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High Throughput Next Generation Sequence Analysis for Food Microbiologists

High Throughput Next Generation Sequence Analysis for Food Microbiologists
  • Author : Bart C Weimer,Dylan Storey
  • Publisher :Unknown
  • Release Date :2017-01-01
  • Total pages :272
  • ISBN : 9780128092279
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Summary : High Throughput Next Generation Sequence Analysis for Food Microbiologists presents the evolution of metagenomics and metaRNAseq as tools for use in foods to describe the microbiome of raw materials and the effect of processing conditions to change the microbiome for food safety and food spoilage. This reference offers information on the wide spread use of microbial genomes that are available today. The intent of this volume is to provide a resource for researchers, scientists, upper division students interested in using WGS and metagenomics for food microbiome studies. Presents broad and underserved implications for food microbiology’s fast moving area of Next Generation Sequencing (NGS) Provides detailed descriptions of the context, directions, and methods that are at the leading edge of food microbiology that aligns with culture independent methods in complex systems, such as food streams Includes chapters that span spoilage organisms, fermentation, and pathogens

Sequencing Technologies in Microbial Food Safety and Quality

Sequencing Technologies in Microbial Food Safety and Quality
  • Author : Devarajan Thangardurai,Leo M.L. Nollet,Saher Islam,Jeyabalan Sangeetha
  • Publisher :Unknown
  • Release Date :2021-04-14
  • Total pages :500
  • ISBN : 9781000376395
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Summary : Molecular landscape for food safety analysis is rapidly revolutionizing because of high resolution and value added resulting analysis of next-generation sequencing (NGS) approaches. These modern sequencing technologies drive worldwide advancements in food safety and quality. Sequencing Technologies in Microbial Food Safety and Quality reviews several practices in that NGS contributes to foodborne pathogens functional characterization, management and control. This book focuses on potential uses of sequencing technologies in microbial food safety and quality and highlights present challenges in the food industry. Key Features: Application of whole genome sequencing technologies in disease diagnostics, surveillance, transmission, and outbreak investigation in food sector Impact of sequencing tools in the area of food microbiology Recent advances in genomic DNA sequencing of microbial species from single cells Microbial bioinformatics resources for food microbiology High-throughput insertion tracking by deep sequencing for the analysis of food pathogens This book includes contributions from experts who have manipulated sequencing tools in relation to microbial food safety and quality. Presenting comprehensive details about NGS approaches in food science, this book is an updated and reliable reference for food scientists, nutritionists, food product investigators to study and implement the sequencing technologies for developing quality and safe food. This book would also serve as informative resource for food industry officials, government researchers, food science or food nutrition students who seek comprehensive knowledge about the role of emerging sequencing technologies in revolutionizing the food industry.

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.

Manual of Environmental Microbiology

Manual of Environmental Microbiology
  • Author : Cindy H. Nakatsu,Robert V. Miller,Suresh D. Pillai
  • Publisher :Unknown
  • Release Date :2020-08-11
  • Total pages :229
  • ISBN : 9781555818821
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Summary : The single most comprehensive resource for environmental microbiology Environmental microbiology, the study of the roles that microbes play in all planetary environments, is one of the most important areas of scientific research. The Manual of Environmental Microbiology, Fourth Edition, provides comprehensive coverage of this critical and growing field. Thoroughly updated and revised, the Manual is the definitive reference for information on microbes in air, water, and soil and their impact on human health and welfare. Written in accessible, clear prose, the manual covers four broad areas: general methodologies, environmental public health microbiology, microbial ecology, and biodegradation and biotransformation. This wealth of information is divided into 18 sections each containing chapters written by acknowledged topical experts from the international community. Specifically, this new edition of the Manual Contains completely new sections covering microbial risk assessment, quality control, and microbial source tracking Incorporates a summary of the latest methodologies used to study microorganisms in various environments Synthesizes the latest information on the assessment of microbial presence and microbial activity in natural and artificial environments The Manual of Environmental Microbiology is an essential reference for environmental microbiologists, microbial ecologists, and environmental engineers, as well as those interested in human diseases, water and wastewater treatment, and biotechnology.

