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Cryptic Species and Species Pairs in Lichens: a Discussion on the Relationship Between Molecular Phylogenies and Morphological Characters
cryptic species:07-Cryptic_species 10/12/2009 13:19 Página 71 Anales del Jardín Botánico de Madrid Vol. 66S1: 71-81, 2009 ISSN: 0211-1322 doi: 10.3989/ajbm.2225 Cryptic species and species pairs in lichens: A discussion on the relationship between molecular phylogenies and morphological characters by Ana Crespo & Sergio Pérez-Ortega Departamento de Biología Vegetal II, Facultad de Farmacia, Universidad Complutense de Madrid, E-28040 Madrid, Spain [email protected], [email protected] Abstract Resumen Crespo, A. & Pérez-Ortega, S. 2009. Cryptic species and species Crespo, A. & Pérez-Ortega, S. 2009. Especies crípticas y pares de pairs in lichens: A discussion on the relationship between mole- especies en líquenes: una discusión sobre la relación entre la fi- cular phylogenies and morphological characters. Anales Jard. logenia molecular y los caracteres morfológicos. Anales Jard. Bot. Madrid 66S1: 71-81. Bot. Madrid 66S1: 71-81 (en inglés). As with most disciplines in biology, molecular genetics has re- Como en otras disciplinas, el impacto producido por la filogenia volutionized our understanding of lichenized fungi. Nowhere molecular en el conocimiento de los hongos liquenizados ha has this been more true than in systematics, especially in the de- producido avances y cambios conceptuales importantes. Esto limitation of species. In many cases, molecular research has ve- ha sido especialmente cierto en la sistemática y ha afectado de rified long-standing hypotheses, but in others, results appear to una manera muy notable en aspectos -
Diversidad Y Aspectos Microevolutivos En Cosimbiontes Liquénicos Microevolutive Aspects and Diversity in Lichen Co-Symbionts
UNIVERSIDAD COMPLUTENSE DE MADRID FACULTAD DE FARMACIA Departamento de Biología Vegetal II TESIS DOCTORAL Diversidad y aspectos microevolutivos en cosimbiontes liquénicos Microevolutive aspects and diversity in lichen co-symbionts MEMORIA PARA OPTAR AL GRADO DE DOCTOR PRESENTADA POR David Alors Rodríguez Directores Ana Mª Crespo de las Casas Pradeep K. Divakar Madrid, 2018 © David Alors Rodríguez, 2017 Universidad Complutense de Madrid, Facultad de Farmacia Departamento de Biología Vegetal II DIVERSIDAD Y ASPECTOS MICROEVOLUTIVOS EN COSIMBIONTES LIQUÉNICOS MICROEVOLUTIVE ASPECTS AND DIVERSITY IN LICHEN CO-SYMBIONTS MEMORIA PARA OPTAR AL GRADO DE DOCTOR PRESENTADA POR: David Alors Rodríguez Bajo la dirección de los doctores: Ana Mª Crespo de las Casas y Pradeep K. Divakar Madrid, 2017 Dedicatoria Dedico esta tesis a mi familia por su apoyo incondicional desde mi más tierna infancia. Siempre estuvieron a mi lado y yo al suyo. Y solo en los años de esta tesis y con mis estancias en el extranjero me alejé físicamente de ellos y no pude darles el tiempo que se merecían. Dedico esta tesis a toda mi familia, en especial a esas dos personas tan importantes e influyentes para mí que se han marchado en estos años, pero no del todo porque siguen en nuestra memoria. Agradecimientos En primer lugar agradezco mi educación científica desde la licenciatura en CC. Biológicas en la UA, a mi paso por el instituto Torre de la Sal-CSIC, bajo la supervisión de la Dra. Ana Mª Gomez-Peris. Agradezco la oportunidad que me dio la catedrática Ana Mª Crespo de las Casas, asesorada por el Dr. C. -
Bibliography and Checklist of Foliicolous Lichenized Fungi up to 1992
