Molecular Genetic Approaches Toward Understanding Forest-Associated Fungi and Their Interactive Roles Within Forest Ecosystems
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Fungal Diversity in the Mediterranean Area
Fungal Diversity in the Mediterranean Area • Giuseppe Venturella Fungal Diversity in the Mediterranean Area Edited by Giuseppe Venturella Printed Edition of the Special Issue Published in Diversity www.mdpi.com/journal/diversity Fungal Diversity in the Mediterranean Area Fungal Diversity in the Mediterranean Area Editor Giuseppe Venturella MDPI • Basel • Beijing • Wuhan • Barcelona • Belgrade • Manchester • Tokyo • Cluj • Tianjin Editor Giuseppe Venturella University of Palermo Italy Editorial Office MDPI St. Alban-Anlage 66 4052 Basel, Switzerland This is a reprint of articles from the Special Issue published online in the open access journal Diversity (ISSN 1424-2818) (available at: https://www.mdpi.com/journal/diversity/special issues/ fungal diversity). For citation purposes, cite each article independently as indicated on the article page online and as indicated below: LastName, A.A.; LastName, B.B.; LastName, C.C. Article Title. Journal Name Year, Article Number, Page Range. ISBN 978-3-03936-978-2 (Hbk) ISBN 978-3-03936-979-9 (PDF) c 2020 by the authors. Articles in this book are Open Access and distributed under the Creative Commons Attribution (CC BY) license, which allows users to download, copy and build upon published articles, as long as the author and publisher are properly credited, which ensures maximum dissemination and a wider impact of our publications. The book as a whole is distributed by MDPI under the terms and conditions of the Creative Commons license CC BY-NC-ND. Contents About the Editor .............................................. vii Giuseppe Venturella Fungal Diversity in the Mediterranean Area Reprinted from: Diversity 2020, 12, 253, doi:10.3390/d12060253 .................... 1 Elias Polemis, Vassiliki Fryssouli, Vassileios Daskalopoulos and Georgios I. -
Revised Taxonomy and Phylogeny of an Avian-Dispersed Neotropical Rhizomorph-Forming Fungus
Mycological Progress https://doi.org/10.1007/s11557-018-1411-8 ORIGINAL ARTICLE Tying up loose threads: revised taxonomy and phylogeny of an avian-dispersed Neotropical rhizomorph-forming fungus Rachel A. Koch1 & D. Jean Lodge2,3 & Susanne Sourell4 & Karen Nakasone5 & Austin G. McCoy1,6 & M. Catherine Aime1 Received: 4 March 2018 /Revised: 21 May 2018 /Accepted: 24 May 2018 # This is a U.S. Government work and not under copyright protection in the US; foreign copyright protection may apply 2018 Abstract Rhizomorpha corynecarpos Kunze was originally described from wet forests in Suriname. This unusual fungus forms white, sterile rhizomorphs bearing abundant club-shaped branches. Its evolutionary origins are unknown because reproductive struc- tures have never been found. Recent collections and observations of R. corynecarpos were made from Belize, Brazil, Ecuador, Guyana, and Peru. Phylogenetic analyses of three nuclear rDNA regions (internal transcribed spacer, large ribosomal subunit, and small ribosomal subunit) were conducted to resolve the phylogenetic relationship of R. corynecarpos. Results show that this fungus is sister to Brunneocorticium bisporum—a widely distributed, tropical crust fungus. These two taxa along with Neocampanella blastanos form a clade within the primarily mushroom-forming Marasmiaceae. Based on phylogenetic evidence and micromorphological similarities, we propose the new combination, Brunneocorticium corynecarpon, to accommodate this species. Brunneocorticium corynecarpon is a pathogen, infecting the crowns of trees and shrubs in the Neotropics; the long, dangling rhizomorphs with lateral prongs probably colonize neighboring trees. Longer-distance dispersal can be accomplished by birds as it is used as construction material in nests of various avian species. Keywords Agaricales . Fungal systematics . -
