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Nuclear and Plastid DNA Phylogeny of the Tribe Cardueae (Compositae
1 Nuclear and plastid DNA phylogeny of the tribe Cardueae 2 (Compositae) with Hyb-Seq data: A new subtribal classification and a 3 temporal framework for the origin of the tribe and the subtribes 4 5 Sonia Herrando-Morairaa,*, Juan Antonio Callejab, Mercè Galbany-Casalsb, Núria Garcia-Jacasa, Jian- 6 Quan Liuc, Javier López-Alvaradob, Jordi López-Pujola, Jennifer R. Mandeld, Noemí Montes-Morenoa, 7 Cristina Roquetb,e, Llorenç Sáezb, Alexander Sennikovf, Alfonso Susannaa, Roser Vilatersanaa 8 9 a Botanic Institute of Barcelona (IBB, CSIC-ICUB), Pg. del Migdia, s.n., 08038 Barcelona, Spain 10 b Systematics and Evolution of Vascular Plants (UAB) – Associated Unit to CSIC, Departament de 11 Biologia Animal, Biologia Vegetal i Ecologia, Facultat de Biociències, Universitat Autònoma de 12 Barcelona, ES-08193 Bellaterra, Spain 13 c Key Laboratory for Bio-Resources and Eco-Environment, College of Life Sciences, Sichuan University, 14 Chengdu, China 15 d Department of Biological Sciences, University of Memphis, Memphis, TN 38152, USA 16 e Univ. Grenoble Alpes, Univ. Savoie Mont Blanc, CNRS, LECA (Laboratoire d’Ecologie Alpine), FR- 17 38000 Grenoble, France 18 f Botanical Museum, Finnish Museum of Natural History, PO Box 7, FI-00014 University of Helsinki, 19 Finland; and Herbarium, Komarov Botanical Institute of Russian Academy of Sciences, Prof. Popov str. 20 2, 197376 St. Petersburg, Russia 21 22 *Corresponding author at: Botanic Institute of Barcelona (IBB, CSIC-ICUB), Pg. del Migdia, s. n., ES- 23 08038 Barcelona, Spain. E-mail address: [email protected] (S. Herrando-Moraira). 24 25 Abstract 26 Classification of the tribe Cardueae in natural subtribes has always been a challenge due to the lack of 27 support of some critical branches in previous phylogenies based on traditional Sanger markers. -
Albuca Spiralis
Flowering Plants of Africa A magazine containing colour plates with descriptions of flowering plants of Africa and neighbouring islands Edited by G. Germishuizen with assistance of E. du Plessis and G.S. Condy Volume 62 Pretoria 2011 Editorial Board A. Nicholas University of KwaZulu-Natal, Durban, RSA D.A. Snijman South African National Biodiversity Institute, Cape Town, RSA Referees and other co-workers on this volume H.J. Beentje, Royal Botanic Gardens, Kew, UK D. Bridson, Royal Botanic Gardens, Kew, UK P. Burgoyne, South African National Biodiversity Institute, Pretoria, RSA J.E. Burrows, Buffelskloof Nature Reserve & Herbarium, Lydenburg, RSA C.L. Craib, Bryanston, RSA G.D. Duncan, South African National Biodiversity Institute, Cape Town, RSA E. Figueiredo, Department of Plant Science, University of Pretoria, Pretoria, RSA H.F. Glen, South African National Biodiversity Institute, Durban, RSA P. Goldblatt, Missouri Botanical Garden, St Louis, Missouri, USA G. Goodman-Cron, School of Animal, Plant and Environmental Sciences, University of the Witwatersrand, Johannesburg, RSA D.J. Goyder, Royal Botanic Gardens, Kew, UK A. Grobler, South African National Biodiversity Institute, Pretoria, RSA R.R. Klopper, South African National Biodiversity Institute, Pretoria, RSA J. Lavranos, Loulé, Portugal S. Liede-Schumann, Department of Plant Systematics, University of Bayreuth, Bayreuth, Germany J.C. Manning, South African National Biodiversity Institute, Cape Town, RSA A. Nicholas, University of KwaZulu-Natal, Durban, RSA R.B. Nordenstam, Swedish Museum of Natural History, Stockholm, Sweden B.D. Schrire, Royal Botanic Gardens, Kew, UK P. Silveira, University of Aveiro, Aveiro, Portugal H. Steyn, South African National Biodiversity Institute, Pretoria, RSA P. Tilney, University of Johannesburg, Johannesburg, RSA E.J. -
