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Major Clades of Agaricales: a Multilocus Phylogenetic Overview
Mycologia, 98(6), 2006, pp. 982–995. # 2006 by The Mycological Society of America, Lawrence, KS 66044-8897 Major clades of Agaricales: a multilocus phylogenetic overview P. Brandon Matheny1 Duur K. Aanen Judd M. Curtis Laboratory of Genetics, Arboretumlaan 4, 6703 BD, Biology Department, Clark University, 950 Main Street, Wageningen, The Netherlands Worcester, Massachusetts, 01610 Matthew DeNitis Vale´rie Hofstetter 127 Harrington Way, Worcester, Massachusetts 01604 Department of Biology, Box 90338, Duke University, Durham, North Carolina 27708 Graciela M. Daniele Instituto Multidisciplinario de Biologı´a Vegetal, M. Catherine Aime CONICET-Universidad Nacional de Co´rdoba, Casilla USDA-ARS, Systematic Botany and Mycology de Correo 495, 5000 Co´rdoba, Argentina Laboratory, Room 304, Building 011A, 10300 Baltimore Avenue, Beltsville, Maryland 20705-2350 Dennis E. Desjardin Department of Biology, San Francisco State University, Jean-Marc Moncalvo San Francisco, California 94132 Centre for Biodiversity and Conservation Biology, Royal Ontario Museum and Department of Botany, University Bradley R. Kropp of Toronto, Toronto, Ontario, M5S 2C6 Canada Department of Biology, Utah State University, Logan, Utah 84322 Zai-Wei Ge Zhu-Liang Yang Lorelei L. Norvell Kunming Institute of Botany, Chinese Academy of Pacific Northwest Mycology Service, 6720 NW Skyline Sciences, Kunming 650204, P.R. China Boulevard, Portland, Oregon 97229-1309 Jason C. Slot Andrew Parker Biology Department, Clark University, 950 Main Street, 127 Raven Way, Metaline Falls, Washington 99153- Worcester, Massachusetts, 01609 9720 Joseph F. Ammirati Else C. Vellinga University of Washington, Biology Department, Box Department of Plant and Microbial Biology, 111 355325, Seattle, Washington 98195 Koshland Hall, University of California, Berkeley, California 94720-3102 Timothy J. -
Re-Thinking the Classification of Corticioid Fungi
mycological research 111 (2007) 1040–1063 journal homepage: www.elsevier.com/locate/mycres Re-thinking the classification of corticioid fungi Karl-Henrik LARSSON Go¨teborg University, Department of Plant and Environmental Sciences, Box 461, SE 405 30 Go¨teborg, Sweden article info abstract Article history: Corticioid fungi are basidiomycetes with effused basidiomata, a smooth, merulioid or Received 30 November 2005 hydnoid hymenophore, and holobasidia. These fungi used to be classified as a single Received in revised form family, Corticiaceae, but molecular phylogenetic analyses have shown that corticioid fungi 29 June 2007 are distributed among all major clades within Agaricomycetes. There is a relative consensus Accepted 7 August 2007 concerning the higher order classification of basidiomycetes down to order. This paper Published online 16 August 2007 presents a phylogenetic classification for corticioid fungi at the family level. Fifty putative Corresponding Editor: families were identified from published phylogenies and preliminary analyses of unpub- Scott LaGreca lished sequence data. A dataset with 178 terminal taxa was compiled and subjected to phy- logenetic analyses using MP and Bayesian inference. From the analyses, 41 strongly Keywords: supported and three unsupported clades were identified. These clades are treated as fam- Agaricomycetes ilies in a Linnean hierarchical classification and each family is briefly described. Three ad- Basidiomycota ditional families not covered by the phylogenetic analyses are also included in the Molecular systematics classification. All accepted corticioid genera are either referred to one of the families or Phylogeny listed as incertae sedis. Taxonomy ª 2007 The British Mycological Society. Published by Elsevier Ltd. All rights reserved. Introduction develop a downward-facing basidioma. -
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. -
Early Diverging Clades of Agaricomycetidae Dominated by Corticioid Forms