AR TICLE New Sequestrate Fungi from Guyana: Jimtrappea Guyanensis
IMA FUNGUS · 6(2): 297–317 (2015) doi:10.5598/imafungus.2015.06.02.03 New sequestrate fungi from Guyana: Jimtrappea guyanensis gen. sp. nov., ARTICLE Castellanea pakaraimophila gen. sp. nov., and Costatisporus cyanescens gen. sp. nov. (Boletaceae, Boletales) Matthew E. Smith1, Kevin R. Amses2, Todd F. Elliott3, Keisuke Obase1, M. Catherine Aime4, and Terry W. Henkel2 1Department of Plant Pathology, University of Florida, Gainesville, FL 32611, USA 2Department of Biological Sciences, Humboldt State University, Arcata, CA 95521, USA; corresponding author email: Terry.Henkel@humboldt. edu 3Department of Integrative Studies, Warren Wilson College, Asheville, NC 28815, USA 4Department of Botany & Plant Pathology, Purdue University, West Lafayette, IN 47907, USA Abstract: Jimtrappea guyanensis gen. sp. nov., Castellanea pakaraimophila gen. sp. nov., and Costatisporus Key words: cyanescens gen. sp. nov. are described as new to science. These sequestrate, hypogeous fungi were collected Boletineae in Guyana under closed canopy tropical forests in association with ectomycorrhizal (ECM) host tree genera Caesalpinioideae Dicymbe (Fabaceae subfam. Caesalpinioideae), Aldina (Fabaceae subfam. Papilionoideae), and Pakaraimaea Dipterocarpaceae (Dipterocarpaceae). Molecular data place these fungi in Boletaceae (Boletales, Agaricomycetes, Basidiomycota) ectomycorrhizal fungi and inform their relationships to other known epigeous and sequestrate taxa within that family. Macro- and gasteroid fungi micromorphological characters, habitat, and multi-locus DNA sequence data are provided for each new taxon. Guiana Shield Unique morphological features and a molecular phylogenetic analysis of 185 taxa across the order Boletales justify the recognition of the three new genera. Article info: Submitted: 31 May 2015; Accepted: 19 September 2015; Published: 2 October 2015. INTRODUCTION 2010, Gube & Dorfelt 2012, Lebel & Syme 2012, Ge & Smith 2013). -
Notes, Outline and Divergence Times of Basidiomycota
Fungal Diversity (2019) 99:105–367 https://doi.org/10.1007/s13225-019-00435-4 (0123456789().,-volV)(0123456789().,- volV) Notes, outline and divergence times of Basidiomycota 1,2,3 1,4 3 5 5 Mao-Qiang He • Rui-Lin Zhao • Kevin D. Hyde • Dominik Begerow • Martin Kemler • 6 7 8,9 10 11 Andrey Yurkov • Eric H. C. McKenzie • Olivier Raspe´ • Makoto Kakishima • Santiago Sa´nchez-Ramı´rez • 12 13 14 15 16 Else C. Vellinga • Roy Halling • Viktor Papp • Ivan V. Zmitrovich • Bart Buyck • 8,9 3 17 18 1 Damien Ertz • Nalin N. Wijayawardene • Bao-Kai Cui • Nathan Schoutteten • Xin-Zhan Liu • 19 1 1,3 1 1 1 Tai-Hui Li • Yi-Jian Yao • Xin-Yu Zhu • An-Qi Liu • Guo-Jie Li • Ming-Zhe Zhang • 1 1 20 21,22 23 Zhi-Lin Ling • Bin Cao • Vladimı´r Antonı´n • Teun Boekhout • Bianca Denise Barbosa da Silva • 18 24 25 26 27 Eske De Crop • Cony Decock • Ba´lint Dima • Arun Kumar Dutta • Jack W. Fell • 28 29 30 31 Jo´ zsef Geml • Masoomeh Ghobad-Nejhad • Admir J. Giachini • Tatiana B. Gibertoni • 32 33,34 17 35 Sergio P. Gorjo´ n • Danny Haelewaters • Shuang-Hui He • Brendan P. Hodkinson • 36 37 38 39 40,41 Egon Horak • Tamotsu Hoshino • Alfredo Justo • Young Woon Lim • Nelson Menolli Jr. • 42 43,44 45 46 47 Armin Mesˇic´ • Jean-Marc Moncalvo • Gregory M. Mueller • La´szlo´ G. Nagy • R. Henrik Nilsson • 48 48 49 2 Machiel Noordeloos • Jorinde Nuytinck • Takamichi Orihara • Cheewangkoon Ratchadawan • 50,51 52 53 Mario Rajchenberg • Alexandre G. -
