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The Ecological Genomics of Fungi

Author: Francis Martin

Publisher: John Wiley & Sons

Published: 2013-12-31

Total Pages: 0

ISBN-13: 1119946107

This unique book covers a broad diversity of fungal systems and provides unique insight into the functions of those fungi in various ecosystems – from soil, to plant, to human. Bringing together fungal genomic information on a variety of lifestyles and traits, the book covers saprotrophism, pathogenesis (including biotrophs, hemibiotrophs, necrotrophs) and symbiosis. Advances in high-throughput sequencing now offer unprecedented opportunities for identification of novel key molecular mechanisms controlling plant-microbe interactions, evolution of fungi and developmentally- and ecologically-relevant traits, this book explores how these massive streams of fungal sequences can be exploited to gain a deeper understanding of the evolution of fungi and their ecological role. Although tremendous progress has been made in recent years in fungal genomics, thanks to the sequencing of over one hundred fungal genomes, until now no book has used this information to bridge fungal genomics, molecular ecology and ecology. Edited by a recognized leader in fungal genomics and soil metagenomics with over a decade of experience, Genomics & Metagenomics for Harnessing the Ecology of Fungi will be a useful resource for the experienced as well as the new researchers entering the field.

Ecological Genomics of Fungi

Author: Wayne M. Jurick II

Publisher:

Published: 2018-06

Total Pages: 380

ISBN-13: 9781642230116

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Fungi are cryptic, understudied and hyperdiverse organisms. Fungi are poorly documented organisms and the phylogenetic relationships within the kingdom are not yet fully understood, but recent efforts have been shedding light on the evolutionary history of the Fungi. Fungi have been known and used by humans for centuries, but mycology traces beginnings to the 18th century, with the development of the microscope. While much has been discovered since then, fungi remain today a cryptic and understudied group of organisms. The tools of molecular biology and genomics can help us meet this challenge. Over the past decades, genomics, and genome sequencing in particular, have emerged as powerful tools for biological research. In the last few years, due to the introduction of the next-generation sequencing (NGS) technologies, these tools went through dramatic transformations. Ecological Genomics of Fungi brings together studies related to pathogenic fungi, fungal biology, and all other aspects of fungal research. It covers a broad diversity of fungal systems and provides unique insight into the functions of those fungi in various ecosystems - from soil, to plant, to human. It also discusses tools, applications, and the most recent developments available to explore the biology of soil fungi at the molecular level. This book addresses the wonders of fungal diversity, including recent advances on the understanding of the evolution of the kingdom Fungi, approaches to documenting and interpreting fungal diversity, and current efforts concerning fungal conservation. The book also includes investigations of fungi and their traditional allies that relate structure and function to growth, reproduction, morphogenesis, differentiation, its role as pathogen and parasites, its applications in various fields like industry and agriculture and medicinal uses.

Ecological Genomics

Author: Christian R. Landry

Publisher: Springer Science & Business Media

Published: 2013-11-25

Total Pages: 358

ISBN-13: 9400773471

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Researchers in the field of ecological genomics aim to determine how a genome or a population of genomes interacts with its environment across ecological and evolutionary timescales. Ecological genomics is trans-disciplinary by nature. Ecologists have turned to genomics to be able to elucidate the mechanistic bases of the biodiversity their research tries to understand. Genomicists have turned to ecology in order to better explain the functional cellular and molecular variation they observed in their model organisms. We provide an advanced-level book that covers this recent research and proposes future development for this field. A synthesis of the field of ecological genomics emerges from this volume. Ecological Genomics covers a wide array of organisms (microbes, plants and animals) in order to be able to identify central concepts that motivate and derive from recent investigations in different branches of the tree of life. Ecological Genomics covers 3 fields of research that have most benefited from the recent technological and conceptual developments in the field of ecological genomics: the study of life-history evolution and its impact of genome architectures; the study of the genomic bases of phenotypic plasticity and the study of the genomic bases of adaptation and speciation.

