APP203514 Soil Fungus Import and Release Submissions
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History and Philosophy of Systematic Biology
History and Philosophy of Systematic Biology Bock, W. J. (1973) Philosophical foundations of classical evolutionary classification Systematic Zoology 22: 375-392 Part of a general symposium on "Contemporary Systematic Philosophies," there are some other interesting papers here. Brower, A. V. Z. (2000) Evolution Is Not a Necessary Assumption of Cladistics Cladistics 16: 143- 154 Dayrat, Benoit (2005) Ancestor-descendant relationships and the reconstruction of the Tree of Lif Paleobiology 31: 347-353 Donoghue, M.J. and J.W. Kadereit (1992) Walter Zimmermann and the growth of phylogenetic theory Systematic Biology 41: 74-84 Faith, D. P. and J. W. H. Trueman (2001) Towards an inclusive philosophy for phylogenetic inference Systematic Biology 50: 331-350 Gaffney, E. S. (1979) An introduction to the logic of phylogeny reconstruction, pp. 79-111 in Cracraft, J. and N. Eldredge (eds.) Phylogenetic Analysis and Paleontology Columbia University Press, New York. Gilmour, J. S. L. (1940) Taxonomy and philosophy, pp. 461-474 in J. Huxley (ed.) The New Systematics Oxford Hull, D. L. (1978) A matter of individuality Phil. of Science 45: 335-360 Hull, D. L. (1978) The principles of biological classification: the use and abuse of philosophy Hull, D. L. (1984) Cladistic theory: hypotheses that blur and grow, pp. 5-23 in T. Duncan and T. F. Stuessy (eds.) Cladistics: Perspectives on the Reconstruction of Evolutionary History Columbia University Press, New York * Hull, D. L. (1988) Science as a process: an evolutionary account of the social and conceptual development of science University of Chicago Press. An already classic work on the recent, violent history of systematics; used as data for Hull's general theories about scientific change. -
Peziza and Pezizaceae Inferred from Multiple Nuclear Genes: RPB2, -Tubulin, and LSU Rdna
Molecular Phylogenetics and Evolution 36 (2005) 1–23 www.elsevier.com/locate/ympev Evolutionary relationships of the cup-fungus genus Peziza and Pezizaceae inferred from multiple nuclear genes: RPB2, -tubulin, and LSU rDNA Karen Hansen ¤, Katherine F. LoBuglio, Donald H. PWster Harvard University Herbaria, Cambridge, MA 02138, USA Received 5 May 2004; revised 17 December 2004 Available online 22 April 2005 Abstract To provide a robust phylogeny of Pezizaceae, partial sequences from two nuclear protein-coding genes, RPB2 (encoding the sec- ond largest subunit of RNA polymerase II) and -tubulin, were obtained from 69 and 72 specimens, respectively, to analyze with nuclear ribosomal large subunit RNA gene sequences (LSU). The three-gene data set includes 32 species of Peziza, and 27 species from nine additional epigeous and six hypogeous (truZe) pezizaceous genera. Analyses of the combined LSU, RPB2, and -tubulin data set using parsimony, maximum likelihood, and Bayesian approaches identify 14 Wne-scale lineages within Pezizaceae. Species of Peziza occur in eight of the lineages, spread among other genera of the family, conWrming the non-monophyly of the genus. Although parsimony analyses of the three-gene data set produced a nearly completely resolved strict consensus tree, with increased conWdence, relationships between the lineages are still resolved with mostly weak bootstrap support. Bayesian analyses of the three- gene data, however, show support for several more inclusive clades, mostly congruent with Bayesian analyses of RPB2. No strongly supported incongruence was found among phylogenies derived from the separate LSU, RPB2, and -tubulin data sets. The RPB2 region appeared to be the most informative single gene region based on resolution and clade support, and accounts for the greatest number of potentially parsimony informative characters within the combined data set, followed by the LSU and the -tubulin region. -
Embryophytic Sporophytes in the Rhynie and Windyfield Cherts