93 Tropical Bryology 7:93-148, 1993 Bibliography and checklist of foliicolous lichenized fungi up to 1992 Farkas, E. E. Institute of Ecology and Botany, Hungarian Academy of Sciences, Vácrátót, H-2163, Hungary Sipman, H. J. M. Botanischer Garten und Botanisches Museum, Königin-Luise-Strasse 6-8, D- 14191 Berlin, Germany Abstract: Bibliographic records are presented of 324 scientific papers on foliicolous lichenized fungi published subsequent to Santesson’s survey of 1952. The 482 species presently known are listed in an alphabetical checklist, with references to important descriptions, keys and illustrations published by or after Santesson (1952), and an indication of the distribution. Also added are all synonyms used after 1952. Introductory chapters deal with the present state of research on foliicolous lichens and its history. The following new combination is proposed: Strigula smaragdula Fr. var. stellata (Nyl. & Cromb.)Farkas. Introduction In 1952 Santesson published a revision of list was far from complete. Moreover, the yearly the taxonomy of the obligately foliicolous liche- output of publications on the subject was increa- nized fungi, which included a survey of all sing rapidly, so that an updated version of the known taxa and of all relevant literature until bibliography and a checklist seemed necessary. that time. Since then, a large amount of new In this joint account, E. F. has contributed information on taxonomy, distribution, and to a most of the introduction, the bibliography and lesser extent ecology, has been published. This the list of new taxa after 1952 with literature information is contained in many papers in vari- citations, H. S. -
Launis Et Al Mycologia2019 Openaccess
Author’s Accepted Manuscrip Sharpening species boundaries in the Micarea prasina group with notes on the type species M. prasina a Annina Launis, b Jiří Malíček, c Måns Svensson, d Andrei Tsurykau, e Emmanuël Sérusiaux & a Leena Myllys a Botany Unit, Finnish Museum of Natural History, P.O. Box 7, FI-00014 University of Helsinki, Finland; b The Czech Academy of Sciences, Institute of Botany, Zámek 1, 252 43 Průhonice, Czech Republic; c Museum of Evolution, Uppsala University, Villavägen 9, 752 36 Uppsala, Sweden;d Department of Biology, F. Skorina Gomel State University, Sovetskaya str. 104, 246019 Gomel, Belarus,Department of Ecology, Botany and Nature Protection, Institute of Natural Sciences, Samara National Research University, Moskovskoye shosse 34, 443086 Samara, Russia; e Evolution and Conservation Biology Unit, InBios research center, University of Liège, Sart Tilman B22, B-4000 Liège, Belgium. CONTACT: Annina Launis, [email protected] (2020 onwards: [email protected]) 1 ABSTRACT Micarea is a lichenized genus in the family Pilocarpaceae (Ascomycota). We studied the phylogeny and reassessed the current taxonomy of the M. prasina group. We focused especially on the taxonomic questions concerning the type species M. prasina and, furthermore, challenges concerning type specimens that are too old for successful DNA barcoding and molecular studies. The phylogeny was reconstructed using nuc rDNA internal transcribed spacer region (ITS1-5.8S-ITS2), mito rDNA small subunit (mtSSU) and replication licensing factor MCM7 gene from 31 species. Fifty-six new sequences were generated. The data was analyzed using maximum parsimony and maximum likelihood methods. The results revealed four undescribed, well- supported lineages. -
1307 Fungi Representing 1139 Infrageneric Taxa, 317 Genera and 66 Families ⇑ Jolanta Miadlikowska A, , Frank Kauff B,1, Filip Högnabba C, Jeffrey C