Genomics of Soil- and Plant-Associated Fungi

Author: Benjamin A. Horwitz

Publisher: Springer Science & Business Media

Published: 2013-08-30

Total Pages: 394

ISBN-13: 364239339X

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This volume addresses the similarities and also the differences in the genomes of soil saprophytes, symbionts, and plant pathogens by using examples of fungal species to illustrate particular principles. It analyzes how the specific interactions with the hosts and the influence of the environment may have shaped genome evolution. The relevance of fungal genetic research and biotechnological applications is shown for areas such as plant pathogenesis, biomass degradation, litter decomposition, nitrogen assimilation, antibiotic production, mycoparasitism, energy, ecology, and also for soil fungi turning to human pathogens. In addition to the model organisms Neurospora and Aspergillus, the following species are covered providing a view of pathogens and mutualists: Trichoderma, Fusarium oxysporum, Cochliobolus heterostrophus, Penicillium chrysogenum, Rhizopus oryzae, Podospora anserina, and species belonging to Agaricomycetes, Archaeorhizomycetes and Magnaporthaceae. Ecology and potential applications have guided the choice of fungal genes to be studied and it will be fascinating to follow the trends of future sequencing projects.

Fungal Genomics

Author: Ronald P. de Vries

Publisher: Humana

Published: 2019-06-21

Total Pages: 291

ISBN-13: 9781493992904

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This volume details protocols covering nearly all aspects of fungal genomics. New and updated chapters guide the reader through experimental genomics, biotechnologies, and the analysis and processing of data. 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 practical, Fungal Genomics : Methods and Protocols, Second Edition aims to ensure successful results in the further study of this vital field.

An Introduction to Ecological Genomics

Author: Nico M. van Straalen

Publisher: OUP Oxford

Published: 2011-10-27

Total Pages: 374

ISBN-13: 0191624616

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The genomics revolution has expanded from its origins in molecular biology to impact upon every discipline in the life sciences, including ecology. Several lines of ecological research can now be profitably addressed using genomics technology, including issues of nutrient cycling, population structure, life-history variation, trophic interaction, stress responses, and adaptation to environmental change. This new edition addresses a series of fundamental ecological questions: the relationship between community structure and ecological function in ecosystems; how variation in life-history patterns among species can be explained from interaction between the genome and the environment; the molecular responses to changing and toxic environmental conditions; adaptive phenotypes and their relationship to genetic variation. Each of these questions is evaluated in the light of recent advances in genomics research, paying particular attention to data obtained from sequencing and screening of environmental genomes (metagenomics), microarray-based transcription profiling, gene expression directed by signal-transduction pathways, and the analysis of genomic polymorphisms. The chapters covering these key areas are preceded by discussions of genomics methodology (including an overview of next-generation sequencing technologies) and comparative genomics, and the book concludes with a chapter on integrative approaches such as ecological control analysis. The authors also provide a comparative survey of the properties of genomes (genome size, gene families, synteny, and polymorphism) for prokaryotes as well as the main eukaryotic models. An Introduction to Ecological Genomics incorporates a balance of plant, animal, and microbial examples, and continues to define the new and exciting field of ecological genomics.

The Fungal Community

Author: John Dighton

Publisher: CRC Press

Published: 1992-06-26

Total Pages: 1028

ISBN-13: 9780824786052

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Entirely rewritten and updated throughout, this Second Edition maintains and enhances the features of the first edition. The Fungal Community, Second Edition continues to cover the entire spectrum of fungal ecology, from studies of individual fungal populations to the functional role of fungi at the ecosystem level, and to present mycological ecology as a rational, organized body of knowledge.;Acting as a bridge between mycological data and ecological theory, The Fungal Community, Second Edition offers such new features as an emphasis on the nonequilibrium perspective, including the impact of habitat disturbance and environmental stress; more information on the ecological genetics of fungal populations; a chapter on the fitness of genetically altered fungi when released into the environment; an examination of fungal morphological and physiological adaptations from the evolutionary ecologist's point-of-view; an explication of the effect of fungi and insect interactions on fungal community structure and decomposition processes; a section on the importance of fungi in determining patterns of plant community development; and a chapter on modeling fungal contributions to decomposition and nutrient cycling in ecosystems.;With over 3700 references, The Fungal Community, Second Edition is a resource for mycologists; microbial ecologists; microbiologists; geneticists; virologists; plant pathologists; cell and molecular biologists; biotechnologists; soil, forest, and environmental scientists; and graduate-level students in these disciplines.