Everywhere but Antarctica: Using a Super Tree to Understand the Diversity and Distribution of the Compositae
BS 55 343 Everywhere but Antarctica: Using a super tree to understand the diversity and distribution of the Compositae VICKI A. FUNK, RANDALL J. BAYER, STERLING KEELEY, RAYMUND CHAN, LINDA WATSON, BIRGIT GEMEINHOLZER, EDWARD SCHILLING, JOSE L. PANERO, BRUCE G. BALDWIN, NURIA GARCIA-JACAS, ALFONSO SUSANNA AND ROBERT K. JANSEN FUNK, VA., BAYER, R.J., KEELEY, S., CHAN, R., WATSON, L, GEMEINHOLZER, B., SCHILLING, E., PANERO, J.L., BALDWIN, B.G., GARCIA-JACAS, N., SUSANNA, A. &JANSEN, R.K 2005. Everywhere but Antarctica: Using a supertree to understand the diversity and distribution of the Compositae. Biol. Skr. 55: 343-374. ISSN 0366-3612. ISBN 87-7304-304-4. One of every 10 flowering plant species is in the family Compositae. With ca. 24,000-30,000 species in 1600-1700 genera and a distribution that is global except for Antarctica, it is the most diverse of all plant families. Although clearly mouophyletic, there is a great deal of diversity among the members: habit varies from annual and perennial herbs to shrubs, vines, or trees, and species grow in nearly every type of habitat from lowland forests to the high alpine fell fields, though they are most common in open areas. Some are well-known weeds, but most species have restricted distributions, and members of this family are often important components of 'at risk' habitats as in the Cape Floral Kingdom or the Hawaiian Islands. The sub-familial classification and ideas about major patterns of evolution and diversification within the family remained largely unchanged from Beutham through Cronquist. Recently obtained data, both morphologi- cal and molecular, have allowed us to examine the distribution and evolution of the family in a way that was never before possible. -
Genetic Diversity and Evolution in Lactuca L. (Asteraceae)
Genetic diversity and evolution in Lactuca L. (Asteraceae) from phylogeny to molecular breeding Zhen Wei Thesis committee Promotor Prof. Dr M.E. Schranz Professor of Biosystematics Wageningen University Other members Prof. Dr P.C. Struik, Wageningen University Dr N. Kilian, Free University of Berlin, Germany Dr R. van Treuren, Wageningen University Dr M.J.W. Jeuken, Wageningen University This research was conducted under the auspices of the Graduate School of Experimental Plant Sciences. Genetic diversity and evolution in Lactuca L. (Asteraceae) from phylogeny to molecular breeding Zhen Wei Thesis submitted in fulfilment of the requirements for the degree of doctor at Wageningen University by the authority of the Rector Magnificus Prof. Dr A.P.J. Mol, in the presence of the Thesis Committee appointed by the Academic Board to be defended in public on Monday 25 January 2016 at 1.30 p.m. in the Aula. Zhen Wei Genetic diversity and evolution in Lactuca L. (Asteraceae) - from phylogeny to molecular breeding, 210 pages. PhD thesis, Wageningen University, Wageningen, NL (2016) With references, with summary in Dutch and English ISBN 978-94-6257-614-8 Contents Chapter 1 General introduction 7 Chapter 2 Phylogenetic relationships within Lactuca L. (Asteraceae), including African species, based on chloroplast DNA sequence comparisons* 31 Chapter 3 Phylogenetic analysis of Lactuca L. and closely related genera (Asteraceae), using complete chloroplast genomes and nuclear rDNA sequences 99 Chapter 4 A mixed model QTL analysis for salt tolerance in -
