research about emerging issues associated with food safety Includes new research on understanding foodborne Salmonella, Listeria and E. coli Presents foodborne pathogens and whole genome sequencing applications Provides concepts and issues related to pet and animal feed safety

Genomics, Proteomics and Metabolomics in Nutraceuticals and Functional Foods

Genomics, Proteomics and Metabolomics in Nutraceuticals and Functional Foods
  • Author : Debasis Bagchi,Anand Swaroop,Manashi Bagchi
  • Publisher :Unknown
  • Release Date :2015-09-25
  • Total pages :688
  • ISBN : 9781118930465
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Summary : Functional foods and nutraceuticals have received considerable interest in the past decade largely due to increasing consumer awareness of the health benefits associated with food. Diet in human health is no longer a matter of simple nutrition: consumers are more proactive and increasingly interested in the health benefits of functional foods and their role in the prevention of illness and chronic conditions. This, combined with an aging population that focuses not only on longevity but also quality of life, has created a market for functional foods and nutraceuticals. A fully updated and revised second edition, Genomics, Proteomics and Metabolomics in Nutraceuticals and Functional Foods reflects the recent upsurge in "omics" technologies and features 48 chapters that cover topics including genomics, proteomics, metabolomics, epigenetics, peptidomics, nutrigenomics and human health, transcriptomics, nutriethics and nanotechnology. This cutting-edge volume, written by a panel of experts from around the globe reviews the latest developments in the field with an emphasis on the application of these novel technologies to functional foods and nutraceuticals.

The New Science of Metagenomics

The New Science of Metagenomics
  • Author : National Research Council,Division on Earth and Life Studies,Board on Life Sciences,Committee on Metagenomics: Challenges and Functional Applications
  • Publisher :Unknown
  • Release Date :2007-06-24
  • Total pages :170
  • ISBN : 9780309106764
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Summary : 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.

Safety of Genetically Engineered Foods

Safety of Genetically Engineered Foods
  • Author : National Research Council,Institute of Medicine,Board on Agriculture and Natural Resources,Food and Nutrition Board,Board on Life Sciences,Committee on Identifying and Assessing Unintended Effects of Genetically Engineered Foods on Human Health
  • Publisher :Unknown
  • Release Date :2004-07-08
  • Total pages :254
  • ISBN : 0309166152
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Summary : Assists policymakers in evaluating the appropriate scientific methods for detecting unintended changes in food and assessing the potential for adverse health effects from genetically modified products. In this book, the committee recommended that greater scrutiny should be given to foods containing new compounds or unusual amounts of naturally occurring substances, regardless of the method used to create them. The book offers a framework to guide federal agencies in selecting the route of safety assessment. It identifies and recommends several pre- and post-market approaches to guide the assessment of unintended compositional changes that could result from genetically modified foods and research avenues to fill the knowledge gaps.

Food Safety

Food Safety
  • Author : Steven C Ricke,Janet R Donaldson,Carol A Phillips
  • Publisher :Unknown
  • Release Date :2015-07-08
  • Total pages :464
  • ISBN : 9780128004043
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Summary : Food Safety: Emerging Issues, Technologies and Systems offers a systems approach to learning how to understand and address some of the major complex issues that have emerged in the food industry. The book is broad in coverage and provides a foundation for a practical understanding in food safety initiatives and safety rules, how to deal with whole-chain traceability issues, handling complex computer systems and data, foodborne pathogen detection, production and processing compliance issues, safety education, and more. Recent scientific industry developments are written by experts in the field and explained in a manner to improve awareness, education and communication of these issues. Examines effective control measures and molecular techniques for understanding specific pathogens Presents GFSI implementation concepts and issues to aid in implementation Demonstrates how operation processes can achieve a specific level of microbial reduction in food Offers tools for validating microbial data collected during processing to reduce or eliminate microorganisms in foods

Aflatoxin and Food Safety

Aflatoxin and Food Safety
  • Author : Hamed K. Abbas
  • Publisher :Unknown
  • Release Date :2005-11-01
  • Total pages :616
  • ISBN : 1420028170
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Summary : Aflatoxins are responsible for damaging up to 25% of the world's food crops, resulting in large economic losses in developed countries and human and animal disease in under-developed ones. In addition to aflatoxins, the presence of other mycotoxins, particularly fumonisins, brings additional concerns about the safety of food and field supplies. The