Microbial Development

Microbial Development
  • Author : Richard Losick,Lucy Shapiro
  • Publisher :Unknown
  • Release Date :1984
  • Total pages :303
  • ISBN : UOM:39015007156097
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Summary :

High-Throughput Next Generation Sequencing

High-Throughput Next Generation Sequencing
  • Author : Young Min Kwon,Steven C. Ricke
  • Publisher :Unknown
  • Release Date :2011-03-23
  • Total pages :308
  • ISBN : 1617790885
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Summary : Due to their novel concepts and extraordinary high-throughput sequencing capacity, the “next generation sequencing” methods allow scientists to grasp system-wide landscapes of the complex molecular events taking place in various biological systems, including microorganisms and microbial communities. These methods are now being recognized as essential tools for a more comprehensive and deeper understanding of the mechanisms underlying many biological processes. In High-Throughput Next Generation Sequencing: Methods and Applications, experts in the field explore the most recent advances in the applications of next generation sequencing technologies with an emphasis on microorganisms and their communities; however, the methods described in this book will also offer general applications relevant to the study of any living organisms. Written in the highly successful Methods in Molecular BiologyTM series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and key tips on troubleshooting and avoiding known pitfalls. Comprehensive and cutting-edge, High-Throughput Next Generation Sequencing: Methods and Applications is an excellent collection of chapters to aid all scientists who wish to apply these innovative research tools to enhance their own pursuits in microbiology and also biology in general.

Molecular Techniques in the Microbial Ecology of Fermented Foods

Molecular Techniques in the Microbial Ecology of Fermented Foods
  • Author : Luca Cocolin,Danilo Ercolini
  • Publisher :Unknown
  • Release Date :2007-12-15
  • Total pages :280
  • ISBN : 0387745203
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Summary : With the application of new analytical techniques, the field of food fermentation has grown in recent years. This book provides the latest information and relevant advances on the microbial ecology of fermented foods and the application of molecular methods. This book serves as a guide for students and researchers on the most advanced techniques to identify bacteria and helps in choosing the most appropriate tools to study fermented food from a microbiological point of view.

Viruses in Food and Water

Viruses in Food and Water
  • Author : N Cook
  • Publisher :Unknown
  • Release Date :2013-05-10
  • Total pages :560
  • ISBN : 9780857098870
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Summary : Viruses can be highly infectious and are capable of causing widespread disease outbreaks. The significance of viral pathogens in food and waterborne illness is increasingly being recognised and viruses transferred by these routes are important areas of research. Viruses in food and water reviews the risks, surveillance and control of food and waterborne viral disease. Part one provides an introduction to food and environmental virology. Part two goes on to explore methods of detection, surveillance and risk assessment of viruses in food and water; it includes chapters on molecular detection of viruses in foods and food processing environments, quality control in the analytical laboratory, and quantitative risk assessment for food and waterborne viruses. Part three focuses on virus transmission routes and control of food and water contamination. It contains chapters on fresh produce, shellfish and viral presence, and control methods in waste water and sewage. Finally, part four highlights particular pathogens including norovirus, hepatitis A and emerging zoonotic viruses. Viruses in food and water is a standard reference book for microbiologists in academia, analytical labs and the food and water treatment industries, as well as environmental health professionals and researchers working on foodborne viruses. Explores methods of detection, surveilance and risk assessment of viruses in food and water Considers virus transmission routes and control of food and water contamination Highlights advances in the understanding of specific pathogens, including norovirus, hepatitis A and rotaviruses and the advances in vaccine development

The Microbiology of Safe Food

The Microbiology of Safe Food
  • Author : Stephen J. Forsythe
  • Publisher :Unknown
  • Release Date :2019-11-11
  • Total pages :608
  • ISBN : 9781119405252
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Summary : Exploring food microbiology, its impact upon consumer safety, and the latest strategies for reducing its associated risks As our methods of food production advance, so too does the need for a fuller understanding of food microbiology and the critical ways in which it influences food safety. The Microbiology of Safe Food satisfies this need, exploring the processes and effects of food microbiology with a detailed, practical approach. Examining both food pathogens and spoilage organisms, microbiologist Stephen J. Forsythe covers topics ranging from hygiene regulations and product testing to microbiological criteria and sampling plans. This third edition has been thoroughly revised to cater to the food scientists and manufacturers of today, addressing such new areas as: Advances in genomic analysis techniques for key organisms, including E. coli, Salmonella, and L. monocytogenes Emerging information on high-throughput sequencing and genomic epidemiology based on genomic analysis of isolates Recent work on investigations into foodborne infection outbreaks, demonstrating the public health costs of unsafe food production Updates to the national and international surveillance systems, including social media Safe food for consumers is the ultimate goal of food microbiology. To that end, The Microbiology of Safe Food focuses on the real-world applications of the latest science, making it an essential companion for all those studying and working in food safety.