The Evolution of Haploid Chromosome Numbers in the Sunflower Family
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided byGBE Serveur académique lausannois The Evolution of Haploid Chromosome Numbers in the Sunflower Family Lucie Mota1,*, Rube´nTorices1,2,3,andJoa˜o Loureiro1 1Centre for Functional Ecology (CFE), Department of Life Sciences, University of Coimbra, Coimbra, Portugal 2Department of Functional and Evolutionary Ecology, Estacio´ n Experimental de Zonas A´ ridas (EEZA-CSIC), Almerı´a, Spain 3Department of Ecology and Evolution, University of Lausanne, Lausanne, Switzerland *Corresponding author: E-mail: [email protected]. Accepted: October 13, 2016 Data deposition: The chromosomal data was deposited under figshare (polymorphic data: https://figshare.com/s/9f 61f12e0f33a8e7f78d,DOI: 10.6084/m9.figshare.4083264; single data: https://figshare.com/s/7b8b50a16d56d43fec66, DOI: 10.6084/m9.figshare.4083267; supertree: https://fig- share.com/s/96f46a607a7cdaced33c, DOI: 10.6084/m9.figshare.4082370). Abstract Chromosome number changes during the evolution of angiosperms are likely to have played a major role in speciation. Their study is of utmost importance, especially now, as a probabilistic model is available to study chromosome evolution within a phylogenetic framework. In the present study, likelihood models of chromosome number evolution were fitted to the largest family of flowering plants, the Asteraceae. Specifically, a phylogenetic supertree of this family was used to reconstruct the ancestral chromosome number and infer genomic events. Our approach inferred that the ancestral chromosome number of the family is n = 9. Also, according to the model that best explained our data, the evolution of haploid chromosome numbers in Asteraceae was a very dynamic process, with genome duplications and descending dysploidy being the most frequent genomic events in the evolution of this family. -
Chemical Composition and Biological Potential of The
CHEMICAL COMPOSITION AND BIOLOGICAL POTENTIAL OF THE VOLATILE AND NON VOLATILE CONSTITUENTS OF TARCHONANTHUS CAMPHORATUS AND TARCHONANTHUS TRILOBUS VAR GALPINNI OF KWAZULU – NATAL PROVINCE. BY NANYONGA SARAH KIWANUKA (200901240) B.Ed. (Hons) Chemistry/Physics (MUK) Dip. Ed. (MUK) M.Sc. Chemistry (MUK) A thesis submitted to the Department of Chemistry, Faculty of Science and Agriculture in fulfilment of the Requirements for the Degree of Doctor of Philosophy, University of Zululand, Kwa-Dlangezwa, South Africa. Promoter: Prof. O.A. Oyedeji Co-promoters: Prof. A.R. Opoku Dr. F.B Lewu i ABSTRACT The chemical composition and the biological activities of the volatile extracts (essential oils) and non-volatile (solvent extracts) of the aerial parts Tarchonanthus camphoratus and Tarchonanthus trilobus var galpinni collected from Sangoyana and Ubombo respectively, in the Kwa-Zulu Natal province were investigated in this study. The essential oils were separately extracted from the fresh leaves, dry leaves and dry stem by hydro-distillation and their chemical constituents determined by Gas chromatography/mass spectrometry (GC/MS). The essential oils investigated were of the dry leaf of T. camphoratus harvested in 2009 and of the fresh leaf, dry leaf and dry stem of both T. camphoratus leaf and T. trilobus var galpinni harvested in 2010 and 2011. The compounds present in all the essential oils were categorised as monoterpene hydrocarbons, sesquiterpene hydrocarbons, oxygenated monoterpenes, oxygenated sesquiterpenes and others but they differed in the type and percentage composition. Sesquiterpene hydrocarbons dominated all the essential oils with β–caryophyllene and allo-aromadendrene present in all the essential oils either as minor or major compounds. -
