Ecology and Conservation of Vulpicida Pinastri
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Phylogeny of the Cetrarioid Core (Parmeliaceae) Based on Five
The Lichenologist 41(5): 489–511 (2009) © 2009 British Lichen Society doi:10.1017/S0024282909990090 Printed in the United Kingdom Phylogeny of the cetrarioid core (Parmeliaceae) based on five genetic markers Arne THELL, Filip HÖGNABBA, John A. ELIX, Tassilo FEUERER, Ingvar KÄRNEFELT, Leena MYLLYS, Tiina RANDLANE, Andres SAAG, Soili STENROOS, Teuvo AHTI and Mark R. D. SEAWARD Abstract: Fourteen genera belong to a monophyletic core of cetrarioid lichens, Ahtiana, Allocetraria, Arctocetraria, Cetraria, Cetrariella, Cetreliopsis, Flavocetraria, Kaernefeltia, Masonhalea, Nephromopsis, Tuckermanella, Tuckermannopsis, Usnocetraria and Vulpicida. A total of 71 samples representing 65 species (of 90 worldwide) and all type species of the genera are included in phylogentic analyses based on a complete ITS matrix and incomplete sets of group I intron, -tubulin, GAPDH and mtSSU sequences. Eleven of the species included in the study are analysed phylogenetically for the first time, and of the 178 sequences, 67 are newly constructed. Two phylogenetic trees, one based solely on the complete ITS-matrix and a second based on total information, are similar, but not entirely identical. About half of the species are gathered in a strongly supported clade composed of the genera Allocetraria, Cetraria s. str., Cetrariella and Vulpicida. Arctocetraria, Cetreliopsis, Kaernefeltia and Tuckermanella are monophyletic genera, whereas Cetraria, Flavocetraria and Tuckermannopsis are polyphyletic. The taxonomy in current use is compared with the phylogenetic results, and future, probable or potential adjustments to the phylogeny are discussed. The single non-DNA character with a strong correlation to phylogeny based on DNA-sequences is conidial shape. The secondary chemistry of the poorly known species Cetraria annae is analyzed for the first time; the cortex contains usnic acid and atranorin, whereas isonephrosterinic, nephrosterinic, lichesterinic, protolichesterinic and squamatic acids occur in the medulla. -
A New Species of Allocetraria (Parmeliaceae, Ascomycota) in China
The Lichenologist 47(1): 31–34 (2015) 6 British Lichen Society, 2015 doi:10.1017/S0024282914000528 A new species of Allocetraria (Parmeliaceae, Ascomycota) in China Rui-Fang WANG, Xin-Li WEI and Jiang-Chun WEI Abstract: Allocetraria yunnanensis R. F. Wang, X. L. Wei & J. C. Wei is described as a new species from the Yunnan Province of China, and is characterized by having a shiny upper surface, strongly wrinkled lower surface, and marginal pseudocyphellae present on the lower side in the form of a white continuous line or spot. The phylogenetic analysis based on nrDNA ITS sequences suggests that the new species is related to A. sinensis X. Q. Gao. Key words: Allocetraria yunnanensis, lichen, taxonomy Accepted for publication 26 June 2014 Introduction genus, as all ten species have been reported there (Kurokawa & Lai 1991; Thell et al. The lichenized genus Allocetraria Kurok. & 1995; Randlane et al. 2001; Wang et al. M. J. Lai was described in 1991, with a new 2014). During our taxonomic study of Allo- species A. isidiigera Kurok. & M. J. Lai, and cetraria, a new species was found. two new combinations: A. ambigua (C. Bab.) Kurok. & M. J. Lai and A. stracheyi (C. Bab.) Kurok. & M. J. Lai (Kurokawa & Lai 1991). The main distribution area of Allocetraria Materials and Methods species was reported to be in the Himalayas, A dissecting microscope (ZEISS Stemi SV11) and com- including China, India, and Nepal. pound microscope (ZEISS Axioskop 2 plus) were used Allocetraria is characterized by dichoto- to study the morphology and anatomy of the specimens. Colour test reagents [10% aqueous KOH, saturated mously or subdichotomously branched lobes aqueous Ca(OCl)2, and concentrated alcoholic p- and a foliose to suberect or erect thallus with phenylenediamine] and thin-layer chromatography sparse rhizines, angular to sublinear pseudo- (TLC, solvent system C) were used for the detection cyphellae, palisade plectenchymatous upper of lichen substances (Culberson & Kristinsson 1970; Culberson 1972). -