Fungi in Extreme Environments: Ecological Role and Biotechnological Significance

Author: Sonia M. Tiquia-Arashiro

Publisher: Springer

Published: 2019-07-22

Total Pages: 626

ISBN-13: 3030190307

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Over the last decades, scientists have been intrigued by the fascinating organisms that inhabit extreme environments. These organisms, known as extremophiles, thrive in habitats which for other terrestrial life-forms are intolerably hostile or even lethal. Based on such technological advances, the study of extremophiles has provided, over the last few years, ground-breaking discoveries that challenge the paradigms of modern biology. In the new bioeconomy, fungi in general, play a very important role in addressing major global challenges, being instrumental for improved resource efficiency, making renewable substitutes for products from fossil resources, upgrading waste streams to valuable food and feed ingredients, counteracting life-style diseases and antibiotic resistance through strengthening the gut biota, making crop plants more robust to survive climate change conditions, and functioning as host organisms for production of new biological drugs. This range of new uses of fungi all stand on the shoulders of the efforts of mycologists over generations. The book is organized in five parts: (I) Biodiversity, Ecology, Genetics and Physiology of Extremophilic Fungi, (II) Biosynthesis of Novel Biomolecules and Extremozymes (III) Bioenergy and Biofuel synthesis, and (IV) Wastewater and biosolids treatment, and (V) Bioremediation.

Evolution of Fungi and Fungal-Like Organisms

Author: Stefanie Pöggeler

Publisher: Springer Nature

Published: 2023-09-12

Total Pages: 331

ISBN-13: 3031291999

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Sequence analyses of numerous fungal genomes over the past two decades have provided us with extensive insights into the phylogenetic relationships of fungi and the distribution of genes and their inferred functions, across the fungal kingdom. It is now possible to answer questions about the origin of the fungal kingdom and fungal evolution with an analytical precision that was not possible before. This fully revised and updated 2nd edition of The Mycota, Vol. 14, addresses major aspects of fungal evolution. The book is divided into four sections covering the following main topics: • Evolutionary roots of fungi • Evolution of pathogenic strategies • Evolution of mutualistic interactions • Evolution of metabolism and development in fungi Fungi are among the oldest eukaryotic groups in the living world. The aim of this book is to better understand the history and importance of fungi, as well as the characteristics that distinguish them from their sister group, the metazoans, and other fungus-like groups such as the slime molds and oomycetes. Many fungal species are important pathogens of animals and plants and have distinct but parallel pathogenicity strategies. Mutualistic interactions of fungi with other organisms are crucial for their survival in different ecological niches and have a great influence on their evolution and the design of their genomes. Metabolism is one of the most important features of life, and the diversity of metabolic processes is best understood by considering evolution. Studies of fungal metabolism have traditionally focused on metabolites of particular interest, namely mycotoxins, pathogenicity factors, antibiotics, and other compounds with interspecific activity. This volume will be of great interest to mycologists, evolutionary biologists, and fungal geneticists, as well as to lecturers and students of microbiology and mycology.

The Fungal Kingdom

Author: Joseph Heitman

Publisher: John Wiley & Sons

Published: 2020-07-10

Total Pages: 1136

ISBN-13: 1555819583

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Fungi research and knowledge grew rapidly following recent advances in genetics and genomics. This book synthesizes new knowledge with existing information to stimulate new scientific questions and propel fungal scientists on to the next stages of research. This book is a comprehensive guide on fungi, environmental sensing, genetics, genomics, interactions with microbes, plants, insects, and humans, technological applications, and natural product development.