A Survey of Tricolpate (Eudicot) Phylogenetic Relationships1
American Journal of Botany 91(10): 1627±1644. 2004. A SURVEY OF TRICOLPATE (EUDICOT) PHYLOGENETIC RELATIONSHIPS1 WALTER S. JUDD2,4 AND RICHARD G. OLMSTEAD3 2Department of Botany, University of Florida, Gainesville, Florida 32611 USA; and 3Department of Biology, University of Washington, Seattle, Washington 98195 USA The phylogenetic structure of the tricolpate clade (or eudicots) is presented through a survey of their major subclades, each of which is brie¯y characterized. The tricolpate clade was ®rst recognized in 1989 and has received extensive phylogenetic study. Its major subclades, recognized at ordinal and familial ranks, are now apparent. Ordinal and many other suprafamilial clades are brie¯y diag- nosed, i.e., the putative phenotypic synapomorphies for each major clade of tricolpates are listed, and the support for the monophyly of each clade is assessed, mainly through citation of the pertinent molecular phylogenetic literature. The classi®cation of the Angiosperm Phylogeny Group (APG II) expresses the current state of our knowledge of phylogenetic relationships among tricolpates, and many of the major tricolpate clades can be diagnosed morphologically. Key words: angiosperms; eudicots; tricolpates. Angiosperms traditionally have been divided into two pri- 1992a; Chase et al., 1993; Doyle et al., 1994; Soltis et al., mary groups based on the presence of a single cotyledon 1997, 2000, 2003; KaÈllersjoÈ et al., 1998; Nandi et al., 1998; (monocotyledons, monocots) or two cotyledons (dicotyledons, Hoot et al., 1999; Savolainen et al., 2000a, b; Hilu et al., 2003; dicots). A series of additional diagnostic traits made this di- Zanis et al., 2003; Kim et al., 2004). This clade was ®rst called vision useful and has accounted for the long recognition of the tricolpates (Donoghue and Doyle, 1989), but the name these groups in ¯owering plant classi®cations. -
Complete List of Literature Cited* Compiled by Franz Stadler
AppendixE Complete list of literature cited* Compiled by Franz Stadler Aa, A.J. van der 1859. Francq Van Berkhey (Johanes Le). Pp. Proceedings of the National Academy of Sciences of the United States 194–201 in: Biographisch Woordenboek der Nederlanden, vol. 6. of America 100: 4649–4654. Van Brederode, Haarlem. Adams, K.L. & Wendel, J.F. 2005. Polyploidy and genome Abdel Aal, M., Bohlmann, F., Sarg, T., El-Domiaty, M. & evolution in plants. Current Opinion in Plant Biology 8: 135– Nordenstam, B. 1988. Oplopane derivatives from Acrisione 141. denticulata. Phytochemistry 27: 2599–2602. Adanson, M. 1757. Histoire naturelle du Sénégal. Bauche, Paris. Abegaz, B.M., Keige, A.W., Diaz, J.D. & Herz, W. 1994. Adanson, M. 1763. Familles des Plantes. Vincent, Paris. Sesquiterpene lactones and other constituents of Vernonia spe- Adeboye, O.D., Ajayi, S.A., Baidu-Forson, J.J. & Opabode, cies from Ethiopia. Phytochemistry 37: 191–196. J.T. 2005. Seed constraint to cultivation and productivity of Abosi, A.O. & Raseroka, B.H. 2003. In vivo antimalarial ac- African indigenous leaf vegetables. African Journal of Bio tech- tivity of Vernonia amygdalina. British Journal of Biomedical Science nology 4: 1480–1484. 60: 89–91. Adylov, T.A. & Zuckerwanik, T.I. (eds.). 1993. Opredelitel Abrahamson, W.G., Blair, C.P., Eubanks, M.D. & More- rasteniy Srednei Azii, vol. 10. Conspectus fl orae Asiae Mediae, vol. head, S.A. 2003. Sequential radiation of unrelated organ- 10. Isdatelstvo Fan Respubliki Uzbekistan, Tashkent. isms: the gall fl y Eurosta solidaginis and the tumbling fl ower Afolayan, A.J. 2003. Extracts from the shoots of Arctotis arcto- beetle Mordellistena convicta. -