Transactions of the Royal Society of Edinburgh: Earth Sciences http://journals.cambridge.org/TRE Additional services for Transactions of the Royal Society of Edinburgh: Earth Sciences: Email alerts: Click here Subscriptions: Click here Commercial reprints: Click here Terms of use : Click here Embryophytic sporophytes in the Rhynie and Windyeld cherts Dianne Edwards Transactions of the Royal Society of Edinburgh: Earth Sciences / Volume 94 / Issue 04 / December 2003, pp 397 - 410 DOI: 10.1017/S0263593300000778, Published online: 26 July 2007 Link to this article: http://journals.cambridge.org/abstract_S0263593300000778 How to cite this article: Dianne Edwards (2003). Embryophytic sporophytes in the Rhynie and Windyeld cherts. Transactions of the Royal Society of Edinburgh: Earth Sciences, 94, pp 397-410 doi:10.1017/S0263593300000778 Request Permissions : Click here Downloaded from http://journals.cambridge.org/TRE, IP address: 131.251.254.13 on 25 Feb 2014 Transactions of the Royal Society of Edinburgh: Earth Sciences, 94, 397–410, 2004 (for 2003) Embryophytic sporophytes in the Rhynie and Windyfield cherts Dianne Edwards ABSTRACT: Brief descriptions and comments on relationships are given for the seven embryo- phytic sporophytes in the cherts at Rhynie, Aberdeenshire, Scotland. They are Rhynia gwynne- vaughanii Kidston & Lang, Aglaophyton major D. S. Edwards, Horneophyton lignieri Barghoorn & Darrah, Asteroxylon mackiei Kidston & Lang, Nothia aphylla Lyon ex Høeg, Trichopherophyton teuchansii Lyon & Edwards and Ventarura lyonii Powell, Edwards & Trewin. The superb preserva- tion of the silica permineralisations produced in the hot spring environment provides remarkable insights into the anatomy of early land plants which are not available from compression fossils and other modes of permineralisation. -
The Taxonomic Position of the Psilotales in the Light of Our Knowledge of Devonian Plant Life*
THE TAXONOMIC POSITION OF THE PSILOTALES IN THE LIGHT OF OUR KNOWLEDGE OF DEVONIAN PLANT LIFE* F. P. JONKER Laboratory of Palaeobotany and Palynology, Utrecht, The Netherlands ABSTRACT exclusively Devonian Psilophytales and of the latter the Rhyniaceae are regarded The order Psilotales, containing the two recent genera Psilatum and Tnzesiptel'is only, is usually usually as the closest relatives. Among classified by taxonomists and palaeo botanists those who take this st?nd I mention G. M. in the phylum Psiiophyta. This concept is, Smith (1955), Magdefra.u in Strasburger in spite of the synangia, based on the primitive (1971) and Lcmoigne (1968c). The concept general appearance reminding one of that of the of the last mentioned author will be dis• Devonian Rhyniaceae. Numerous attempts have been made to derive both genera, including their cussed further on. Darrah (1960) states synangia, from either the Rhvniaceae or from other that the status of the putative primitive Psilophyta. These attempts' sometimes led to the nature of the plant body in the Psilotaceae acceptance of a series of missing Jinks but this concept is, however, not supported bv palaeo· is controversial although there is a strong botanical data. tendency to accept the family as a pel'sis• In the opinion of the present reporter the order tent remnant of the Psilopsida. Andrews has kept a primitive general appearance of its (1961) states that Psilatum has been reaarded Devonian ancestors but in its synangia and in its monolete spores it is more advanced. by some botanists as a very simpl~ land In its anatomy, its microphyllous leaves, and in its plant, possibly a very ancient type that gametophyte perhaps, it shows more affiinity to the has managed to survive for several hundreds phylum Lycopodiophyta. -
Zootaxa, Empidoidea (Diptera)
ZOOTAXA 1180 The morphology, higher-level phylogeny and classification of the Empidoidea (Diptera) BRADLEY J. SINCLAIR & JEFFREY M. CUMMING Magnolia Press Auckland, New Zealand BRADLEY J. SINCLAIR & JEFFREY M. CUMMING The morphology, higher-level phylogeny and classification of the Empidoidea (Diptera) (Zootaxa 1180) 172 pp.; 30 cm. 21 Apr. 2006 ISBN 1-877407-79-8 (paperback) ISBN 1-877407-80-1 (Online edition) FIRST PUBLISHED IN 2006 BY Magnolia Press P.O. Box 41383 Auckland 1030 New Zealand e-mail: [email protected] http://www.mapress.com/zootaxa/ © 2006 Magnolia Press All rights reserved. No part of this publication may be reproduced, stored, transmitted or disseminated, in any form, or by any means, without prior written permission from the publisher, to whom all requests to reproduce copyright material should be directed in writing. This authorization does not extend to any other kind of copying, by any means, in any form, and for any purpose other than private research use. ISSN 1175-5326 (Print edition) ISSN 1175-5334 (Online edition) Zootaxa 1180: 1–172 (2006) ISSN 1175-5326 (print edition) www.mapress.com/zootaxa/ ZOOTAXA 1180 Copyright © 2006 Magnolia Press ISSN 1175-5334 (online edition) The morphology, higher-level phylogeny and classification of the Empidoidea (Diptera) BRADLEY J. SINCLAIR1 & JEFFREY M. CUMMING2 1 Zoologisches Forschungsmuseum Alexander Koenig, Adenauerallee 160, 53113 Bonn, Germany. E-mail: [email protected] 2 Invertebrate Biodiversity, Agriculture and Agri-Food Canada, C.E.F., Ottawa, ON, Canada -