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 • -
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. -
Secondary Metabolites from Cetrarioid Lichens: Chemotaxonomy, Biological Activities and Pharmaceutical Potential
Phytomedicine 23 (2016) 441–459 Contents lists available at ScienceDirect Phytomedicine journal homepage: www.elsevier.com/locate/phymed Secondary metabolites from cetrarioid lichens: Chemotaxonomy, biological activities and pharmaceutical potential Maonian Xu a, Starri Heidmarsson b, Elin Soffia Olafsdottir a, Rosa Buonfiglio c, ∗ Thierry Kogej c, Sesselja Omarsdottir a, a Faculty of Pharmaceutical Sciences, University of Iceland, Hagi, Hofsvallagata 53, IS-107 Reykjavik, Iceland b Icelandic Institute of Natural History, Akureyri Division, IS-600 Akureyri, Iceland c Chemistry Innovation Centre, Discovery Sciences, AstraZeneca R&D Mölndal, Pepparedsleden 1, Mölndal SE-43183, Sweden a r t i c l e i n f o a b s t r a c t Article history: Background: Lichens, as a symbiotic association of photobionts and mycobionts, display an unmatched Received 11 November 2015 environmental adaptability and a great chemical diversity. As an important morphological group, cetrari- Revised 16 February 2016 oid lichens are one of the most studied lichen taxa for their phylogeny, secondary chemistry, bioactivities Accepted 17 February 2016 and uses in folk medicines, especially the lichen Cetraria islandica . However, insufficient structure eluci- dation and discrepancy in bioactivity results could be found in a few studies. Keywords: Purpose: This review aimed to present a more detailed and updated overview of the knowledge of sec- Cetrarioid lichens ondary metabolites from cetrarioid lichens in a critical manner, highlighting their potentials for phar- Chemotaxonomy maceuticals as well as other applications. Here we also highlight the uses of molecular phylogenetics, Ethnopharmacology metabolomics and ChemGPS-NP model for future bioprospecting, taxonomy and drug screening to accel- Lichen substances erate applications of those lichen substances. -
The Tricky Lichen Genus Vulpicida: Phylogeny and Species Delimitation
The tricky lichen genus Vulpicida: phylogeny and species delimitation Kristiina Mark, Lauri Saag, Andres Saag, Tiina Randlane Institute of Ecology and Earth Sciences, University of Tartu, Tartu, Estonia, [email protected] V. juniperinus INTRODUCTION: ITS gene tree • The genus Vulpicida (Parmeliaceae, Ascomycota) belongs to the Branch support posterior probabilities (PP) form BEAST & MrBayes morphological group of “cetrarioid lichens” 1 V. tilesii/juniperinus (Russia; TIL 05) sp. 1 1 V. tilesii/juniperinus (Russia; VSP 16) V. juniperinus (Estonia; JUN 02a) V. juniperinus/ • Characteristic bright yellow colour of medulla is caused by V. juniperinus (Estonia; JUN 04) 0.98 V. juniperinus (Estonia; JUN 07) unique set of secondary metabolites V. juniperinus (Norway; JUN 12B) tubulosus/ 0.7 V. tubulosus (Estonia; JUN 14) V. juniperinus/tubulosus (Austria; TUB 28) CRYPTIC • Distributed in the temperate and arctic regions of northern V. tubulosus (Austria; TUB 51) V. juniperinus (Estonia; VSP 12) V. tilesii 0.99 SPECIES 1 • Gene tree heterogenity could be the result of hemisphere V. tilesii (Russia; TIL 13) 0.99 V. tilesii (USA; TIL 15) 1 V. tilesii (USA; TIL 08) includes incomplete lineage sorting that is most characteristic 0.93 V. tilesii (USA; TIL 03B) • Consists of six species: Vulpicida canadensis, V. juniperinus, 1 V. tilesii (Canada; TIL 18) 1 1 V. juniperinus/tilesii (Austria; TUB 27) V. tilesii to young diverging species complexes V. pinastri, V. tubulosus, V. tilesii and V. viridis 1 1 V. juniperinus (Austria; TUB 37) 1 V. juniperinus/tilesii (Austria; TUB 52) 0.99 1 V. juniperinus (Russia; JUN 18) • Morphological distinction between V. juniperinus, V. -