Chemical Composition and Anti-Microbial Activity of Essential Oils of the Plants Tarchonanthus Camphoratus, Leonotis Nepetifolia
CHEMICAL COMPOSITION AND ANTI-MICROBIAL ACTIVITY OF ESSENTIAL OILS OF THE PLANTS: TARCHONANTHUS CAMPHORATUS, LEONOTIS NEPETIFOLIA AND SATUREJA BIFLORA Kiplimo Joyce Jepkorir A thesis submitted to the Graduate School in partial fulfilment for the requirements of the Degree of Master of Science in Chemistry of Egerton University. EGERTON UNIVERSITY May 2007 DECLARATION AND RECOMMENDATION I declare that this thesis is my original work and that it has not been previously presented in this or any other University for any degree Signature…………………………….. Date………………………… KIPLIMO JOYCE JEPKORIR This thesis has been presented for examination with our approval as the University supervisors Signature……………………………. Date………………………… DR. MATASYOH J.C Signature……………………………. Date………………………… DR. OKANGA F.I ii COPYRIGHT All rights reserved. No part of this thesis may be produced, stored in any retrieval system or transmitted in any form, means, electronic, mechanical, photocopying, recording or otherwise without prior written permission of the author or Egerton University on that behalf © Copyright by Kiplimo Joyce Jepkorir 2006. iii DEDICATION To Kimutai, Jebii and Kiprotich iv ACKNOWLEDGEMENT Many individuals have contributed to the overall research achievements reported herein. My sincere gratitude goes to my supervisors Dr. Matasyoh J.C and Dr. Okanga F.I who apart from their professional insight, guidance and positive criticism shared their wide experience in Natural Products Chemistry with me. I extend my heartfelt and sincere thanks for their fruitful ideas, valuable advice and encouragement during this period. I am greatly indebted to all members of the Department of Chemistry, Egerton University who assisted me with valuable advice in the course of the study. -
1 Updates Required to Plant Systematics: A
Updates Required to Plant Systematics: A Phylogenetic Approach, Third Edition, as a Result of Recent Publications (Updated June 13, 2014) As necessitated by recent publications, updates to the Third Edition of our textbook will be provided in this document. It is hoped that this list will facilitate the efficient incorporation new systematic information into systematic courses in which our textbook is used. Plant systematics is a dynamic field, and new information on phylogenetic relationships is constantly being published. Thus, it is not surprising that even introductory texts require constant modification in order to stay current. The updates are organized by chapter and page number. Some require only minor changes, as indicated below, while others will require more extensive modifications of the wording in the text or figures, and in such cases we have presented here only a summary of the major points. The eventual fourth edition will, of course, contain many organizational changes not treated below. Page iv: Meriania hernandii Meriania hernandoi Chapter 1. Page 12, in Literature Cited, replace “Stuessy, T. F. 1990” with “Stuessy, T. F. 2009,” which is the second edition of this book. Stuessy, T. F. 2009. Plant taxonomy: The systematic evaluation of comparative data. 2nd ed. Columbia University Press, New York. Chapter 2. Page 37, column 1, line 5: Stuessy 1983, 1990;… Stuessy 1983, 2009; … And in Literature Cited, replace “Stuessy 1990” with: Stuessy, T. F. 2009. Plant taxonomy: The systematic evaluation of comparative data. 2nd ed. Columbia University Press, New York. Chapter 4. Page 58, column 1, line 5: and Dilcher 1974). …, Dilcher 1974, and Ellis et al. -