Nutrigenomics and the Future of Nutrition

Nutrigenomics and the Future of Nutrition
  • Author : National Academies of Sciences, Engineering, and Medicine,Health and Medicine Division,Food and Nutrition Board,Food Forum
  • Publisher :Unknown
  • Release Date :2018-08-27
  • Total pages :154
  • ISBN : 9780309477642
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Summary : On December 5, 2017, the National Academies of Sciences, Engineering, and Medicine hosted a public workshop titled Nutrigenomics and the Future of Nutrition in Washington, DC, to review current knowledge in the field of nutrigenomics as it relates to nutrition. Workshop participants explored the influence of genetic and epigenetic expression on nutritional status and the potential impact of personalized nutrition on health maintenance and chronic disease prevention. This publication summarizes the presentations and discussions from the workshop.

Genomics and Effectomics of the Crop Killer Xanthomonas

Genomics and Effectomics of the Crop Killer Xanthomonas
  • Author : Nicolas Denancé,Thomas Lahaye,Laurent D. Noël
  • Publisher :Unknown
  • Release Date :2016-08-09
  • Total pages :158
  • ISBN : 9782889199020
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Summary : Phytopathogenic bacteria of the Xanthomonas genus cause severe diseases on hundreds of host plants, including economically important crops, such as bean, cabbage, cassava, citrus, hemp, pepper, rice, sugarcane, tomato or wheat. Diseases occurring in nature comprise bacterial blight, canker, necrosis, rot, scald, spot, streak or wilt. Xanthomonas spp. are distributed worldwide and pathogenic and nonpathogenic strains are essentially found in association to plants. Some phytopathogenic strains are emergent or re-emergent and, consequently, dramatically impact agriculture, economy and food safety. During the last decades, massive efforts were undertaken to decipher Xanthomonas biology. So far, more than one hundred complete or draft genomes from diverse Xanthomonas species have been sequenced (http://www.xanthomonas.org), thus providing powerful tools to study genetic determinants triggering pathogenicity and adaptation to plant habitats. Xanthomonas spp. employ an arsenal of virulence factors to invade its host, including extracellular polysaccharides, plant cell wall-degrading enzymes, adhesins and secreted effectors. In most xanthomonads, type III secretion (T3S) system and secreted effectors (T3Es) are essential to bacterial pathogenicity through the inhibition of plant immunity or the induction of plant susceptibility (S) genes, as reported for Transcription Activation-Like (TAL) effectors. Yet, toxins can also be major virulence determinants in some xanthomonads while nonpathogenic Xanthomonas species do live in sympatry with plant without any T3S systems nor T3Es. In a context of ever increasing international commercial exchanges and modifications of the climate, monitoring and regulating pathogens spread is of crucial importance for food security. A deep knowledge of the genomic diversity of Xanthomonas spp. is required for scientists to properly identify strains, to help preventing future disease outbreaks and to achieve knowledge-informed sustainable disease resistance in crops. This Research Topic published in the ‘Plant Biotic Interactions’ section of Frontiers in Plant Science and Frontiers in Microbiology aims at illustrating several of the recent achievements of the Xanthomonas community. We collected twelve manuscripts dealing with comparative genomics or T3E repertoires, including five focusing on TAL effectors which we hope will contribute to advance research on plant pathogenic bacteria.

Food Molecular Microbiology

Food Molecular Microbiology
  • Author : Spiros Paramithiotis,Jayanta K Patra
  • Publisher :Unknown
  • Release Date :2019-02-14
  • Total pages :252
  • ISBN : 9781351615099
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Summary : With the advances in the field of molecular biology, new tools make it possible to conduct in-depth studies in food microbial communities from a molecular perspective. Information from genomic, transcriptomic, proteomic and metabolomic studies can be integrated through bioinformatic applications, thereby improving our understanding of the interactions between biotic and abiotic factors and concomitantly the physiology of starter cultures, spoilage and pathogenic microbiota. Improvements in the speed, accuracy and reliability of food quality and safety assessment have made the foundation stronger for future developments including the exploitation of gene networks and applications of nanotechnology and systems biology. This book reviews all these developments, provides an integrated view of the subject and helps in identifying areas of future development.