Next Generation Sequencing & Applications

Next Generation Sequencing & Applications
  • Author : Preethi Kartan
  • Publisher :Unknown
  • Release Date :2017-11
  • Total pages :366
  • ISBN : 1773611100
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Summary : Billions of spots of tiny genetic code comprise the human genome. It was DNA sequencing technology that had revolutionized genomic research by decoding the valuable genetic information by giving the picture of an exact order of occurrence of nucleotides in a DNA. The inception of first-generation sequencing method, also called Sanger sequencing took place in 1975. The first major breakthrough of first-generation sequencing comes, when the 13 year log Human Genome Project (HGP) was completed in 2003 at a cost $3 million. With ever increasing demands of researchers and clinicians, complex genomic research require a depth of information which is however beyond the capacity of traditional DNA sequencing technologies. These research questions gaps are very well addressed by Next-generation sequencing (NGS) has filled that gap of cheaper as well as faster sequencing technology. It is just a decade old technology, but it has popularize the next-generation sequencing to high-throughput sequencing hat allow millions to trillions of observations to be made in parallel during a single instrument run. Since the introduction of these technologies, the number of applications and methods that influence the power of genome-scale sequencing has increased exponentially. Although in genome research NGS has mostly superseded conventional Sanger sequencing, it has not yet translated into routine clinical practice. The following chapter will highlight the concepts, technologies, and methods of next-generation sequencing to illustrate the breadth and depth of the applications and research areas that are driving progress in genomics.

Microbial Technology for the Welfare of Society

Microbial Technology for the Welfare of Society
  • Author : Pankaj Kumar Arora
  • Publisher :Unknown
  • Release Date :2019-09-12
  • Total pages :341
  • ISBN : 9789811388446
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Summary : This book describes various aspects of modern microbiology including microbial enzymes, secondary metabolites, next-generation sequencing, microbial-based biopesticides, microbial-based cancer therapies, biodiesel, and microbial products from fermentation, biodegradation, bioremediation and wastewater treatment. Further, it explains how and why microbes play an important role in preserving the welfare of living beings and the environment. Many bacteria play a significant part in cleaning our environment by detoxifying various xenobiotic compounds, while several microbes produce secondary metabolites that are useful to human beings. The book is divided into 15 chapters that cover various aspects of microorganism-based biotechnology, including recent methodologies such as advanced molecular techniques, as well developments in classical microbiological techniques. The authors also explain how the latest and classical techniques are being used in modern-day microbial biotechnology. All chapters were written by experts from prominent universities, research laboratories, and institutes around the globe. Above all, they focus on recent advances in microbial technology that promote the welfare of living beings and the environment.

Advances in Food and Nutrition Research

Advances in Food and Nutrition Research
  • Author : Fidel Toldra
  • Publisher :Unknown
  • Release Date :2020-02-05
  • Total pages :336
  • ISBN : 9780128204719
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Summary : Advances in Food and Nutrition Research, Volume 91 provides updated knowledge about nutrients in foods and how to avoid their deficiency, especially for those essential nutrients that should be present in the diet to reduce disease risk and optimize health. Specific topics covered in this new release include Polyphenols in the management of brain disorders: Modulation of the microbiota-gut-brain axis, Protein and amino acids in skeletal muscle health in aging, Chemical composition and health properties of coffee and coffee by-products, Seaweed and seaweed-derived metabolites as prebiotics, Bioactive potential of fruit and vegetable wastes, and more. The series provides the latest advances on the identification and characterization of emerging bioactive compounds with putative health benefits, as well as up-to-date information on food science, including raw materials, production, processing, distribution and consumption. Contains contributions that have been carefully selected based on their vast experience and expertise on the subject Includes updated, in-depth, and critical discussions of available information, giving the reader a unique opportunity to learn Encompasses a broad view of the topics at hand

Public Health Microbiology

Public Health Microbiology
  • Author : J. F. T. Spencer,Alicia L. Ragout de Spencer
  • Publisher :Unknown
  • Release Date :2004
  • Total pages :548
  • ISBN : 9781592597666
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Summary : Public Health Microbiology is a collection of readily reproducible laboratory methods for the determination of various pathogenic microorganisms, their effects, and possible measures that can be taken to counter them.