A Survey of an Ectotrophic Sand Dune Forest in the Northeast Brazil
Mycosphere 4 (6): 1106–1116 (2013) ISSN 2077 7019 www.mycosphere.org Article Mycosphere Copyright © 2013 Online Edition Doi 10.5943/mycosphere/4/6/8 A survey of an ectotrophic sand dune forest in the northeast Brazil Sulzbacher MA1*, Giachini AJ2, Grebenc T3, Silva BDB4, Gurgel FE5, Loiola MIB6, Neves MA7 and Baseia IG4 1 Universidade Federal de Pernambuco, Departamento de Micologia/CCB, Av. Prof. Nelson Chaves, s/n, CEP: 50670- 901, Recife, PE, Brazil 2 Departamento de Microbiologia, Imunologia e Parasitologia, Universidade Federal de Santa Catarina, CEP: 88040- 970, Florianopolis, SC, Brazil 3Slovenian Forestry Institute, Vecna pot 2, Ljubljana, Slovenia 4Departamento de Botânica, Ecologia e Zoologia, Universidade Federa do Rio Grande do Norte, Campus Universitário, CEP: 59072-970, Natal, RN, Brazil 5Instituto Federal de Educação, Ciência e Tecnologia do Rio Grande do Norte, CEP: 59015-300, Natal, RN, Brazil 6Laboratório de Taxonomia de Angiospermas, Departamento de Biologia, Universidade Federal do Ceará, Campus do Pici, Bloco 906, CEP: 60440-900, Fortaleza, CE, Brazil 7Departamento de Botânica, Centro de Ciências Biológicas, Universidade Federal de Santa Catarina, CEP: 88040- 970, Florianopolis, SC, Brazil Sulzbacher MA, Giachini AJ, Grebenc T, Silva BDB, Gurgel FE, Loiola MIB, Neves MA, Baseia IG 2013 – A survey of an ectotrophic sand dune forest in the northeast Brazil. Mycosphere 4(6), 1106–1116, Doi 10.5943/mycosphere/4/6/8 Abstract Ectomycorrhizal (ECM) species are poorly known from tropical lowlands of South America. Recent systematic surveys in the reserve Parque Estadual das Dunas do Natal, in the state of Rio Grande do Norte, Brazil, using a purposive sampling approach revealed new and yet undocumented community of ectomycorrhizal fungi in the reserve. -
Cibaomyces, a New Genus of Physalacriaceae from East Asia
Phytotaxa 162 (4): 198–210 ISSN 1179-3155 (print edition) www.mapress.com/phytotaxa/ Article PHYTOTAXA Copyright © 2014 Magnolia Press ISSN 1179-3163 (online edition) http://dx.doi.org/10.11646/phytotaxa.162.4.2 Cibaomyces, a new genus of Physalacriaceae from East Asia YAN-JIA HAO1,2, JIAO QIN1,2 & ZHU L. YANG1* 1 Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, Yunnan, China 2 University of Chinese Academy of Sciences, Beijing 100049, China *e-mail: [email protected] Abstract A new genus in Physalacriaceae, Cibaomyces, typified by C. glutinis, is described using morphological and molecular evidence. Cibaomyces is morphologically characterized by the combination of the following characters: basidioma small to medium-sized, collybioid to tricholomatoid; pileus viscid; hymenophore sinuate to subdecurrent, relatively distant, with brown lamellar edge; stipe sticky and densely covered with felted squamules; basidiospores thin-walled, ornamented with finger-like projections; cystidia nearly cylindrical, thin-walled, often heavily incrusted. Molecular phylogenetic analyses using DNA nucleotide sequences of the internal transcribed spacer region and the large subunit nuclear ribosomal RNA loci indicated that Cibaomyces was related to Gloiocephala, Laccariopsis and Rhizomarasmius. A description, line drawings, phylogenetic placement and comparison with allied taxa are presented. Key words: Basidiomycetes·distribution·new taxa·taxonomy Introduction During our study of the fungi in the Physalacriaceae in East Asia (Wang et al. 2008; Yang et al. 2009; Qin et al. 2014; Tang et al. 2014), we have found collections with echinate basidiospores, which are very similar to the species of Oudemansiella sect. -
