Virus Discovery by Metagenomics: The (Im)possibilities


Book Description

Since the late 1800s, the discovery of new viruses was a gradual process. Viruses were described one by one using a suite of techniques such as (electron) microscopy and viral culture. Investigators were usually interested in a disease state within an organism, and expeditions in viral ecology were rare. The advent of metagenomics using high-throughput sequencing has revolutionized not only the rate of virus discovery, but also the nature of the discoveries. For example, the viral ecology and etiology of many human diseases are being characterized, non-pathogenic viral commensals are ubiquitous, and the description of environmental viromes is making progress. This Frontiers in Virology Research Topic showcases how metagenomic and bioinformatic approaches have been combined to discover, classify and characterize novel viruses.




Infectious Diseases


Book Description

This volume on Infectious Diseases in an Encyclopedia of Sustainability Science and Technology (ESST) addresses the needs of health care providers and policy makers as well as scientists and engineers. Most of chapters in this volume deal with infectious diseases that directly affect humans, including the detailed characterization of specific pathogens, how they reproduce, how they are transmitted, and the means available to control, eliminate, or eradicate them. In this revised and updated second edition, the number of human infectious diseases covered has been significantly expanded. Other new chapters deal with current leading edge technologies for the diagnosis of pathogens; surveillance including environmental and syndromic surveillance for pathogens; requirements for quality assurance, quality control and the need for biological standards and controls to sustain high quality diagnosis and surveillance; the use of big data for personalized medicine; modeling infectious diseases; zoonotic and vector borne diseases; disease prevention with antibiotics, antivirals and vaccines; and factors that affect ecological balances leading to emergence of new diseases such as climate change and deforestation. Finally, infectious diseases that affect livestock and culture of plants for food, comfort and beauty are also addressed, since we must also consider them when discussing sustainability of humans in our ecosystem.




Geminivirus: Detection, Diagnosis and Management


Book Description

Geminivirus: Detection, Diagnosis and Management focuses on the latest techniques for managing diseases caused by these circular, single-stranded (ss) DNA genomes. The most significant impact of plant diseases in host populations is often caused by emerging diseases, whose incidence in a plant host is increasing as a result of long-term changes in their underlying epidemiology. Genetic changes in pathogen and host populations, as well as changes in host ecology and environment, are major factors contributing to disease emergence. Understanding plant virus evolution is crucial for modeling the within-host and between-host dynamics and genetics of virus populations. The book presents a comprehensive review of how these viruses develop, including contributing factors such as population bottlenecks during cell-to-cell movement, systemic colonization, or between-host transmission by different procedures. Presented in five sections—Detection and Diagnosis, Emergence and Diversity, Vector and Transmission, Virus–Host Interaction, and Disease Management, the book includes host range determinant and virulence factors involved in pathogenesis, virus–vector interactions during acquisition, retention, and transmission and evaluating management strategies to control Geminivirus. The book is an essential reference for students and researchers interested in plant virology, particularly begomoviruses, geminiviruses, and vector transmission biology. - Introduces identification and characterization of geminiviruses that infect agricultural crops, their wild relatives, and weed hosts - Discusses recombination and reassortment mechanisms influencing viral genetic diversity, virulence, and vector transmission - Explores the origin, evolution, and bottlenecks of Geminiviruses - Introduces identification and characterization of geminiviruses that infect agricultural crops, their wild relatives, and weed hosts - Discusses recombination and reassortment mechanisms influencing viral genetic diversity, virulence, and vector transmission - Explores the origin, evolution, and bottlenecks of Geminiviruses




Encyclopedia of Virology


Book Description

Encyclopedia of Virology, Fourth Edition, Five Volume Set builds on the solid foundation laid by the previous editions, expanding its reach with new and timely topics. In five volumes, the work provides comprehensive coverage of the whole virosphere, making this a unique resource. Content explores viruses present in the environment and the pathogenic viruses of humans, animals, plants and microorganisms. Key areas and concepts concerning virus classification, structure, epidemiology, pathogenesis, diagnosis, treatment and prevention are discussed, guiding the reader through chapters that are presented at an accessible level, and include further readings for those needing more specific information. More than ever now, with the Covid19 pandemic, we are seeing the huge impact viruses have on our life and society. This encyclopedia is a must-have resource for scientists and practitioners, and a great source of information for the wider public. Offers students and researchers a one-stop shop for information on virology not easily available elsewhere Fills a critical gap of information in a field that has seen significant progress in recent years Authored and edited by recognized experts in the field, with a range of different expertise, thus ensuring a high-quality standard




Metagenomics


Book Description




Viral Metagenomics


Book Description

This second edition volume expands on the previous edition with discussions about the latest viral metagenomics aspects covering a range of different specimens such as soil, freshwater, wastewater, fecal samples, blood plasma, clinical tissues, fungi, and herbarium samples. Chapters also look at different viral groups including archaeal viruses, eukaryotic viruses, phages, mycoviruses, and circular DNA viruses. Techniques required for studying the three viral metagenomic steps of samples processing, library construction, and analysis of data are also discussed. 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. Authoritative and cutting-edge, Vital Metagenomics: Methods and Protocols, Second Edition is a valuable resource for researchers who are interested in learning more about this important and developing field.




Farm Animals Diseases, Recent Omic Trends and New Strategies of Treatment


Book Description

The scope of this book is to present the most recent trends based on omic analyses of microorganisms causing diseases in farm animals and how these approaches result in new strategies of treatment. The topics in this book include fasciolosis, avian coccidiosis, bovine anaplasmosis, tick-borne diseases, and babesiosis, among others. This book presents the recent advances in the omic field with an emphasis on how these analyses have led researchers to know the mechanisms that pathogens use to invade and colonize the host cell of farm animals. In this way, new treatments of control and prevention can be employed.




Functional Metagenomics: Tools and Applications


Book Description

In this book, the latest tools available for functional metagenomics research are described.This research enables scientists to directly access the genomes from diverse microbial genomes at one time and study these “metagenomes”. Using the modern tools of genome sequencing and cloning, researchers have now been able to harness this astounding metagenomic diversity to understand and exploit the diverse functions of microorganisms. Leading scientists from around the world demonstrate how these approaches have been applied in many different settings, including aquatic and terrestrial habitats, microbiomes, and many more environments. This is a highly informative and carefully presented book, providing microbiologists with a summary of the latest functional metagenomics literature on all specific habitats.




Vector-Borne Diseases


Book Description

Vector-Borne Diseases - Recent Developments in Epidemiology and Control utilizes the unique capabilities of open-access publishing to share exciting developments in the biology, diagnosis, and treatment of diseases spread by arthropods. From malaria to dengue to leishmaniasis, the diseases addressed in this book continue to present threats to the life and well-being of millions around the world. The international cast of writers published here provide specific insight into a full spectrum of diseases spread by insects and their close relatives.




Gene Prediction


Book Description

This volume introduces software used for gene prediction with focus on eukaryotic genomes. The chapters in this book describe software and web server usage as applied in common use-cases, and explain ways to simplify re-annotation of long available genome assemblies. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary computational requirements, step-by-step, readily reproducible computational protocols, and tips on troubleshooting and avoiding known pitfalls. Cutting-edge and thorough, Gene Prediction: Methods and Protocols is a valuable resource for researchers and research groups working on the assembly and annotation of single species or small groups of species. Chapter 3 is available open access under a CC BY 4.0 license via link.springer.com.