Pterido Classes General Characters
1. Class: Psilotopsida: The members of the class Psilotopsida show close resemblance in fundamental characteristics to the Silurian and Devonian members of Rhyniopsida (e.g., Rhynia, Cooksonia), Zostero- phyllopsida (e.g., Zosterophyllum) and Trimero- phytopsida (e.g., Trimerophyton, Psilophyton). Psilotopsida includes only two living genera viz., Psilotum and Tmesipteris. Characteristic Features of Class Psilotopsida: 1. The plant body is a rootless sporophyte that differentiates into a subterranean rhizome and an aerial erect shoot. 2. Branching is dichotomous in both subterranean rhizome and aerial shoot. 3. The large rhizoids borne on the rhizome absorb water and nutrients from the soil. 4. On the aerial shoots, spirally arranged scale-like (e.g., Psilotum) or leaf-like appendages (e.g., Tmesipteris) are borne. 5. Stele is protostelic or siphonostelic with sclerenchymatous pith. 6. Secondary growth is absent. 7. Bi- or trilocular sporangia are borne in the axils of leaf-like appendages. 8. Mode of sporangial development is of eusporangiate type. 9. Spores are of equal sizes and shapes i.e., homosporous. 10. The gametophytes are non-green, cylindrical, branched and subterranean. They grow as saprophytes with an associated endophytic fungus. 11.Antherozoids are spirally coiled and multi- flagellated. 2. Class. Lycopsida: This class has a long evolutionary history and is represented both by extant and extinct genera. This group first originated during the Lower Devonian period of Palaeozoic Era (ca 390 my). This class is represented by five living genera — Lycopodium, Selaginella, Phylloglossum, Styhtes, and Isoetes, and fourteen extinct genera — Asteroxylon, Baragwanathia, Protolepido- dendron, Lepidodendron, Sigillaria etc. Salient Features of the Class Lycopsida: (a) The sporophyte plant body is differentiated into definite root, stem and leaves. -
Systematic Study of Fungi in the Genera Underwoodia and Gymnohydnotrya (Pezizales) with the Description of Three New South American Species
Persoonia 44, 2020: 98–112 ISSN (Online) 1878-9080 www.ingentaconnect.com/content/nhn/pimj RESEARCH ARTICLE https://doi.org/10.3767/persoonia.2020.44.04 Resurrecting the genus Geomorium: Systematic study of fungi in the genera Underwoodia and Gymnohydnotrya (Pezizales) with the description of three new South American species N. Kraisitudomsook1, R.A. Healy1, D.H. Pfister2, C. Truong3, E. Nouhra4, F. Kuhar4, A.B. Mujic1,5, J.M. Trappe6,7, M.E. Smith1,* Key words Abstract Molecular phylogenetic analyses have addressed the systematic position of several major Northern Hemisphere lineages of Pezizales but the taxa of the Southern Hemisphere remain understudied. This study focuses Geomoriaceae on the molecular systematics and taxonomy of Southern Hemisphere species currently treated in the genera Under Helvellaceae woodia and Gymnohydnotrya. Species in these genera have been identified as the monophyletic /gymnohydno trya Patagonia lineage, but no further research has been conducted to determine the evolutionary origin of this lineage or its relation- South American fungi ship with other Pezizales lineages. Here, we present a phylogenetic study of fungal species previously described truffle systematics in Underwoodia and Gymnohydnotrya, with sampling of all but one described species. We revise the taxonomy of Tuberaceae this lineage and describe three new species from the Patagonian region of South America. Our results show that none of these Southern Hemisphere species are closely related to Underwoodia columnaris, the type species of the genus Underwoodia. Accordingly, we recognize the genus Geomorium described by Spegazzini in 1922 for G. fuegianum. We propose the new family, Geomoriaceae fam. nov., to accommodate this phylogenetically and morphologically unique Southern Hemisphere lineage. -
An Alternative Model for the Earliest Evolution of Vascular Plants