Mycologia, 102(4), 2010, pp. 865–880. DOI: 10.3852/09-288 # 2010 by The Mycological Society of America, Lawrence, KS 66044-8897 Amylocorticiales ord. nov. and Jaapiales ord. nov.: Early diverging clades of Agaricomycetidae dominated by corticioid forms Manfred Binder1 sister group of the remainder of the Agaricomyceti- Clark University, Biology Department, Lasry Center for dae, suggesting that the greatest radiation of pileate- Biosciences, 15 Maywood Street, Worcester, stipitate mushrooms resulted from the elaboration of Massachusetts 01601 resupinate ancestors. Karl-Henrik Larsson Key words: morphological evolution, multigene Go¨teborg University, Department of Plant and datasets, rpb1 and rpb2 primers Environmental Sciences, Box 461, SE 405 30, Go¨teborg, Sweden INTRODUCTION P. Brandon Matheny The Agaricomycetes includes approximately 21 000 University of Tennessee, Department of Ecology and Evolutionary Biology, 334 Hesler Biology Building, described species (Kirk et al. 2008) that are domi- Knoxville, Tennessee 37996 nated by taxa with complex fruiting bodies, including agarics, polypores, coral fungi and gasteromycetes. David S. Hibbett Intermixed with these forms are numerous lineages Clark University, Biology Department, Lasry Center for Biosciences, 15 Maywood Street, Worcester, of corticioid fungi, which have inconspicuous, resu- Massachusetts 01601 pinate fruiting bodies (Binder et al. 2005; Larsson et al. 2004, Larsson 2007). No fewer than 13 of the 17 currently recognized orders of Agaricomycetes con- Abstract: The Agaricomycetidae is one of the most tain corticioid forms, and three, the Atheliales, morphologically diverse clades of Basidiomycota that Corticiales, and Trechisporales, contain only corti- includes the well known Agaricales and Boletales, cioid forms (Hibbett 2007, Hibbett et al. 2007). which are dominated by pileate-stipitate forms, and Larsson (2007) presented a preliminary classification the more obscure Atheliales, which is a relatively small in which corticioid forms are distributed across 41 group of resupinate taxa. -
Moderní Systém Řas, Hub a Podobných Organismů Brno, 8
Moderní systém řas, hub a podobných organismů Brno, 8. 9. 2016 Nedávné pojetí systému eukaryot Klasifikace eukaryot v pojetí Tree of life Archaeplastida (Plantae) – jediná skupina, která nezahrnuje nic houbového ani houbám podobného The Archaeplastida, or Plantae, comprises glaucophytes, red algae, green algae and plants. They are united by the possession of a plastid derived from primary endosymbiosis (see Symbiosis section). There has long been strong support for the monophyly of plastids in Archaeplastida based on molecular phylogeny and also plastid genome structure (Turner, 1997; Turner et al., 1999), and molecular phylogenies based on large numbers of protein coding genes have more recently demonstrated the monophyly of the nuclear/cytosolic lineage as well (Burki et al., 2008; Moreira et al., 2000; Reyes-Prieto et al., 2007). http://tolweb.org/Eukaryotes/3 Adl et al.: The Revised Classification of Eukaryotes Aktuální zdroj, na němž je založeno pojetí systému v této přednášce Zjednodušený „strom“ prokaryotických a eukaryotických organismů s vypíchnutím autotrofních skupin Cyanobacteria Ekologie: (Cyanophyta) – sinice • Téměř všechny biotopy – i extrémní • Pionýrské organismy • Prokaryota / G- bakterie • Eutrofizace – vodní květ • Cyanos = modrý (sinný) • Cyanotoxiny • Evolučně staré (3,5 miliard let) • Stromatolity: útvary vzniklé • Nemají jádro ani vakuoly usazováním uhličitanu vápenatého • Chybí membránové struktury (ER, Golgiho aparát) v slizových pochvách sinic • Oxygenní fotosyntéza: vznik před Symbiotické vztahy sinic: 2,7 -
The Taxonomy and Ecology of Wood Decay Fungi in Eucalyptus Obliqua Trees and Logs in the Wet Sclerophyll Forests of Southern Tasmania
The taxonomy and ecology of wood decay fungi in Eucalyptus obliqua trees and logs in the wet sclerophyll forests of southern Tasmania by Anna J. M. Hopkins B.Sc. (Hons.) School of Agricultural Science, University of Tasmania Cooperative Research Centre for Forestry A research thesis submitted in fulfilment of the requirements for the Degree of Doctor of Philosophy January, 2007 Declarations This thesis contains no material which has been accepted for a degree or diploma in any university or other institution. To the best of my knowledge, this thesis contains no material previously published or written by another person, except where due