Lichens of Alaska
A Genus Key To The LICHENS OF ALASKA By Linda Hasselbach and Peter Neitlich January 1998 National Park Service Gates of the Arctic National Park and Presetve 201 First Avenue Fairbanks, AK 99701 ACKNOWLEDGMENTS We would like to aclmowledge the following individuals for their kind assistance: Jim Riley generously provided lichen photographs, with the exception of three copyrighted photos, Alectoria sannentosa, Peltigera neopolydactyla and P. membran.aceae, which are courtesy of Steve and Sylvia Sharnoff, and Neph roma arctica by Shelll Swanson. The line drawing on the cover, as well as those for Psoroma hypnorum and the 'lung-like' illustration, are the work of Alexander Mikulin as found in Uchens of Southeastern Alaska by Geiser, Dillman, Derr, and Stensvold. 'Cyphellae' and 'pseudocyphellae' are also by Alexander Mikulin as appear in MacroUchens of the Pac!ftc Northwest by McCune and Geiser. The Cladonia apothecia drawing is the work of Bruce McCune from Macrolichens of the Northern Rocky MoWltains by McCune and Goward. Drawings of Brodoa oroarctica, Physcia aipolia apothecia, and Peltigera veins are the work of Trevor Goward as found in 1he Uchens of Brittsh Columbia. Part I - FoUose and Squamulose Species by Goward, McCune and Meidinger. And the drawings of Masonhalea and Cetraria ericitorum are the work of Bethia Brehmer as found in Thomson's American Arctic MacroUchens. All photographs and line drawings were used by permission. Chiska Derr, Walter Neitlich, Roger Rosentreter, Thetus Smith, and Shelli Swanson provided valuable editing and draft comments. Thanks to Patty Rost and the staff of Gates of the Arctic National Park and Preserve for making this project possible. -
Field Oriented Keys to the Florida Lichens
Field oriented keys to the Florida lichens Roger Rosentreter, Ann M. DeBolt, & Barry Kaminsky December 12, 2015 Version Boise State University Field oriented keys to Florida Lichens Roger Rosentreter Department of Biology Boise State University 1910 University Drive Boise, ID 83725 [email protected] Barry Kaminsky University of Florida Gainesville, FL [email protected] [email protected] Ann DeBolt Natural Plant Communities Specialist Idaho Botanical Garden 2355 Old Penitentiary Rd. Boise, ID 83712 [email protected] [email protected] Table of Contents Introduction: Keys to genera and groups Keys to species Bulbothrix Candelaria Canoparmelia Cladonia Coccocarpia Coenogonium Collema see Leptogium key below. Crocynia Dirinaria Heterodermia Hyperphyscia Hypotrachyna Leptogium Lobaria Myelochroa Nephroma Normandina Pannaria Parmelinopsis Parmeliopsis Parmotrema Peltigera Phaeophyscia Physciella see Phaeophyscia key Physcia Physma Pseudocyphellaria Pseudoparmelia Punctelia Pyxine Ramalina Relicina Sticta Teloschistes Tuckermanella Usnea Vulpicida Xanthoparmelia Audience: Ecologists, Fieldwork technicians, Citizen Scientists, Naturalists, Lichenologists, general Botanists Potential Reviewers: Doug Ladd Rick Demmer Dr. Bruce McCune James Lendemer Richard Harris Introduction: There is still much to learn about Florida macrolichens. Macrolichen diversity was first catalogued by Moore (1968), followed by Harris (1990, 1995). “Lichens of North America” also contains photographs and descriptions of many of Florida’s macrolichens (Brodo et al. 2001). The aim of this book is to compliment these other resources and provide more field oriented keys to the macrolichen diversity. We hope to encourage the incorporation of lichens into field oriented ecological studies. Many of the species included in the keys are based lists and information from Harris (1990, 1995). In a few cases with a few rare Genera, Harris’ key very similar. -