Molecular Phylogenetics and Evolution 79 (2014) 132–168 Contents lists available at ScienceDirect Molecular Phylogenetics and Evolution journal homepage: www.elsevier.com/locate/ympev A multigene phylogenetic synthesis for the class Lecanoromycetes (Ascomycota): 1307 fungi representing 1139 infrageneric taxa, 317 genera and 66 families ⇑ Jolanta Miadlikowska a, , Frank Kauff b,1, Filip Högnabba c, Jeffrey C. Oliver d,2, Katalin Molnár a,3, Emily Fraker a,4, Ester Gaya a,5, Josef Hafellner e, Valérie Hofstetter a,6, Cécile Gueidan a,7, Mónica A.G. Otálora a,8, Brendan Hodkinson a,9, Martin Kukwa f, Robert Lücking g, Curtis Björk h, Harrie J.M. Sipman i, Ana Rosa Burgaz j, Arne Thell k, Alfredo Passo l, Leena Myllys c, Trevor Goward h, Samantha Fernández-Brime m, Geir Hestmark n, James Lendemer o, H. Thorsten Lumbsch g, Michaela Schmull p, Conrad L. Schoch q, Emmanuël Sérusiaux r, David R. Maddison s, A. Elizabeth Arnold t, François Lutzoni a,10, Soili Stenroos c,10 a Department of Biology, Duke University, Durham, NC 27708-0338, USA b FB Biologie, Molecular Phylogenetics, 13/276, TU Kaiserslautern, Postfach 3049, 67653 Kaiserslautern, Germany c Botanical Museum, Finnish Museum of Natural History, FI-00014 University of Helsinki, Finland d Department of Ecology and Evolutionary Biology, Yale University, 358 ESC, 21 Sachem Street, New Haven, CT 06511, USA e Institut für Botanik, Karl-Franzens-Universität, Holteigasse 6, A-8010 Graz, Austria f Department of Plant Taxonomy and Nature Conservation, University of Gdan´sk, ul. Wita Stwosza 59, 80-308 Gdan´sk, Poland g Science and Education, The Field Museum, 1400 S. -
BLS Bulletin 111 Winter 2012.Pdf
1 BRITISH LICHEN SOCIETY OFFICERS AND CONTACTS 2012 PRESIDENT B.P. Hilton, Beauregard, 5 Alscott Gardens, Alverdiscott, Barnstaple, Devon EX31 3QJ; e-mail [email protected] VICE-PRESIDENT J. Simkin, 41 North Road, Ponteland, Newcastle upon Tyne NE20 9UN, email [email protected] SECRETARY C. Ellis, Royal Botanic Garden, 20A Inverleith Row, Edinburgh EH3 5LR; email [email protected] TREASURER J.F. Skinner, 28 Parkanaur Avenue, Southend-on-Sea, Essex SS1 3HY, email [email protected] ASSISTANT TREASURER AND MEMBERSHIP SECRETARY H. Döring, Mycology Section, Royal Botanic Gardens, Kew, Richmond, Surrey TW9 3AB, email [email protected] REGIONAL TREASURER (Americas) J.W. Hinds, 254 Forest Avenue, Orono, Maine 04473-3202, USA; email [email protected]. CHAIR OF THE DATA COMMITTEE D.J. Hill, Yew Tree Cottage, Yew Tree Lane, Compton Martin, Bristol BS40 6JS, email [email protected] MAPPING RECORDER AND ARCHIVIST M.R.D. Seaward, Department of Archaeological, Geographical & Environmental Sciences, University of Bradford, West Yorkshire BD7 1DP, email [email protected] DATA MANAGER J. Simkin, 41 North Road, Ponteland, Newcastle upon Tyne NE20 9UN, email [email protected] SENIOR EDITOR (LICHENOLOGIST) P.D. Crittenden, School of Life Science, The University, Nottingham NG7 2RD, email [email protected] BULLETIN EDITOR P.F. Cannon, CABI and Royal Botanic Gardens Kew; postal address Royal Botanic Gardens, Kew, Richmond, Surrey TW9 3AB, email [email protected] CHAIR OF CONSERVATION COMMITTEE & CONSERVATION OFFICER B.W. Edwards, DERC, Library Headquarters, Colliton Park, Dorchester, Dorset DT1 1XJ, email [email protected] CHAIR OF THE EDUCATION AND PROMOTION COMMITTEE: S. -
Lichens and Associated Fungi from Glacier Bay National Park, Alaska