1 1 An alternative model for the earliest evolution of vascular plants 2 3 BORJA CASCALES-MINANA, PHILIPPE STEEMANS, THOMAS SERVAIS, KEVIN LEPOT 4 AND PHILIPPE GERRIENNE 5 6 Land plants comprise the bryophytes and the polysporangiophytes. All extant polysporangiophytes are 7 vascular plants (tracheophytes), but to date, some basalmost polysporangiophytes (also called 8 protracheophytes) are considered non-vascular. Protracheophytes include the Horneophytopsida and 9 Aglaophyton/Teruelia. They are most generally considered phylogenetically intermediate between 10 bryophytes and vascular plants, and are therefore essential to elucidate the origins of current vascular 11 floras. Here, we propose an alternative evolutionary framework for the earliest tracheophytes. The 12 supporting evidence comes from the study of the Rhynie chert historical slides from the Natural History 13 Museum of Lille (France). From this, we emphasize that Horneophyton has a particular type of tracheid 14 characterized by narrow, irregular, annular and/or, possibly spiral wall thickenings of putative secondary 15 origin, and hence that it cannot be considered non-vascular anymore. Accordingly, our phylogenetic 16 analysis resolves Horneophyton and allies (i.e., Horneophytopsida) within tracheophytes, but as sister 17 to eutracheophytes (i.e., extant vascular plants). Together, horneophytes and eutracheophytes form a 18 new clade called herein supereutracheophytes. The thin, irregular, annular to helical thickenings of 19 Horneophyton clearly point to a sequential acquisition of the characters of water-conducting cells. 20 Because of their simple conducting cells and morphology, the horneophytophytes may be seen as the 21 precursors of all extant vascular plant biodiversity. 22 23 Keywords: Rhynie chert, Horneophyton, Tracheophyte, Lower Devonian, Cladistics. -
M.Sc. BOTANY SEMESTER - I BO- 7115 PAPER - I DIVERSITY of VIRUSES, MYCOPLASMA, BACTERIA and FUNGI (60 Hrs)
ST. JOSEPH'S COLLEGE (AUTONOMOUS) M.Sc. BOTANY SEMESTER - I BO- 7115 PAPER - I DIVERSITY OF VIRUSES, MYCOPLASMA, BACTERIA AND FUNGI (60 Hrs) Unit I Five kingdom, Eight kingdom classification and Three domains of 02 hrs living organisms. Unit -II Viruses – general characters, nomenclature, classification; 08 hrs morphology, structure, transmission and replication. Purification of plant viruses. Symptoms of viral diseases in plants Mycoplasma – General characters , classification ,ultrastructure 05 hrs Unit-III and reproduction. Brief account of mycoplasmal diseases of plants- Little leaf of Brinjal. Unit -IV Bacteria –Forms, distribution and classification according to 12 hrs Bergy’s System, Classification based on DNA-DNA hybridization, 16s rRNA sequencing; Nutritional types: Autotrophic, heterotrophic, photosynthetic,chemosynthetic,saprophytic,parasitic and symbiotic ; A brief account on methonogenic bacteria ; Brief account of Actinomycetes and their importance in soil and medical microbiology. Unit – V Fungi 20 hrs General characteristics, Classification (Ainsworth 1973, McLaughlin 2001), structure and reproduction. Salient features of Myxomycota, Mastigomycotina, Zygomycotina, Ascomycotina, Basidiomycotina and Deuteromycotina and their classificafion upto class level. Unit - VI Brief account of fungal heterothallism, sex hormones and 09 hrs Parasexual cycle. Brief account of mycorrhizae,lichens, fungal symbionts in insects, fungi as biocontrol agents ( Trichoderma and nematophagous). Unit – VII Isolation, purification and culturing of microorganisms 04 hrs (bacteria and fungi). 1 PRACTICALS: Micrometry. Haemocytometer. Isolation, culture and staining techniques of Bacteria and Fungi. Type study: Stemonites, Synchytrium, Saprolegnia, Albugo, Phytophthora, Mucor/Rhizopus , Erysiphe, Aspergillus, Chaetomium, Pencillium, Morchella, Hamileia, Ustilago Lycoperdon, Cyathes, Dictyophora, Polyporus, Trichoderma, Curvularia, Alternaria, Drechslera and Pestalotia. Study of few bacterial, viral, mycoplasmal diseases in plants (based on availability). -
Duke University Dissertation Template