acknowledgment is made in the text. Anna J. M. Hopkins This thesis may be made available for loan and limited copying in accordance with the Copyright Act of 1968. Anna J. M. Hopkins ii Abstract The wet sclerophyll forests in southern Tasmania are dominated by Eucalyptus obliqua and are managed on a notional silvicultural rotation length of 80 to 100 years. Over time, this will lead to a simplified stand structure with a truncated forest age and thus reduce the proportion of coarse woody debris (CWD), such as old living trees and large diameter logs, within the production forest landscape. Course woody debris is regarded as a critical habitat for biodiversity management in forest ecosystems. Fungi, as one of the most important wood decay agents, are key to understanding and managing biodiversity associated with decaying wood. In Australia, wood-inhabiting fungi are poorly known and the biodiversity associated with CWD has not been well studied. This thesis describes two studies that were undertaken to examine the importance of CWD as habitat for wood-inhabiting fungi in the wet sclerophyll forests of Tasmania. -
A Case Study from the Warra LTER Site, Tasmania
Aggregated retention and macrofungi: a case study from the Warra LTER site, Tasmania G.M. Gates1,2*, D.A. Ratkowsky1,2 and S.J. Grove3 1School of Plant Science, University of Tasmania, Private Bag 55, Hobart, Tasmania 7001 2School of Agricultural Science, University of Tasmania, Private Bag 54, Hobart, Tasmania 7001 3Forestry Tasmania, GPO Box 207, Hobart, Tasmania 7001 *e-mail: [email protected] (corresponding author) Abstract latter are important reservoirs of ectomycorrhizal fungal diversity, and that they may be expected The macrofungi of an aggregated retention to show an increased species richness at a later coupe harvested and burnt in April 2004 stage of regeneration of the surrounding forest. at the Warra long-term ecological research (LTER) site were documented at approximately fortnightly intervals over a period of 16 months Introduction between February 2005 and June 2006. In transects of approximately 400 m total length, The Warra silvicultural systems trial was 167 macrofungal species were recorded in established as a means of assessing a range the unharvested aggregates compared to 125 of alternatives to clearfell, burn and sow species in the regenerating harvested area, with (CBS) in Tasmania’s lowland wet eucalypt 63 species common to both. The regenerating forest (Hickey et al. 2001). Ecological area was a source of many saprotrophic fungi assessments have been based on long- and also contained many species that are term monitoring of the responses to these characteristically opportunistic, appearing after treatments of vascular plants, non-vascular disturbance or fire but not generally seen in plants (Kantvilas and Jarman 2004), birds forests that have progressed beyond the earliest (Lefort and Grove 2009) and litter-dwelling stage of regeneration. -
Phylogenetic Origins and Family Classification of Typhuloid Fungi, with Emphasis on Ceratellopsis, Macrotyphula and Typhula (Basidiomycota)
Phylogenetic origins and family classification of typhuloid fungi, with emphasis on Ceratellopsis, Macrotyphula and Typhula (Basidiomycota) Olariaga, I.; Huhtinen, S.; Læssøe, T.; Petersen, J. H.; Hansen, K. Published in: Studies in Mycology DOI: 10.1016/j.simyco.2020.05.003 Publication date: 2020 Document version Publisher's PDF, also known as Version of record Document license: CC BY-NC-ND Citation for published version (APA): Olariaga, I., Huhtinen, S., Læssøe, T., Petersen, J. H., & Hansen, K. (2020). Phylogenetic origins and family classification of typhuloid fungi, with emphasis on Ceratellopsis, Macrotyphula and Typhula (Basidiomycota). Studies in Mycology, 96, 155-184. https://doi.org/10.1016/j.simyco.2020.05.003 Download date: 02. okt.. 2021 available online at www.studiesinmycology.org STUDIES IN MYCOLOGY 96: 155–184 (2020). Phylogenetic origins and family classification of typhuloid fungi, with emphasis on Ceratellopsis, Macrotyphula and Typhula (Basidiomycota) I. Olariaga1,2*, S. Huhtinen3,T.Læssøe4, J.H. Petersen5, and K. Hansen1 1Department of Botany, Swedish Museum of Natural History, P.O. Box 50007, SE-10405, Stockholm, Sweden; 