The Lichenologist (2020), 52,61–181 doi:10.1017/S0024282920000079 Standard Paper Lichens and associated fungi from Glacier Bay National Park, Alaska Toby Spribille1,2,3 , Alan M. Fryday4 , Sergio Pérez-Ortega5 , Måns Svensson6, Tor Tønsberg7, Stefan Ekman6 , Håkon Holien8,9, Philipp Resl10 , Kevin Schneider11, Edith Stabentheiner2, Holger Thüs12,13 , Jan Vondrák14,15 and Lewis Sharman16 1Department of Biological Sciences, CW405, University of Alberta, Edmonton, Alberta T6G 2R3, Canada; 2Department of Plant Sciences, Institute of Biology, University of Graz, NAWI Graz, Holteigasse 6, 8010 Graz, Austria; 3Division of Biological Sciences, University of Montana, 32 Campus Drive, Missoula, Montana 59812, USA; 4Herbarium, Department of Plant Biology, Michigan State University, East Lansing, Michigan 48824, USA; 5Real Jardín Botánico (CSIC), Departamento de Micología, Calle Claudio Moyano 1, E-28014 Madrid, Spain; 6Museum of Evolution, Uppsala University, Norbyvägen 16, SE-75236 Uppsala, Sweden; 7Department of Natural History, University Museum of Bergen Allégt. 41, P.O. Box 7800, N-5020 Bergen, Norway; 8Faculty of Bioscience and Aquaculture, Nord University, Box 2501, NO-7729 Steinkjer, Norway; 9NTNU University Museum, Norwegian University of Science and Technology, NO-7491 Trondheim, Norway; 10Faculty of Biology, Department I, Systematic Botany and Mycology, University of Munich (LMU), Menzinger Straße 67, 80638 München, Germany; 11Institute of Biodiversity, Animal Health and Comparative Medicine, College of Medical, Veterinary and Life Sciences, University of Glasgow, Glasgow G12 8QQ, UK; 12Botany Department, State Museum of Natural History Stuttgart, Rosenstein 1, 70191 Stuttgart, Germany; 13Natural History Museum, Cromwell Road, London SW7 5BD, UK; 14Institute of Botany of the Czech Academy of Sciences, Zámek 1, 252 43 Průhonice, Czech Republic; 15Department of Botany, Faculty of Science, University of South Bohemia, Branišovská 1760, CZ-370 05 České Budějovice, Czech Republic and 16Glacier Bay National Park & Preserve, P.O. -
A Multigene Phylogenetic Synthesis for the Class Lecanoromycetes (Ascomycota): 1307 Fungi Representing 1139 Infrageneric Taxa, 317 Genera and 66 Families
A multigene phylogenetic synthesis for the class Lecanoromycetes (Ascomycota): 1307 fungi representing 1139 infrageneric taxa, 317 genera and 66 families Miadlikowska, J., Kauff, F., Högnabba, F., Oliver, J. C., Molnár, K., Fraker, E., ... & Stenroos, S. (2014). A multigene phylogenetic synthesis for the class Lecanoromycetes (Ascomycota): 1307 fungi representing 1139 infrageneric taxa, 317 genera and 66 families. Molecular Phylogenetics and Evolution, 79, 132-168. doi:10.1016/j.ympev.2014.04.003 10.1016/j.ympev.2014.04.003 Elsevier Version of Record http://cdss.library.oregonstate.edu/sa-termsofuse Molecular Phylogenetics and Evolution 79 (2014) 132–168 Contents lists available at ScienceDirect Molecular Phylogenetics and Evolution journal homepage: www.elsevier.com/locate/ympev A multigene phylogenetic synthesis for the class Lecanoromycetes (Ascomycota): 1307 fungi representing 1139 infrageneric taxa, 317 genera and 66 families ⇑ Jolanta Miadlikowska a, , Frank Kauff b,1, Filip Högnabba c, Jeffrey C. Oliver d,2, Katalin Molnár a,3, Emily Fraker a,4, Ester Gaya a,5, Josef Hafellner e, Valérie Hofstetter a,6, Cécile Gueidan a,7, Mónica A.G. Otálora a,8, Brendan Hodkinson a,9, Martin Kukwa f, Robert Lücking g, Curtis Björk h, Harrie J.M. Sipman i, Ana Rosa Burgaz j, Arne Thell k, Alfredo Passo l, Leena Myllys c, Trevor Goward h, Samantha Fernández-Brime m, Geir Hestmark n, James Lendemer o, H. Thorsten Lumbsch g, Michaela Schmull p, Conrad L. Schoch q, Emmanuël Sérusiaux r, David R. Maddison s, A. Elizabeth Arnold t, François Lutzoni a,10, -
Punctelia Rudecta Species Complex (Parmeliaceae, Ascomycota)