Classification of Compositae
Chapter 11 Classification of Compositae Vicki A. Funk, Alfonso Susanna, Tod F. Stuessy and Harold Robinson INTRODUCTION the general perception of this family as "weedy" is not correct. Certainly there are members that benefit from The Compositae (Asteraceae) family is nested high in disturbance, such as a few species of dandelions and this- the Angiosperm phylogeny in Asterideae/Asterales. The tles, and a few global pests (e.g., Chromolaena odorata (L.) family contains the largest number of described, accepted, R.M. King & H. Rob.), but most species have a restricted species of any plant family, ca. 24,000, with estimates of distribution and just about every 'at risk' habitat in the the total number reaching 30,000. There are 1600—1700 world contains members of this family that are an impor- genera distributed around the globe except for Antarctica. tant part of the flora. Assuming that there are 250,000—350,000 species of From the beginning, those who studied this family flowering plants, then one out of every eight to twelve thought that presence of both ray and disk florets (Fig. species is in Compositae (about 10%). That the family is 11.1A) represented the basic head pattern. In his classic monophyletic has never been in question. Every early illustration, Cassini (1816; Chapters 1, 6 and 41) placed worker in plant classification recognized Compositae as a Heliantheae at the center, Vernonieae and Eupatorieae at group at some level (i.e., Tournefort 1700; Berkhey 1760; one end, and Mutisieae and Cichorieae (Lactuceae) at the Vaillant 1719—1723) and in every type of analysis the other. -
Tribe Cardueae (Compositae) 1
American Journal of Botany 100(5): 867–882. 2013. R ECONSTRUCTING THE EVOLUTION AND BIOGEOGRAPHIC HISTORY 1 OF TRIBE CARDUEAE (COMPOSITAE) L AIA B ARRES 2,7,8 , I SABEL S ANMARTÍN 3 , C AJSA LISA A NDERSON 3,6 , A LFONSO S USANNA 2 , S VEN B UERKI 3,4 , M ERCÈ G ALBANY-CASALS 5 , AND R OSER V ILATERSANA 2 2 Institut Botànic de Barcelona (IBB-CSIC-ICUB), Pg. del Migdia s.n., E-08038 Barcelona, Spain; 3 Real Jardín Botánico (RJB-CSIC), Plaza de Murillo 2, E-28014 Madrid, Spain; 4 Jodrell Laboratory, Royal Botanic Gardens, Kew, Richmond, Surrey TW9 3DS, United Kingdom; 5 Unitat de Botànica, Dept. Biologia Animal, Biologia Vegetal i Ecologia, Facultat de Biociències, Universitat Autònoma de Barcelona, E-08193 Bellaterra, Spain; and 6 Department of Plant and Environmental Sciences, University of Gothenburg, Box 461, 450 30 Göteborg, Sweden • Premise of the study: Tribe Cardueae (thistles) forms one of the largest tribes in the family Compositae (2400 species), with representatives in almost every continent. The greatest species richness of Cardueae occurs in the Mediterranean region where it forms an important element of its fl ora. New fossil evidence and a nearly resolved phylogeny of Cardueae are used here to reconstruct the spatiotemporal evolution of this group. • Methods: We performed maximum parsimony and Bayesian phylogenetic inference based on nuclear ribosomal DNA and chloroplast DNA markers. Divergence times and ancestral area reconstructions for main lineages were estimated using penal- ized likelihood and dispersal–vicariance analyses, respectively, and integrated over the posterior distribution of the phylogeny from the Bayesian Markov chain Monte Carlo analysis to accommodate uncertainty in phylogenetic relationships.