Resolved Phylogeny and Biogeography of the Root Pathogen Armillaria and Its Gasteroid Relative, Guyanagaster Rachel A
Koch et al. BMC Evolutionary Biology (2017) 17:33 DOI 10.1186/s12862-017-0877-3 RESEARCHARTICLE Open Access Resolved phylogeny and biogeography of the root pathogen Armillaria and its gasteroid relative, Guyanagaster Rachel A. Koch1, Andrew W. Wilson2, Olivier Séné3, Terry W. Henkel4 and M. Catherine Aime1* Abstract Background: Armillaria is a globally distributed mushroom-forming genus composed primarily of plant pathogens. Species in this genus are prolific producers of rhizomorphs, or vegetative structures, which, when found, are often associated with infection. Because of their importance as plant pathogens, understanding the evolutionary origins of this genus and how it gained a worldwide distribution is of interest. The first gasteroid fungus with close affinities to Armillaria—Guyanagaster necrorhizus—was described from the Neotropical rainforests of Guyana. In this study, we conducted phylogenetic analyses to fully resolve the relationship of G. necrorhizus with Armillaria. Data sets containing Guyanagaster from two collecting localities, along with a global sampling of 21 Armillaria species—including newly collected specimens from Guyana and Africa—at six loci (28S, EF1α,RPB2,TUB,actin-1and gpd)wereused.Three loci—28S, EF1α and RPB2—were analyzed in a partitioned nucleotide data set to infer divergence dates and ancestral range estimations for well-supported, monophyletic lineages. Results: The six-locus phylogenetic analysis resolves Guyanagaster as the earliest diverging lineage in the armillarioid clade. The next lineage to diverge is that composed of species in Armillaria subgenus Desarmillaria. This subgenus is elevated to genus level to accommodate the exannulate mushroom-forming armillarioid species. The final lineage to diverge is that composed of annulate mushroom-forming armillarioid species, in what is now Armillaria sensu stricto. -
Andrew William Wilson, Ph.D
Andrew William Wilson, Ph.D. Curriculum Vitae Assistant Curator of Mycology Denver Botanic Gardens – Research and Conservation 909 York Street, Denver, Colorado 80206 Office: 720-865-3662 Cell: 508-754-8531 - [email protected] October 2019 I. EDUCATION 2009 Ph.D. Biology – Clark University, Advisor: David Hibbett 2003 M.A. Biology: Ecology and Systematic Biology – San Francisco State University, Advisor: Dennis Desjardin 1999 B.A. Humanities – San Francisco State University 1999 B.S. Biology: Ecology – San Francisco State University II. PROFESSIONAL APPOINTMENTS Current Assistant Curator of Mycology – Denver Botanic Gardens. January 2017 – Current Affiliate Faculty – University of Colorado, Denver. January 2017 – Current Past Adjunct Assistant Conservation Scientist – Chicago Botanic Garden. January 2014 – December 2016 Research Associate – Field Museum of Natural History. Spring 2010-2019. Lecturer – School of the Art Institute Chicago. Fall 2012 – Fall 2016. Lecturer – Wilbur Wright City College, Chicago. Fall 2012 - Fall 2016. Postdoctoral Research Assistant – Purdue University. January – December 2013 Postdoctoral Research Associate – Chicago Botanic Garden. May 2009-December 2012 Adjunct Lecturer – Northwestern University. Fall 2012 Adjunct Lecturer – Loyola University Chicago. Spring 2010. III. PUBLICATIONS Peer Reviewed (Mentored undergraduate* and graduate† publications) 2019 • Fernández-López J., Telleria M.T., Dueñas M., Wilson A. W., Padamsee M., Buchanan P.K., Mueller G.M., Martin M.P. 2019. Addressing the diversity of Xylodon raduloides complex through integrative taxonomy. IMA Fungus 10(1): 2. 2018 • Cho H. J., Park M. S., Lee H., Oh S-Y, Wilson A. W., Mueller G. M., & Woon Lim Y. W. 2018. Taxonomic re-evaluation of Laccaria (Agaricales, Basidiomycota) in Korea based on morphological and molecular evidence. -