RESEARCH ARTICLE An Integrative Approach for Understanding Diversity in the Punctelia rudecta Species Complex (Parmeliaceae, Ascomycota) David Alors1*, H. Thorsten Lumbsch2, Pradeep K. Divakar1, Steven D. Leavitt2, Ana Crespo1 1 Departamento de Biología Vegetal II, Facultad de Farmacia, Universidad Complutense de Madrid, Plaza de Ramón y Cajal s/n, Madrid, Spain, 2 Science and Education, Field Museum, Chicago, Illinois, United States of America * [email protected] Abstract High levels of cryptic diversity have been documented in lichenized fungi, especially in Par- OPEN ACCESS meliaceae, and integrating various lines of evidence, including coalescent-based species delimitation approaches, help establish more robust species circumscriptions. In this study, Citation: Alors D, Lumbsch HT, Divakar PK, Leavitt we used an integrative taxonomic approach to delimit species in the lichen-forming fungal SD, Crespo A (2016) An Integrative Approach for Understanding Diversity in the Punctelia rudecta genus Punctelia (Parmeliaceae), with a particular focus on the cosmopolitan species Species Complex (Parmeliaceae, Ascomycota). P. rudecta. Nuclear, mitochondrial ribosomal DNA and protein-coding DNA sequences PLoS ONE 11(2): e0146537. doi:10.1371/journal. were analyzed in phylogenetic and coalescence-based frameworks. Additionally, morpho- pone.0146537 logical, ecological and geographical features of the sampled specimens were evaluated. Editor: William Oki Wong, Institute of Botany, CHINA Five major strongly supported monophyletic clades were recognized in the genus Punctelia, Received: May 8, 2015 and each clade could be characterized by distinct patterns in medullary chemistry. Punctelia Accepted: December 18, 2015 rudecta as currently circumscribed was shown to be polyphyletic. A variety of empirical spe- cies delimitation methods provide evidence for a minimum of four geographically isolated Published: February 10, 2016 species within the nominal taxon Punctelia rudecta, including a newly described saxicolous Copyright: © 2016 Alors et al. -
Diversification and Species Delimitation of Lichenized Fungi in Selected Groups of the Family Parmeliaceae (Ascomycota)
Diversification and species delimitation of lichenized fungi in selected groups of the family Parmeliaceae (Ascomycota) Kristiina Mark Tartu 7.10.2016 Publications I Mark, K., Saag, L., Saag, A., Thell, A., & Randlane, T. (2012) Testing morphology-based delimitation of Vulpicida juniperinus and V. tubulosus (Parmeliaceae) using three molecular markers. The Lichenologist 44 (6): 752−772. II Saag, L., Mark, K., Saag, A., & Randlane, T. (2014) Species delimitation in the lichenized fungal genus Vulpicida (Parmeliaceae, Ascomycota) using gene concatenation and coalescent-based species tree approaches. American Journal of Botany 101 (12): 2169−2182. III Mark, K., Saag, L., Leavitt, S. D., Will-Wolf, S., Nelsen, M. P., Tõrra, T., Saag, A., Randlane, T., & Lumbsch, H. T. (2016) Evaluation of traditionally circumscribed species in the lichen-forming genus Usnea (Parmeliaceae, Ascomycota) using six-locus dataset. Organisms Diversity & Evolution 16 (3): 497–524. IV Mark, K., Randlane, T., Hur, J.-S., Thor, G., Obermayer, W. & Saag, A. Lichen chemistry is concordant with multilocus gene genealogy and reflects the species diversification in the genus Cetrelia (Parmeliaceae, Ascomycota). Manuscript submitted to The Lichenologist. V Mark, K., Cornejo, C., Keller, C., Flück, D., & Scheidegger, C. (2016) Barcoding lichen- forming fungi using 454 pyrosequencing is challenged by artifactual and biological sequence variation. Genome 59 (9): 685–704. Systematics • Provides units for biodiversity measurements and investigates evolutionary relationships • -
Four New Epiphytic Species in the Micarea Prasina Group from Europe
