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Fungi - 1st Edition - ISBN: 9780123979407, 9780123984777

Fungi, Volume 70

1st Edition

Serial Volume Editor: Francis Martin
Hardcover ISBN: 9780123979407
eBook ISBN: 9780123984777
Imprint: Academic Press
Published Date: 19th May 2014
Page Count: 488
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Table of Contents

  • Preface
    • Fungal–Plant Interactions: A Never Ending Story of Friends and Foes
    • Acknowledgement
  • Chapter One: Fungal Genomics: Sequencing and Annotation
    • Abstract
    • 1 Introduction
    • 2 What Is Genome Assembly, and How to Do It
    • 3 What Is Annotation, and Why Do It
    • 4 What to Do with the Annotation Once You've Got It
    • 5 Genomics of Plant–Microbe Interactions: What's Next?
    • 6 Conclusion
    • Acknowledgements
  • Chapter Two: Exploring the Transcriptome of Mycorrhizal Interactions
    • Abstract
    • 1 Introduction
    • 2 Microarrays Versus Deep Sequencing
    • 3 Dual Transcriptomics of Plant–Fungus Interaction: Monitoring Both Partners at the Same Time
    • 4 Combination of Transcriptomics and Microdissection
    • 5 Bioinformatic Tools for RNA-Seq Data Analysis
    • 6 Mycorrhizal Transcriptomes in the Genome Era
    • 7 Outlook
    • Acknowledgements
  • Chapter Three: Evolutionary and Adaptive Role of Transposable Elements in Fungal Genomes
    • Abstract
    • 1 Introduction
    • 2 TEs and Speciation in Fungi
    • 3 TEs and Adaptation to Host Plant and Plant Disease Resistance
    • 4 Concluding Remarks
    • Acknowledgements
  • Chapter Four: The Genomics of Powdery Mildew Fungi: Past Achievements, Present Status and Future Prospects
    • Abstract
    • 1 General Introduction
    • 2 Biology of Powdery Mildew Infection
    • 3 Genomic Insights into the Obligate Biotrophic Lifestyle
    • 4 Comparative Genomics of Powdery Mildew Isolates: Insights into Their Reproductive Mode and Their Evolutionary Origin
    • 5 Powdery Mildew Effector Research in the Genomic Area
    • 6 Transcriptomics of Powdery Mildew Fungi
    • 7 Future Challenges in Powdery Mildew Research
    • Acknowledgements
  • Chapter Five: Functional Genomics of Smut Fungi: From Genome Sequencing to Protein Function
    • Abstract
    • 1 Introduction
    • 2 The U. maydis Genome
    • 3 Effector Clusters of U. maydis
    • 4 Genome Comparison of Smut Fungi
    • 5 Organ Specificity in the U. maydis: Maize Interaction
    • 6 Functional Effector Biology
    • 7 Adaptation to the Host Environment
    • 8 Summary and Future Perspectives
    • Acknowledgements
  • Chapter Six: Advancing Knowledge on Biology of Rust Fungi Through Genomics
    • Abstract
    • 1 Introduction
    • 2 Rust Fungi in the Genomics Era
    • 3 Rust Transcriptomics
    • 4 Rust Secretome, Effectors, and Avirulent Genes
    • 5 Population Genomics: From Genomes to Landscapes
    • 6 Coming Up Next in Rust Genomics
    • Acknowledgements
  • Chapter Seven: Truffle Phylogenomics: New Insights into Truffle Evolution and Truffle Life Cycle
    • Abstract
    • 1 Introduction
    • 2 Truffle Diversity and Phylogeography
    • 3 Harnessing Genomes to Unravel the Black Périgord Truffle Life Cycle
    • 4 Comparative Genomic in Pezizomycetes
    • 5 Concluding Remarks
    • Acknowledgements
  • Chapter Eight: The Natural Histories of Species and Their Genomes: Asymbiotic and Ectomycorrhizal Amanita Fungi
    • Abstract
    • 1 Introduction
    • 2 The Fungi and Their Genomes
    • 3 Ecological Genomics of Asymbiotic and ECM Amanita Species
    • 4 Unanswered Questions: Range Expansions and Genomic Architectures
    • Acknowledgements
  • Chapter Nine: Genomics of Arbuscular Mycorrhizal Fungi: Out of the Shadows
    • Abstract
    • 1 Introduction
    • 2 Toward the Genome of Rhizophagus Irregularis DAOM197198
    • 3 The Biology of Rhizophagus Irregularis from Its Gene Repertoire
    • 4 Conclusion and Perspectives
    • Acknowledgements
  • Chapter Ten: Genomes of Plant-Associated Clavicipitaceae
    • Abstract
    • 1 Introduction
    • 2 Sequenced Genomes of the Clavicipitaceae
    • 3 Alkaloid Gene Loci
    • 4 Future Perspectives
    • Acknowledgments
  • Chapter Eleven: Genomics, Lifestyles and Future Prospects of Wood-Decay and Litter-Decomposing Basidiomycota
    • Abstract
    • 1 Introduction: Plant and Soil Organic Matter
    • 2 Wood and Litter Decay and Fungal Lifestyles
    • 3 Fungal Enzymes in Degradation of Plant Lignocellulose Carbohydrates: Genomic View
    • 4 Lignin Breakdown and Lignin-Modifying Enzymes
    • 5 Phanerochaete chrysosporium and Wood Decay
    • 6 Conclusions and Outlook
  • Chapter Twelve: Heterobasidion annosum s.l. Genomics
    • Abstract
    • 1 Introduction
    • 2 Intraspecific Interactions
    • 3 Hybridisation
    • 4 Genomics
    • 5 Genome Secrets
    • 6 Future Prospects
    • Acknowledgements
  • Chapter Thirteen: Speciation Genomics of Fungal Plant Pathogens
    • Abstract
    • 1 Fungal Speciation
    • 2 The Genetics of Speciation: A Population Genetics Perspective
    • 3 The Genomics of Speciation
    • 4 Speciation in Plant Pathogenic Fungi: Examples from Genome Studies
    • 5 Experimental Evolution and the Identification of “Dobzhansky–Muller Incompatibilities”: Integrating Experimental, Genomic and Transcriptomic Approaches in Model Fungi
    • 6 Conclusions: Species and Species Dynamics of Fungal Plant Pathogens
    • 7 Future Perspectives
    • Acknowledgements
  • Author Index
  • Subject Index