Ozark Lichens
PRELIMINARY DRAFT: OZARK LICHENS Enumerating the lichens of the Ozark Highlands of Arkansas, Illinois, Kansas, Missouri, and Oklahoma Prepared for the 14 th Tuckerman Lichen Workshop Eureka Springs, Arkansas October 2005 Corrected printing November 2005 Richard C. Harris New York Botanical Garden Douglas Ladd The Nature Conservancy Supported by the National Science Foundation grant 0206023 INTRODUCTION Well known as a biologically unique region North America, the Ozarks were long neglected from a lichenological standpoint. Systematic surveys and collecting work were initiated in the Missouri portion of the Ozarks in the early1980's, and were subsequently expanded to encompass the entire Ozark ecoregion, including small portions of Kansas and Illinois, and significant portions of Arkansas, Missouri and Oklahoma. These efforts have revealed a surprisingly rich diversity of lichens in the region, including a significant number of undescribed taxa. Despite considerable field work in every county in the region, new records continue to be found at a distressing rate, and we cannot yet state the total diversity of Ozark lichen biota. This draft is a tentative first attempt to provide a comprehensive treatment of the lichens of the Ozarks. Included here are general keys, brief synopses of genera, key to species within each genus with more than one Ozark taxon, and summaries of the Ozark distribution and ecology of each species, sometimes accompanied by more detailed taxonomic descriptions and other comments. As will be immediately evident to the reader, this draft is being rushed into preliminary distribution to be available for testing at the 2005 Tuckerman Lichen Workshop in the Ozarks. Hence a few disclaimers are stressed: this is an uneven treatment, in that some genera have been carefully studied, with detailed species descriptions and ecological profiles, while other groups are still problematical, with more cursory and provisional treatments. -
Notes for Genera Update – Ascomycota: 6616-6821 Article
Mycosphere 9(1): 115–140 (2018) www.mycosphere.org ISSN 2077 7019 Article Doi 10.5943/mycosphere/9/1/2 Copyright © Guizhou Academy of Agricultural Sciences Notes for genera update – Ascomycota: 6616-6821 Wijayawardene NN1,2, Hyde KD2, Divakar PK3, Rajeshkumar KC4, Weerahewa D5, Delgado G6, Wang Y7, Fu L1* 1Shandong Institute of Pomologe, Taian, Shandong Province, 271000, China 2Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai, 57100, Thailand 3Departamento de Biologı ´a Vegetal II, Facultad de Farmacia, Universidad Complutense de Madrid, 28040 Madrid, Spain 4National Fungal Culture Collection of India (NFCCI), Biodiversity and Palaeobiology (Fungi) Group, Agharkar Research Institute, Pune, Maharashtra 411 004, India 5Department of Botany, The Open University of Sri Lanka, Nawala, Nugegoda, Sri Lanka 610900 Brittmoore Park Drive Suite G Houston, TX 77041 7Department of Plant Pathology, Agriculture College, Guizhou University, Guiyang 550025, People’s Republic of China Wijayawardene NN, Hyde KD, Divakar PK, Rajeshkumar KC, Weerahewa D, Delgado G, Wang Y, Fu L 2018 – Notes for genera update – Ascomycota: 6616-6821. Mycosphere 9(1), 115–140, Doi 10.5943/mycosphere/9/1/2 Abstract Taxonomic knowledge of the Ascomycota, is rapidly changing because of use of molecular data, thus continuous updates of existing taxonomic data with new data is essential. In the current paper, we compile existing data of several genera missing from the recently published “Notes for genera-Ascomycota”. This includes 206 entries. Key words – Asexual genera – Data bases – Sexual genera – Taxonomy Introduction Maintaining updated databases and checklists of genera of fungi is an important and essential task, as it is the base of all taxonomic studies. -