Systematics, Phylogeography and Ecology of Elaphomycetaceae by Hannah Theresa Reynolds Department of Biology Duke University Date:_______________________ Approved: ___________________________ Rytas Vilgalys, Supervisor ___________________________ Marc Cubeta ___________________________ Katia Koelle ___________________________ François Lutzoni ___________________________ Paul Manos Dissertation submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy in the Department of Biology in the Graduate School of Duke University 2011 iv ABSTRACTU Systematics, Phylogeography and Ecology of Elaphomycetaceae by Hannah Theresa Reynolds Department of Biology Duke University Date:_______________________ Approved: ___________________________ Rytas Vilgalys, Supervisor ___________________________ Marc Cubeta ___________________________ Katia Koelle ___________________________ François Lutzoni ___________________________ Paul Manos An abstract of a dissertation submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy in the Department of Biology in the Graduate School of Duke University 2011 Copyright by Hannah Theresa Reynolds 2011 Abstract This dissertation is an investigation of the systematics, phylogeography, and ecology of a globally distributed fungal family, the Elaphomycetaceae. In Chapter 1, we assess the literature on fungal phylogeography, reviewing large-scale phylogenetics studies and performing a meta-data analysis of fungal population genetics. In particular, we examined -
Alien Ectomycorrhizal Plants Differ in Their Ability to Interact with Co- Introduced and Native Ectomycorrhizal Fungi in Novel Sites
The ISME Journal (2020) 14:2336–2346 https://doi.org/10.1038/s41396-020-0692-5 ARTICLE Alien ectomycorrhizal plants differ in their ability to interact with co- introduced and native ectomycorrhizal fungi in novel sites 1,2,3 4,5 2,3 1 4 2 Lukáš Vlk ● Leho Tedersoo ● Tomáš Antl ● Tomáš Větrovský ● Kessy Abarenkov ● Jan Pergl ● 3 2,3 1 2,3,6 1,2,3 Jana Albrechtová ● Miroslav Vosátka ● Petr Baldrian ● Petr Pyšek ● Petr Kohout Received: 20 November 2019 / Revised: 7 May 2020 / Accepted: 27 May 2020 / Published online: 4 June 2020 © The Author(s), under exclusive licence to International Society for Microbial Ecology 2020 Abstract Alien plants represent a potential threat to environment and society. Understanding the process of alien plants naturalization is therefore of primary importance. In alien plants, successful establishment can be constrained by the absence of suitable fungal partners. Here, we used 42 independent datasets of ectomycorrhizal fungal (EcMF) communities associated with alien Pinaceae and Eucalyptus spp., as the most commonly introduced tree species worldwide, to explore the strategies these plant groups utilize to establish symbioses with EcMF in the areas of introduction. We have also determined the differences in composition of EcMF communities associated with alien ectomycorrhizal plants in different regions. While alien Pinaceae 1234567890();,: 1234567890();,: introduced to new regions rely upon association with co-introduced EcMF, alien Eucalyptus often form novel interactions with EcMF species native to the region where the plant was introduced. The region of origin primarily determines species composition of EcMF communities associated with alien Pinaceae in new areas, which may largely affect invasion potential of the alien plants. -
Leicestershire Entomological Society
LEICESTERSHIRE ENTOMOLOGICAL SOCIETY The status of Diptera in VC55 Families with up to 10 species Ray Morris [email protected] LESOPS 40 (August 2021) ISSN 0957 - 1019 LESOPS 40 (2021): Small families 2 Introduction A preliminary assessment of the status of flies (Diptera) in Leicestershire & Rutland (VC55) was produced in 2019 (Morris, 2019). Summaries of the number of species in families known to be in VC55 at that time were presented with the intention that fuller status assessments would be made in due course. The known records of flies to the end of 2020 are now being collated, checked, validated and plotted in order to produce a sequence of status reports as part of the Leicestershire Entomological Society Occasional Publication Series (LESOPS). Reviews of the Conopidae and Tephritidae have already appeared (Morris, 2021a, b) and are now followed by consideration of records from the fly families with a maximum of 10 species (Table 1). Table 1: Families with up to 10 species (based on Dipterists Forum listing January 2021). Acartophthalmidae (2) Campichoetidae (2) Helcomyzidae (1) Pseudopomyzidae (1) Acroceridae (3) Chaoboridae (6) Heterocheilidae (1) Ptychopteridae (7) Anisopodidae (4) Chiropteromyzidae (1) Lonchopteridae (7) Rhiniidae (1) Asteiidae (8) Clusidae (10) Meganerinidae (1) Rhinophoridae (8) Atelestidae (2) Cnemospathidae (1) Micropezidae (10) Scenopinidae (2) Athericidae (3) Coelopidae (3) Mycetobiidae (3) Stenomicridae (3) Aulacigastridae (1) Cryptochetidae (1) Nycteribiidae (3) Strongylophthalmyiidae (1) Bombylidae