Antimicrobial Resistance and Food Safety

Antimicrobial Resistance and Food Safety
  • Author : Chin-Yi Chen,Xianghe Yan,Charlene R. Jackson
  • Publisher :Unknown
  • Release Date :2015-04-15
  • Total pages :452
  • ISBN : 9780128013373
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Summary : Antimicrobial Resistance and Food Safety: Methods and Techniques introduces antimicrobial resistant food-borne pathogens, their surveillance and epidemiology, emerging resistance and resistant pathogens. This analysis is followed by a systematic presentation of currently applied methodology and technology, including advanced technologies for detection, intervention, and information technologies. This reference can be used as a practical guide for scientists, food engineers, and regulatory personnel as well as students in food safety, food microbiology, or food science. Includes analysis of all major pathogens of concern Provides many case studies and examples of fundamental research findings Presents recent advances in methodologies and analytical software Demonstrates risk assessment using information technologies in foodborne pathogens

Protocols for Cytogenetic Mapping of Arthropod Genomes

Protocols for Cytogenetic Mapping of Arthropod Genomes
  • Author : Igor V. Sharakhov
  • Publisher :Unknown
  • Release Date :2014-10-28
  • Total pages :526
  • ISBN : 9781466598157
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Summary : Arthropods are important to worldwide agriculture, food safety, human health, and energy production. Besides their practical significance, various species represent excellent model systems for biological investigations of evolution, development, physiology, reproduction, and social interaction. For these reasons, arthropod genomics is receiving increasing attention from researchers around the globe. Protocols for Cytogenetic Mapping of Arthropod Genomes is a collection of up-to-date, detailed protocols for physical chromosome mapping and their applications for studying genome organization and evolution in insects and ticks. This book brings together the expertise of cytogeneticists working on diverse groups of arthropods. Each chapter demonstrates approaches to tissue dissection, chromosome preparation, fluorescence in situ hybridization, and imaging. The book is a timely and complementary effort to the i5K initiative, which will obtain whole-genome sequences for 5,000 insect and related arthropod species. This comprehensive resource provides cytogeneticists with the necessary background and protocols to understand and develop chromosome-based genome assemblies from such whole-genome sequence data.

Microbial Food Safety

Microbial Food Safety
  • Author : Omar A. Oyarzabal,Steffen Backert
  • Publisher :Unknown
  • Release Date :2011-12-03
  • Total pages :262
  • ISBN : 1461411777
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Summary : In this book, some of the most qualified scientists review different food safety topics, ranging from emerging and reemerging foodborne pathogens, food regulations in the USA, food risk analysis and the most important foodborne pathogens based on food commodities. This book provides the reader with the necessary knowledge to understand some of the complexities of food safety. However, anybody with basic knowledge in microbiology will find in this book additional information related to a variety of food safety topics.

Food Safety and Human Health

Food Safety and Human Health
  • Author : Ram Lakhan Singh,Sukanta Mondal
  • Publisher :Unknown
  • Release Date :2019-07-30
  • Total pages :402
  • ISBN : 9780128163344
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Summary : Food Safety and Human Health provides a framework to manage food safety risks and insure safe food system. This reference takes a reader-friendly approach in presenting the entire range of toxic compounds found naturally in foods or introduced by industrial contamination or food processing methods. It provides the basic principles of food toxicology and its processing and safety for human health to help professionals and students better understand the real problems of toxic materials. This essential resource will help readers address problems regarding food contamination and safety. It will be particularly useful for graduate students, researchers and professionals in the agri-food industry. Encompasses the first pedagogic treatment of the entire range of toxic compounds found naturally in foods or introduced by industrial contamination or food processing methods Features areas of vital concern to consumers, such as the toxicological implications of food, implications of food processing and its safety to human health Focuses on the safety aspects of genetically modified foods currently available