2Biology and Geology, Physics and Inorganic Chemistry department, Rey Juan Carlos University, C/ Tulipan s/n, Mostoles, 28933, Madrid, Spain; 3Biodiversity Unit, Herbarium, University of Turku, FI-20014, Turku, Finland; 4Department of Biology/Natural History Museum of Denmark, University of Copenhagen, Universitetsparken 15, 2100, København Ø, Denmark; 5MycoKey, Nøruplundvej 2, 8400, Ebeltoft, Denmark *Correspondence: I. Olariaga, [email protected] Abstract: Typhuloid fungi are a very poorly known group of tiny clavarioid homobasidiomycetes. The phylogenetic position and family classification of the genera targeted here, Ceratellopsis, Macrotyphula, Pterula sensu lato and Typhula, are controversial and based on unresolved phylogenies. -
CLASSIFICATION of FUNGI in the AGE of DNA David Ratkowsky
CLASSIFICATION OF FUNGI IN THE AGE OF DNA David Ratkowsky There once was a time when the classification of mushroom-like fungi was relatively straightforward. One could go out into the field with a group of beginners and say with confidence “This is a jelly fungus” without too much fear of being challenged. Fungi with gills were called “agarics” and generally put into the Order Agaricales, whereas those lacking gills were put into one of the several other Orders. One of these was sometimes referred to as Aphyllophorales, which means “without gills” and included the brackets, leather fungi (thelephores), teeth fungi (hydnoids), coral fungi (clavarioids), and various other sorts to form a loose collection of unrelated fungi. Even here, one could tell the novice “This is a hydnoid species”, if the hymenial surface consisted of teeth, and the novice would happily nod in agreement. This simplistic and very user-friendly approach to taxonomy persisted for almost two centuries, starting with the publication by Persoon (1801) of his Synopsis methodica fungorum and later augmented by the work of Fries. In this “Friesian System”, which had the advantage of being easy to apply in the field, the taxa of the higher homobasidiomycetes (mushroom-forming fungi) were classified by their gross morphology, i.e. whether they had gills, pores, teeth, etc. Spore print colour also played an important role in setting limits to the families. Towards the end of the 19th Century, it became apparent that an anatomically based approach was not going to form a basis for a phylogenetic system, that is, one that would reflect the evolutionary pathways linking the taxa. -
<I>Amylocorticiales, Basidiomycota</I>
ISSN (print) 0093-4666 © 2011. Mycotaxon, Ltd. ISSN (online) 2154-8889 MYCOTAXON Volume 116, pp. 283–293 April–June 2011 doi: 10.5248/116.283 Notes on Amylocorticiellum (Amylocorticiales, Basidiomycota), with some new combinations Sergio P. Gorjón*1, Alina G. Greslebin1,2 & Mario Rajchenberg1,2 1Centro de Investigación y Extensión Forestal Andino Patagónico, Area de Protección. CC 14, 9200 Esquel, Chubut, Argentina 2Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET) Argentina *Correspondence to: [email protected] Abstract — A review of the known species in Amylocorticiellum is provided. Amylocorticiellum molle is reported as new to Argentina as well to the Southern Hemisphere. Three combinations in Amylocorticiellum, A. iaganicum, A. luteolum, and A. oblongisporum, are proposed, and a key to all accepted species is provided. Key words — corticioid fungi, Hypochniciellum, Patagonia, spore amyloidy, taxonomy Introduction Amylocorticiellum Spirin & Zmitr. was described to accommodate species with corticioid basidiomes, smooth thick-walled basidiospores, and amyloid spore walls (greyish to bluish in Melzer’s reagent), with Corticium subillaqueatum as the generic type species (Zmitrovich & Spirin 2002). In addition, two other species formerly placed in Hypochniciellum Hjortstam & Ryvarden, Corticium cremeoisabellinum and Thelephora mollis, have been transferred to Amylocorticiellum, and A. sinuosum was described as a new species (Zmitrovich & Spirin 2002). Hypochniciellum originally included only Leptosporomyces ovoideus Jülich, characterized by thick-walled and cyanophilous basidiospores that are negative in Melzer’s reagent (Hjortstam & Ryvarden 1980). Hjortstam (1981) later emended the generic circumscription to include species with thick- walled basidiospores with greyish walls that are not distinctly blue in Melzer’s reagent. There are few reliable characters separating Amylocorticiellum and Hypochniciellum except for the basidiospore amyloidy reaction. -