Viruses in Foods

Viruses in Foods
  • Author : Sagar Goyal
  • Publisher :Unknown
  • Release Date :2007-01-15
  • Total pages :345
  • ISBN : 9780387292519
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Summary : This is the first book to focus entirely on viruses in foods. It collates information on the occurrence, detection, transmission, and epidemiology of viruses in various foods. Although methods for bacterial detection in food are available, methods for detection of viruses in food, with the exception of shellfish, are not available. It is important, therefore, to develop methods for direct examination of food for viruses and to explore alternate indicators that can accurately reflect the virological quality of food. This book addresses these issues along with strategies for the prevention and control of viral contamination of food.

Polymerase Chain Reaction for Biomedical Applications

Polymerase Chain Reaction for Biomedical Applications
  • Author : Ali Samadikuchaksaraei
  • Publisher :Unknown
  • Release Date :2016-12-14
  • Total pages :184
  • ISBN : 9789535127956
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Summary : Do you want to know the details that should be taken into consideration in order to have accurate conventional and real-time PCR results? If so, this book is for you. Polymerase Chain Reaction for Biomedical Applications is a collection of chapters for both novice and experienced scientists and technologists aiming to address obtaining an optimized real-time PCR result, simultaneous processing of a large number of samples and assays, performing PCR and RT-PCR on cell lysate without extraction of DNA or RNA, detecting false-positive PCR results, detecting organisms in viral and microbial diseases and hospital environment, following safety assessments of food products, and using PCR for introduction of mutations. This is a must-have book for any PCR laboratory.

Plant Genomics

Plant Genomics
  • Author : Ibrokhim Y. Abdurakhmonov
  • Publisher :Unknown
  • Release Date :2016-07-14
  • Total pages :310
  • ISBN : 9789535124559
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Summary : Plant genomics aims to sequence, characterize, and study the genetic compositions, structures, organizations, functions, and interactions/networks of an entire plant genome. Its development and advances are tightly interconnected with proteomics, metabolomics, metagenomics, transgenomics, genomic selection, bioinformatics, epigenomics, phenomics, system biology, modern instrumentation, and robotics sciences. Plant genomics has significantly advanced over the past three decades in the land of inexpensive, high-throughput sequencing technologies and fully sequenced over 100 plant genomes. These advances have broad implications in every aspect of plant biology and breeding, powered with novel genomic selection and manipulation tools while generating many grand challenges and tasks ahead. This Plant genomics provides some updated discussions on current advances, challenges, and future perspectives of plant genome studies and applications.

Food Molecular Microbiology

Food Molecular Microbiology
  • Author : Spiros Paramithiotis,Jayanta Kumar Patra
  • Publisher :Unknown
  • Release Date :2019-02-14
  • Total pages :252
  • ISBN : 9781351615105
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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.

Fermented Meat Products

Fermented Meat Products
  • Author : Nevijo Zdolec
  • Publisher :Unknown
  • Release Date :2017-11-22
  • Total pages :572
  • ISBN : 9781315352831
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Summary : This book presents recent developments on the health and safety of fermented meat products. It discusses health aspects of select topics in fermented meat microbiology, veterinary public health, chemistry, technology, biotechnology, nutrition, toxicology, and quality assurance, and gives a broad insight into the product’s safety and health hazards. The book considers the safety of fermented meat products through a whole food chain approach. It focuses on requirements for strict hygienic and technological procedures to prevent potential risk during the production of ready-to-eat products. The book does not aim to serve as negative publicity for meat products. Just the opposite – it points out to the complexity of prevention and control of potential hazards/risks in the production which greatly contributes to a higher total value of fermented meat products. This reference book is a result of collaborative efforts of a number of distinguished authors with international reputation from renowned institutions and it is intended to both academic and professional audience.

