Title: The Fungal Tree of Life: From Molecular Systematics to Genome-Scale Phylogenies
Abstract: Chapter 1 The Fungal Tree of Life: From Molecular Systematics to Genome-Scale Phylogenies Joseph W. Spatafora, Joseph W. Spatafora Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR, 97331Search for more papers by this authorM. Catherine Aime, M. Catherine Aime Department of Botany and Plant Pathology, Purdue University, West Lafayette, IN, 47907Search for more papers by this authorIgor V. Grigoriev, Igor V. Grigoriev U.S. Department of Energy Joint Genome Institute, Walnut Creek, CA, 94598Search for more papers by this authorFrancis Martin, Francis Martin Institut National de la Recherche Agronomique, Unité Mixte de Recherche 1136 Interactions Arbres/Microorganismes, Laboratoire d'Excellence Recherches Avancés sur la Biologie de l'Arbre et les Ecosystèmes Forestiers (ARBRE), Centre INRA-Lorraine, 54280 Champenoux, FranceSearch for more papers by this authorJason E. Stajich, Jason E. Stajich Department of Plant Pathology and Microbiology and Institute for Integrative Genome Biology, University of California–Riverside, Riverside, CA, 92521Search for more papers by this authorMeredith Blackwell, Meredith Blackwell Department of Biological Sciences, Louisiana State University, Baton Rouge, LA, 70803 Department of Biological Sciences, University of South Carolina, Columbia, SC, 29208Search for more papers by this author Joseph W. Spatafora, Joseph W. Spatafora Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR, 97331Search for more papers by this authorM. Catherine Aime, M. Catherine Aime Department of Botany and Plant Pathology, Purdue University, West Lafayette, IN, 47907Search for more papers by this authorIgor V. Grigoriev, Igor V. Grigoriev U.S. Department of Energy Joint Genome Institute, Walnut Creek, CA, 94598Search for more papers by this authorFrancis Martin, Francis Martin Institut National de la Recherche Agronomique, Unité Mixte de Recherche 1136 Interactions Arbres/Microorganismes, Laboratoire d'Excellence Recherches Avancés sur la Biologie de l'Arbre et les Ecosystèmes Forestiers (ARBRE), Centre INRA-Lorraine, 54280 Champenoux, FranceSearch for more papers by this authorJason E. Stajich, Jason E. Stajich Department of Plant Pathology and Microbiology and Institute for Integrative Genome Biology, University of California–Riverside, Riverside, CA, 92521Search for more papers by this authorMeredith Blackwell, Meredith Blackwell Department of Biological Sciences, Louisiana State University, Baton Rouge, LA, 70803 Department of Biological Sciences, University of South Carolina, Columbia, SC, 29208Search for more papers by this author Book Editor(s):Joseph Heitman, Joseph Heitman Department of Molecular Genetics and Microbiology, Duke University Medical Center, Durham, North CarolinaSearch for more papers by this authorBarbara J. Howlett, Barbara J. Howlett School of Biosciences, The University of Melbourne, Victoria, NSW, AustraliaSearch for more papers by this authorPedro W. Crous, Pedro W. Crous CBS-KNAW Fungal Diversity Centre, Royal Dutch Academy of Arts and Sciences, Utrecht, The NetherlandsSearch for more papers by this authorEva H. Stukenbrock, Eva H. Stukenbrock Environmental Genomics, Christian-Albrechts University of Kiel, Kiel, Germany Max Planck Institute for Evolutionary Biology, Plön, GermanySearch for more papers by this authorTimothy Y. James, Timothy Y. James Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MichiganSearch for more papers by this authorNeil A. R. Gow, Neil A. R. Gow School of Medical Sciences, University of Aberdeen, Fosterhill, Aberdeen, United KingdomSearch for more papers by this author First published: 05 September 2017 https://doi.org/10.1128/9781555819583.ch1 AboutPDFPDF ToolsRequest permissionExport citationAdd to favoritesTrack citation ShareShareShare a linkShare onFacebookTwitterLinked InRedditWechat Summary In 1996 the genome of Saccharomyces cerevisiae was published and marked the beginning of a new era in fungal biology (1). Since then, rapid advancements in both sequencing technologies and computational biology have resulted in the sequencing of genomes for more than 800 species (e.g., http://genome.jgi.doe.gov/fungi/). These genomes represent a windfall of data that are informing evolutionary studies of fungi and the search for biological solutions to alternative fuels, bioremediation, carbon sequestration, and sustainable agriculture and forestry (2). Indeed, the marriage between genomics and phylogenetics occurred early, both in the use of phylogenetic techniques to study genome evolution and in the use of genome-scale data to infer evolutionary relationships. In this article we will review the impact of genomic-scale phylogenies, along with standard molecular phylogenies, on our understanding of the evolution of the fungal tree of life and the classification that communicates it. The Fungal Kingdom RelatedInformation