PUTTING AUSTRALIAN FUNGI on the MAP Inside This Edition
August 2005 PUTTING AUSTRALIAN FUNGI ON THE MAP Fungimap is not registered for GST, so we Inside this Edition: will not be charging GST on sales. We have News from the Fungimap President ............1 passed on this saving to members as reduced Fungimap Committee..................................2 prices for most books and other sales (see Interesting Groups.......................................2 updated book prices on p. 7). The exception Letter: Fungi Study in the U.S.A.................4 is Fungi Down Under, which will continue Simply Podoserpula.....................................5 to be sold via RBG Melbourne (order details Common Mushrooms of Talamanca Mts ....6 on p. 7). The price for this book was Book orders ................................................7 deliberately set relatively low, and it remains Membership ................................................8 excellent value at $29.95 for a full colour, Fungal News: SA & ACT ...........................9 highly illustrated book packed with Fungal News: Tas, WA, Cairns, NSW......10 information about the target species and Forthcoming Events, Contacts, PUBF.......11 fungi in general. Acknowledgments: Fungimap Recorders..12 Founding Donors.......................................12 The Fungimap Office will still operate from Royal Botanic Gardens Melbourne, and we are very grateful for the continuing support NEWS FROM THE FUNGIMAP of the Gardens in providing office space and facilities for Fungimap. PRESIDENT Cassia Read departed the Fungimap Office The last few months have been a busy time recently to take up postgraduate studies in for Fungimap on several fronts. The very Botany. Cassia did a fantastic job as Co- successful Fungimap III Conference was ordinator over the last 18 months, and set up held in Tasmania in May, and at the excellent procedures in the Fungimap Office Conference Fungi Down Under: the for dealing with the huge variety of Fungimap Guide to Australian Fungi was enquiries and other correspondence. -
Major Clades of Agaricales: a Multilocus Phylogenetic Overview
Mycologia, 98(6), 2006, pp. 982–995. # 2006 by The Mycological Society of America, Lawrence, KS 66044-8897 Major clades of Agaricales: a multilocus phylogenetic overview P. Brandon Matheny1 Duur K. Aanen Judd M. Curtis Laboratory of Genetics, Arboretumlaan 4, 6703 BD, Biology Department, Clark University, 950 Main Street, Wageningen, The Netherlands Worcester, Massachusetts, 01610 Matthew DeNitis Vale´rie Hofstetter 127 Harrington Way, Worcester, Massachusetts 01604 Department of Biology, Box 90338, Duke University, Durham, North Carolina 27708 Graciela M. Daniele Instituto Multidisciplinario de Biologı´a Vegetal, M. Catherine Aime CONICET-Universidad Nacional de Co´rdoba, Casilla USDA-ARS, Systematic Botany and Mycology de Correo 495, 5000 Co´rdoba, Argentina Laboratory, Room 304, Building 011A, 10300 Baltimore Avenue, Beltsville, Maryland 20705-2350 Dennis E. Desjardin Department of Biology, San Francisco State University, Jean-Marc Moncalvo San Francisco, California 94132 Centre for Biodiversity and Conservation Biology, Royal Ontario Museum and Department of Botany, University Bradley R. Kropp of Toronto, Toronto, Ontario, M5S 2C6 Canada Department of Biology, Utah State University, Logan, Utah 84322 Zai-Wei Ge Zhu-Liang Yang Lorelei L. Norvell Kunming Institute of Botany, Chinese Academy of Pacific Northwest Mycology Service, 6720 NW Skyline Sciences, Kunming 650204, P.R. China Boulevard, Portland, Oregon 97229-1309 Jason C. Slot Andrew Parker Biology Department, Clark University, 950 Main Street, 127 Raven Way, Metaline Falls, Washington 99153 Worcester, Massachusetts, 01609 9720 Joseph F. Ammirati Else C. Vellinga University of Washington, Biology Department, Box Department of Plant and Microbial Biology, 111 355325, Seattle, Washington 98195 Koshland Hall, University of California, Berkeley, California 94720-3102 Timothy J.