Global Distribution and Richness of Armillaria Species Inferred from Public
bioRxiv preprint doi: https://doi.org/10.1101/2021.06.29.450419; this version posted July 1, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. Global distribution and richness of Armillaria species inferred from public databases and amplicon sequencing datasets Rachel A. Koch1 and Joshua R. Herr1,2,* 1Department of Plant Pathology, University of Nebraska, Lincoln, NE 68503, USA; 2Center for Plant Science Innovation, University of Nebraska, Lincoln, NE 68588, USA; *Correspondence: Joshua R. Herr ([email protected]) ABSTRACT Armillaria is a globally distributed fungal genus most notably recognized as economically important plant pathogens that are found predominantly in forest and agronomic systems. Armillaria has more recently received attention for ecologically diverse roles as woody plant decomposers and as mycorrhizal symbionts with specific plants. Previous phylogenetic analyses suggest that around 50 species are recognized globally. Despite this previous work, no studies have analyzed the global species richness and distribution of the genus using data derived from fungal community sequencing datasets. In order to assess the global diversity and species richness of Armillaria, we mined publicly available sequencing datasets derived from numerous primer pairs for the ribosomal operon. Our estimates reveal that species richness ranges from 50 to 60 species, depending on which marker is used. Eastern Asia represents the biogeographic region with the highest species richness. We also assess the overlap of species across geographic regions and propose some hypotheses regarding the drivers of variability in species diversity and richness between different biogeographic regions. -
Mycena Genomes Resolve the Evolution of Fungal Bioluminescence
Mycena genomes resolve the evolution of fungal bioluminescence Huei-Mien Kea,1, Hsin-Han Leea, Chan-Yi Ivy Lina,b, Yu-Ching Liua, Min R. Lua,c, Jo-Wei Allison Hsiehc,d, Chiung-Chih Changa,e, Pei-Hsuan Wuf, Meiyeh Jade Lua, Jeng-Yi Lia, Gaus Shangg, Rita Jui-Hsien Lud,h, László G. Nagyi,j, Pao-Yang Chenc,d, Hsiao-Wei Kaoe, and Isheng Jason Tsaia,c,1 aBiodiversity Research Center, Academia Sinica, Taipei 115, Taiwan; bDepartment of Molecular, Cellular and Developmental Biology, Yale University, New Haven, CT 06520; cGenome and Systems Biology Degree Program, Academia Sinica and National Taiwan University, Taipei 106, Taiwan; dInstitute of Plant and Microbial Biology, Academia Sinica, Taipei 115, Taiwan; eDepartment of Life Sciences, National Chung Hsing University, Taichung 402, Taiwan; fMaster Program for Plant Medicine and Good Agricultural Practice, National Chung Hsing University, Taichung 402, Taiwan; gDepartment of Biotechnology, Ming Chuan University, Taoyuan 333, Taiwan; hDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110; iSynthetic and Systems Biology Unit, Biological Research Centre, 6726 Szeged, Hungary; and jDepartment of Plant Anatomy, Institute of Biology, Eötvös Loránd University, Budapest, 1117 Hungary Edited by Manyuan Long, University of Chicago, Chicago, IL, and accepted by Editorial Board Member W. F. Doolittle October 28, 2020 (received for review May 27, 2020) Mushroom-forming fungi in the order Agaricales represent an in- fungi of three lineages: Armillaria, mycenoid, and Omphalotus dependent origin of bioluminescence in the tree of life; yet the (7). Phylogeny reconstruction suggested that luciferase origi- diversity, evolutionary history, and timing of the origin of fungal nated in early Agaricales. -