Author’s Accepted Manuscript Four new epiphytic species in the Micarea prasina group from Europe Annina Launis, Juha Pykälä, Pieter van den Boom, Emmanuël Sérusiaux & Leena Myllys A. Launis (corresponding author) and L. Myllys: Botany unit, Finnish Museum of Natural History, P.O. Box 7, FI-00014 University of Helsinki, Finland. Email: [email protected] (2020 onwards: [email protected]). J. Pykälä: Natural Environment Centre, Finnish Environment Institute, P.O. Box 140, FI-00251 Helsinki, Finland. P. van den Boom: Arafura 16, NL-5691 JA Son, the Netherlands. E. Sérusiaux: Evolution and Conservation Biology Unit, InBios research center, University of Liège, Sart Tilman B22, B-4000 Liège, Belgium. ABSTRACT In this study we clarify the phylogeny and reassess the current taxonomy of the Micarea prasina group focusing especially on M. byssacea and M. micrococca complexes. The phylogeny was investigated using ITS, mtSSU and Mcm7 regions from 25 taxa belonging to the M. prasina group. A total of 107 new sequences were generated. The data was analyzed using maximum parsimony and maximum likelihood methods. The results reveal five undescribed well-supported lineages. Four of the lineages represent new species described as Micarea pseudomicrococca Launis & Myllys sp. nov., Micarea czarnotae Launis, van den Boom, Sérusiaux & Myllys sp. nov., Micarea microareolata Launis, Pykälä & Myllys sp. nov. and Micarea laeta Launis & Myllys sp. nov. In addition, a fifth lineage was discovered that requires further studies. M. pseudomicrococca is characterized by olive green granular thallus, small creme white or brownish apothecia lacking the Sedifolia- grey pigment and two types of paraphyses up to 2 µm wide. -
Piedmont Lichen Inventory
PIEDMONT LICHEN INVENTORY: BUILDING A LICHEN BIODIVERSITY BASELINE FOR THE PIEDMONT ECOREGION OF NORTH CAROLINA, USA By Gary B. Perlmutter B.S. Zoology, Humboldt State University, Arcata, CA 1991 A Thesis Submitted to the Staff of The North Carolina Botanical Garden University of North Carolina at Chapel Hill Advisor: Dr. Johnny Randall As Partial Fulfilment of the Requirements For the Certificate in Native Plant Studies 15 May 2009 Perlmutter – Piedmont Lichen Inventory Page 2 This Final Project, whose results are reported herein with sections also published in the scientific literature, is dedicated to Daniel G. Perlmutter, who urged that I return to academia. And to Theresa, Nichole and Dakota, for putting up with my passion in lichenology, which brought them from southern California to the Traingle of North Carolina. TABLE OF CONTENTS Introduction……………………………………………………………………………………….4 Chapter I: The North Carolina Lichen Checklist…………………………………………………7 Chapter II: Herbarium Surveys and Initiation of a New Lichen Collection in the University of North Carolina Herbarium (NCU)………………………………………………………..9 Chapter III: Preparatory Field Surveys I: Battle Park and Rock Cliff Farm……………………13 Chapter IV: Preparatory Field Surveys II: State Park Forays…………………………………..17 Chapter V: Lichen Biota of Mason Farm Biological Reserve………………………………….19 Chapter VI: Additional Piedmont Lichen Surveys: Uwharrie Mountains…………………...…22 Chapter VII: A Revised Lichen Inventory of North Carolina Piedmont …..…………………...23 Acknowledgements……………………………………………………………………………..72 Appendices………………………………………………………………………………….…..73 Perlmutter – Piedmont Lichen Inventory Page 4 INTRODUCTION Lichens are composite organisms, consisting of a fungus (the mycobiont) and a photosynthesising alga and/or cyanobacterium (the photobiont), which together make a life form that is distinct from either partner in isolation (Brodo et al.