Ecological Genomics of Fungi

THE EDITORFrancis Martin is the Head of Lab of Excellence for Advanced Research on the Biology of Tree and Forest Ecosystems at the French National Institute for Agricultural Science (INRA).

“I think the volume may succeed in its ambition to serve as a catalyst for further studies by showing researchers venturing into ecological genomics and those already in genomics the width of the field. This may, in turn, further more integrative studies that will benefit our understanding of fungi.”  (The Quarterly Review of Biology, 1 October 2015)

• Contributors viiPreface xiiiSection 1 Sequencing Fungal Genomes 11 A Changing Landscape of Fungal Genomics 3Igor V. Grigoriev2 Repeated Elements in Filamentous Fungi with a Focus on Wood-Decay Fungi 21Claude Murat, Thibaut Payen, Denis Petitpierre, and Jessy LabbéSection 2 Saprotrophic Fungi 413 Wood Decay 43Dan Cullen4 Aspergilli and Biomass-Degrading Fungi 63Isabelle Benoit, Ronald P. de Vries, Scott E. Baker, and Sue A. Karagiosis5 Ecological Genomics of Trichoderma 89Irina S. Druzhinina and Christian P. KubicekSection 3 Plant-Interacting Fungi 1176 Dothideomycetes: Plant Pathogens, Saprobes, and Extremophiles 119Stephen B. Goodwin7 Biotrophic Fungi (Powdery Mildews, Rusts, and Smuts) 149Sébastien Duplessis, Pietro D. Spanu, and Jan Schirawski8 The Mycorrhizal Symbiosis Genomics 169Francis Martin and Annegret Kohler9 Lichen Genomics: Prospects and Progress 191Martin Grube, Gabriele Berg, ólafur S. Andrésson, Oddur Vilhelmsson, Paul S. Dyer, and Vivian P.W. MiaoSection 4 Animal-Interacting Fungi 21310 Ecogenomics of Human and Animal Basidiomycetous Yeast Pathogens 215Sheng Sun, Ferry Hagen, Jun Xu, Tom Dawson, Joseph Heitman, James Kronstad, Charles Saunders, and Teun Boekhout11 Genomics of Entomopathogenic Fungi 243Chengshu Wang and Raymond J. St. Leger12 Ecological Genomics of the Microsporidia 261Nicolas Corradi and Patrick J. KeelingSection 5 Metagenomics and Biogeography of Fungi 27913 Metagenomics for Study of Fungal Ecology 281Björn D. Lindahl and Cheryl R. Kuske14 Metatranscriptomics of Soil Eukaryotic Communities 305Laurence Fraissinet-Tachet, Roland Marmeisse, Lucie Zinger, and Patricia Luis15 Fungi in Deep-Sea Environments and Metagenomics 325Stéphane Mahé, Vanessa Rédou, Thomas Le Calvez, Philippe Vandenkoornhuyse, and Gaëtan Burgaud16 The Biodiversity, Ecology, and Biogeography of Ascomycetous Yeasts 355Marc-André LachanceIndex 371