Metagenomics for Microbiology

Metagenomics for Microbiology
  • Author : Jacques Izard,Maria Rivera
  • Publisher :Unknown
  • Release Date :2014-11-07
  • Total pages :188
  • ISBN : 9780124105089
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Summary : Concisely discussing the application of high throughput analysis to move forward our understanding of microbial principles, Metagenomics for Microbiology provides a solid base for the design and analysis of omics studies for the characterization of microbial consortia. The intended audience includes clinical and environmental microbiologists, molecular biologists, infectious disease experts, statisticians, biostatisticians, and public health scientists. This book focuses on the technological underpinnings of metagenomic approaches and their conceptual and practical applications. With the next-generation genomic sequencing revolution increasingly permitting researchers to decipher the coding information of the microbes living with us, we now have a unique capacity to compare multiple sites within individuals and at higher resolution and greater throughput than hitherto possible. The recent articulation of this paradigm points to unique possibilities for investigation of our dynamic relationship with these cellular communities, and excitingly the probing of their therapeutic potential in disease prevention or treatment of the future. Expertly describes the latest metagenomic methodologies and best-practices, from sample collection to data analysis for taxonomic, whole shotgun metagenomic, and metatranscriptomic studies Includes clear-headed pointers and quick starts to direct research efforts and increase study efficacy, eschewing ponderous prose Presented topics include sample collection and preparation, data generation and quality control, third generation sequencing, advances in computational analyses of shotgun metagenomic sequence data, taxonomic profiling of shotgun data, hypothesis testing, and mathematical and computational analysis of longitudinal data and time series. Past-examples and prospects are provided to contextualize the applications.

Advances in Vinegar Production

Advances in Vinegar Production
  • Author : Argyro Bekatorou
  • Publisher :Unknown
  • Release Date :2019-09-11
  • Total pages :502
  • ISBN : 9781351208451
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Summary : In industrial vinegar production, there are three main types of methods involved; the slow, handcrafted, traditional method ("Orleans" or "French" method), and the rapid submerged and generator methods. The current trend is to fuse traditional techniques with state-of-the-art technologies, and a variety of approaches have been developed to increase fermentation efficiency and reduce cost and fermentation time. This book reports on all the recent innovations in vinegar production, and compares them to the traditional submerged fermentation systems. The new trends on raw materials, substrate pretreatment strategies, alcoholic fermentation, and acetitification systems are also reviewed.

Molecular Food Microbiology

Molecular Food Microbiology
  • Author : Dongyou Liu
  • Publisher :Unknown
  • Release Date :2021-04-11
  • Total pages :464
  • ISBN : 9781351120371
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Summary : The elucidation of DNA double helix in 1953 and the publication of DNA cloning protocol in 1973 have put wings under the sail of molecular biology, which has since quietly revolutionized many fields of biological science, including food microbiology. Exploiting the power and versatility of molecular technologies, molecular food microbiology extends and greatly improves on phenotypically based food microbiology, leading to the development of better diagnostics for foodborne infections and intoxications, and contributing to the design of more effective therapeutics and prophylaxes against foodborne diseases. Forming part of the Food Microbiology series, Molecular Food Microbiology provides a state of art coverage on molecular techniques applicable to food microbiology. While the introductory chapter contains an overview on the principles of current DNA, RNA and protein techniques and discusses their utility in helping solve practical problems that food microbiology is facing now and in the future, the remaining chapters present detailed moleuclar analyses of selective foodborne viruses, bacteria, fungi and parasites. Key Features: Contains a state of art overview on moleuclar techniques applicable to food microbiology research and development Presents in-depth molecular analysis of selective foodborne viruses, bacteria, fungi and parasites Highlights the utility of molecular tecniques for accurate diagnosis and effective control of foodborne diseases Includes expert contributions from international scientists involved in molecular food microbiology research Represents a highly informative textbook for students majoring in food, medical, and veterinary microbiology Offers a contemporary reference for scholars and educators wishing to keep abreast with the latest developments in molecular food microbiology With contributions from international scientists involved in molecular food microbiology research, this book constitutes an informative textbook for undergraduates and postgraduates majoring in food, medical, and veterinary microbiology; represents an indispensable guide for food, medical, and veterinary scientists engaged in molecular food microbiology research and development; and offers a contemporary update for scholars and educators trying to keep in touch with the latest developments in molecular food microbiology.