Advances in Botanical Research publishes in-depth and up-to-date reviews on a wide range of topics in plant sciences. Currently in its 70th volume, the series features several reviews by recognized experts on all aspects of plant genetics, biochemistry, cell biology, molecular biology, physiology and ecology. This thematic volume features reviews on fungi, including pathogenic fungi, symbiotic fungi, saprotrophic fungi and population genomics.

Key Features

  • Publishes in-depth and up-to-date reviews on a wide range of topics in plant sciences
  • Features a wide range of reviews by recognized experts on all aspects of plant genetics, biochemistry, cell biology, molecular biology, physiology, and ecology
  • Volume features reviews on fungi, including pathogenic fungi, symbiotic fungi, saprotrophic fungi, and population genomics


Postgraduates and researchers in plant sciences, including botany, plant biochemistry, plant physiology, plant pathology, virology, entomology, and molecular biology


No. of pages:
© Academic Press 2014
19th May 2014
Academic Press
Hardcover ISBN:
eBook ISBN:

Ratings and Reviews

About the Serial Volume Editor

Francis Martin

Francis Martin

Francis Martin received a bachelors degree from the Plant Biology Department of Nancy University (France), a Ph.D. from this University and a Science Doctorat from Paris XI-Orsay University. He spent one year as a Post-doctoral Fellow at the Department of Biochemistry at the University of California Los Angeles (UCLA). He worked at the CSIRO Forestry Research Department in Perth (Western Australia) and at USDA Plant-Soil Biophysics Department at Wyndmoor (PA).

He joined the INRA Forestry Center in 1981 where he built up a research group on the physiology and molecular biology of the ectomycorrhizal symbiosis. He headed the Tree-Microbes Interactions Department and is now heading the Cluster of Excellence ARBRE (Advanced Research on Tree Biology and Forest Ecology).

His main research projects are currently dealing with (1) comparative genomics of lifestyles in Fungi and (2) signalling pathways/effectors in ectomycorrhizal interactions. In 2012, he was awarded the INRA Laurel Wreath of Excellence Award for my work on tree-microbe interactions and fungal genomics.

Affiliations and Expertise

Ecogenomics of Interactions' Lab, UMR Interactions, Arbres/Micro-Organismes, France