The ecological genomics of fungi/ Francis Martin

1 A Changing Landscape of Fungal Genomics 3
Igor V. Grigoriev
2 Repeated Elements in Filamentous Fungi with a Focus
on Wood-Decay Fungi 21
Claude Murat,Thibaut Payen, Denis Petitpierre, and Jessy Labbe
Section 2 Saprotrophic Fungi 41
3 Wood Decay 43
Dan Cullen
4 Aspergilli and Biomass-Degrading Fungi 63
Isabelle Benoit, Ronald P. de Vries, Scott E. Baker,
and Sue A. Karagiosis
5 Ecological Genomics of Trichoderma 89
Irina S. Druzhinina and Christian P. Kubicek
Section 3 Plant-Interacting Fungi 117
6 Dothideomycetes: Plant Pathogens, Saprobes, and Extremophiles 119
Stephen B. Goodwin
7 Biotrophic Fungi (Powdery Mildews, Rusts, and Smuts) 149
Sebastien Duplessis, Pietro D. Spanu, and Jan Schirawski
8 The Mycorrhizal Symbiosis Genomics 169
Francis Martin and Annegret Kohler
9 Lichen Genomics: Prospects and Progress 191
Martin Grube, Gabriele Berg, Olafur S. Andresson,
Oddur Vilhelmsson, Paul S. Dyer, and Vivian P.W. Miao
Vi CONTENTS
Section 4 Animal-Interacting Fungi 213
10 Ecogenomics of Human and Animal Basidiomycetous
Yeast Pathogens 215
Sheng Sun, Ferry Hagen, Jun Xu, Tom Dawson, Joseph Heitman,
James Kronstad, Charles Saunders, and Teun Boekhout
11 Genomics Of Entomopathogenic Fungi 243
Chengshu Wang and Raymond J. St. Leger
12 Ecological Genomics of the Microsporidia 261
Nicolas Corradi and Patrick J. Keeling
Section 5 Metagenomics and Biogeography of Fungi 279
13 Metagenomics for Study of Fungal Ecology 281
Bjorn D. Lindahl and Cheryl R. Kuske
14 Metatranscriptomics of Soil Eukaryotic Communities 305
Laurence Fraissinet-Tachet, Roland Marmeisse,
Lucie Zinger, and Patricia Luis
15 Fungi in Deep-Sea Environments and Metagenomics 325
Stephane Mah^, Vanessa Redou, Thomas Le Calvez,
Philippe Vandenkoornhuyse, and Gaetan Burgaud
16 The Biodiversity, Ecology, and Biogeography
Index
of Ascomycetous Yeasts
Marc-Andre Lachance