Biodiversity
Appendix I Biodiversity Appendix I1 Literature Review – Biodiversity Resources in the Oil Sands Region of Alberta Syncrude Canada Ltd. Mildred Lake Extension Project Volume 3 – EIA Appendices December 2014 APPENDIX I1: LITERATURE REVIEW – BIODIVERSITY RESOURCES IN THE OIL SANDS REGION OF ALBERTA TABLE OF CONTENTS PAGE 1.0 BIOTIC DIVERSTY DATA AND SUMMARIES ................................................................ 1 1.1 Definition ............................................................................................................... 1 1.2 Biodiversity Policy and Assessments .................................................................... 1 1.3 Environmental Setting ........................................................................................... 2 1.3.1 Ecosystems ........................................................................................... 2 1.3.2 Biota ...................................................................................................... 7 1.4 Key Issues ............................................................................................................. 9 1.4.1 Alteration of Landscapes and Landforms ............................................. 9 1.4.2 Ecosystem (Habitat) Alteration ........................................................... 10 1.4.3 Habitat Fragmentation and Edge Effects ............................................ 10 1.4.4 Cumulative Effects .............................................................................. 12 1.4.5 Climate Change ................................................................................. -
Testing Morphology-Based Delimitation of Vulpicida Juniperinus and V
The Lichenologist 44(6): 757–772 (2012) 6 British Lichen Society, 2012 doi:10.1017/S0024282912000448 Testing morphology-based delimitation of Vulpicida juniperinus and V. tubulosus (Parmeliaceae) using three molecular markers Kristiina MARK, Lauri SAAG, Andres SAAG, Arne THELL and Tiina RANDLANE Abstract: The delimitation of two morphologically similar and not easily separable Vulpicida species, V. juniperinus and V. tubulosus, is analyzed using nuclear ITS and Mcm7, and mitochondrial SSU DNA sequences. Seventy-nine Vulpicida specimens, most from the two focal taxa, are included in the three-locus gene tree. The results from Bayesian and parsimony analyses are presented. There are strong conflicts between the single locus gene trees. Vulpicida juniperinus and V. tubulosus are divided into two clearly distinguished groups in the ITS and concatenated B/MCMC tree. However, these species are mixed in both clades, appearing polyphyletic. Currently accepted V. juniperinus and V. tubulosus are not distinct according to the loci studied. Vulpicida pinastri appears monophyletic based on the available sequences. Key words: gene tree, ITS, lichenized fungi, Mcm7, molecular phylogenetics, MrBayes, mtSSU, taxonomy Accepted for publication 15 June 2012 Introduction J. Lai, V. juniperinus (L.) J.-E. Mattsson & M. J. Lai, V. pinastri (Scop.) J.-E. Mattsson, The morphological group of cetrarioid lichens V. tilesii (Ach.) J.-E. Mattsson & M. J. Lai, V. (Parmeliaceae) with erect foliose/subfruticose tubulosus (Schaer.) J.-E. Mattsson & M. J. Lai thallus, marginal apothecia and pycnidia, and and V. viridis (Schwein.) J.-E. Mattsson & production of the Cetraria-type lichenan, M. J. Lai. In 1993, the new genus Vulpicida contains nearly 150 species in over 20 genera was delimited based on morphology, anatomy, (Randlane et al.