Mycena Genomes Resolve the Evolution of Fungal Bioluminescence
Mycena genomes resolve the evolution of fungal bioluminescence Huei-Mien Kea,1, Hsin-Han Leea, Chan-Yi Ivy Lina,b, Yu-Ching Liua, Min R. Lua,c, Jo-Wei Allison Hsiehc,d, Chiung-Chih Changa,e, Pei-Hsuan Wuf, Meiyeh Jade Lua, Jeng-Yi Lia, Gaus Shangg, Rita Jui-Hsien Lud,h, László G. Nagyi,j, Pao-Yang Chenc,d, Hsiao-Wei Kaoe, and Isheng Jason Tsaia,c,1 aBiodiversity Research Center, Academia Sinica, Taipei 115, Taiwan; bDepartment of Molecular, Cellular and Developmental Biology, Yale University, New Haven, CT 06520; cGenome and Systems Biology Degree Program, Academia Sinica and National Taiwan University, Taipei 106, Taiwan; dInstitute of Plant and Microbial Biology, Academia Sinica, Taipei 115, Taiwan; eDepartment of Life Sciences, National Chung Hsing University, Taichung 402, Taiwan; fMaster Program for Plant Medicine and Good Agricultural Practice, National Chung Hsing University, Taichung 402, Taiwan; gDepartment of Biotechnology, Ming Chuan University, Taoyuan 333, Taiwan; hDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110; iSynthetic and Systems Biology Unit, Biological Research Centre, 6726 Szeged, Hungary; and jDepartment of Plant Anatomy, Institute of Biology, Eötvös Loránd University, Budapest, 1117 Hungary Edited by Manyuan Long, University of Chicago, Chicago, IL, and accepted by Editorial Board Member W. F. Doolittle October 28, 2020 (received for review May 27, 2020) Mushroom-forming fungi in the order Agaricales represent an in- fungi of three lineages: Armillaria, mycenoid, and Omphalotus dependent origin of bioluminescence in the tree of life; yet the (7). Phylogeny reconstruction suggested that luciferase origi- diversity, evolutionary history, and timing of the origin of fungal nated in early Agaricales. -
Transcriptomics Reveals the Mycoparasitic Strategy of the Mushroom Entoloma
bioRxiv preprint doi: https://doi.org/10.1101/2021.04.30.442184; this version posted May 1, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. 1 Transcriptomics reveals the mycoparasitic strategy of the mushroom Entoloma 2 abortivum on species of the mushroom Armillaria 3 4 Running title: Mycoparasitism of Entoloma abortivum 5 6 Rachel A. Koch1 and Joshua R. Herr1,2,# 7 8 1Department of Plant Pathology, University of NeBraska, Lincoln, NE 68503, USA; 9 2Center for Plant Science Innovation, University of NeBraska, Lincoln, NE 68588, USA; 10 #Correspondence: Joshua R. Herr ([email protected]) 11 12 Abstract word count (including aBstract and importance): 363 13 Text word count: 4938 14 15 16 17 18 19 20 21 22 23 24 1 bioRxiv preprint doi: https://doi.org/10.1101/2021.04.30.442184; this version posted May 1, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. 25 ABSTRACT 26 During mycoparasitism, a fungus—the host—is parasitized By another fungus—the 27 mycoparasite . The genetic underpinnings of these relationships have Been Best 28 characterized in Ascomycete fungi. However, within Basidiomycete fungi, there are rare 29 instances of mushroom-forming species parasitizing the reproductive structures, or 30 sporocarps, of other mushroom-forming species.