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Axpcoords & Parallel Axparafit: Statistical Co-Phylogenetic Analyses
BMC Bioinformatics BioMed Central Software Open Access AxPcoords & parallel AxParafit: statistical co-phylogenetic analyses on thousands of taxa Alexandros Stamatakis*1,2, Alexander F Auch3, Jan Meier-Kolthoff3 and Markus Göker4 Address: 1École Polytechnique Fédérale de Lausanne, School of Computer & Communication Sciences, Laboratory for Computational Biology and Bioinformatics STATION 14, CH-1015 Lausanne, Switzerland, 2Swiss Institute of Bioinformatics, 3Center for Bioinformatics (ZBIT), Sand 14, Tübingen, University of Tübingen, Germany and 4Organismic Botany/Mycology, Auf der Morgenstelle 1, Tübingen, University of Tübingen, Germany Email: Alexandros Stamatakis* - [email protected]; Alexander F Auch - [email protected]; Jan Meier- Kolthoff - [email protected]; Markus Göker - [email protected] * Corresponding author Published: 22 October 2007 Received: 26 June 2007 Accepted: 22 October 2007 BMC Bioinformatics 2007, 8:405 doi:10.1186/1471-2105-8-405 This article is available from: http://www.biomedcentral.com/1471-2105/8/405 © 2007 Stamatakis et al.; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Abstract Background: Current tools for Co-phylogenetic analyses are not able to cope with the continuous accumulation of phylogenetic data. The sophisticated statistical test for host-parasite co-phylogenetic analyses implemented in Parafit does not allow it to handle large datasets in reasonable times. The Parafit and DistPCoA programs are the by far most compute-intensive components of the Parafit analysis pipeline. -
HISTOPATOLOGÍA DE USTILAGINALES (CARBONES) EN Poaceas DE LOS GÉNEROS Sorghum, Bromus Y Glyceria
FACULTAD DE CIENCIAS AGRARIAS Y FORESTALES UNIVERSIDAD NACIONAL DE LA PLATA TESIS DE DOCTORADO HISTOPATOLOGÍA DE USTILAGINALES (CARBONES) EN Poaceas DE LOS GÉNEROS Sorghum, Bromus Y Glyceria Tesista: Ing. Agr. (Esp.) Marta Mónica Astiz Gassó Director de Tesis: Dra Analía E. Perelló Año 2017 1 “Gallery of Contemporay Noted Mycologists” USA En Memoría a la Dra Elisa Hirschhorn “…los genios no son de donde nacen sino del país al que sirven, los genios tienen por patria el mundo” 2 Dedicado “A mi Esposo Hugo, mis hijos Marina y Hernán por entender que el trabajo docente investigador ocupan más tiempo y dedicación que cualquier otro emprendimiento laboral” 3 AGRADECIMIENTOS A la Dra Elisa por guiarme y enseñarme sobre los carbones cuando comencé en 1976 con la tesina de grado en el Instituto Fitotécnico Santa Catalina y de su apoyo incondicional para que siguiera adelante sobre la temática y ampliar mi horizonte sobre la Fitopatología. Además, de considerar a mis hijos como sus nietos. A los directores del Instituto del Fitotécnico Santa Catalina: Ing. Agr. Luis. B. Mazoti por permitirme hacer mis primeros pasos como becaria (Experimental Agro-Industrial Obispo Colombres (Tucumán); al Ing. Agr. Miguel Arturi por incluirme como personal profesional, luego para acceder al cargo de Jefe de Trabajos Prácticos y continuar con mis trabajos como docente- investigador. Y actualmente, a la Dra María del Carmén Molina por alentarme y apoyarme a concluir con la Tesis Doctoral. A mi Directora de tesis y amiga Dra Analía E. Perelló por considerarme su tesista y alentarme para que la realizará por allá en el 2008. -
<I>Tilletia Indica</I>
ISPM 27 27 ANNEX 4 ENG DP 4: Tilletia indica Mitra INTERNATIONAL STANDARD FOR PHYTOSANITARY MEASURES PHYTOSANITARY FOR STANDARD INTERNATIONAL DIAGNOSTIC PROTOCOLS Produced by the Secretariat of the International Plant Protection Convention (IPPC) This page is intentionally left blank This diagnostic protocol was adopted by the Standards Committee on behalf of the Commission on Phytosanitary Measures in January 2014. The annex is a prescriptive part of ISPM 27. ISPM 27 Diagnostic protocols for regulated pests DP 4: Tilletia indica Mitra Adopted 2014; published 2016 CONTENTS 1. Pest Information ............................................................................................................................... 2 2. Taxonomic Information .................................................................................................................... 2 3. Detection ........................................................................................................................................... 2 3.1 Examination of seeds/grain ............................................................................................... 3 3.2 Extraction of teliospores from seeds/grain, size-selective sieve wash test ....................... 3 4. Identification ..................................................................................................................................... 4 4.1 Morphology of teliospores ................................................................................................ 4 4.1.1 Morphological -
Mykologie in Tübingen 1974-2011
Mykologie am Lehrstuhl Spezielle Botanik und Mykologie der Universität Tübingen, 1974-2011 FRANZ OBERWINKLER Kurzfassung Wir beschreiben die mykologischen Forschungsaktivitäten am ehemaligen Lehrstuhl „Spezielle Botanik und Mykologie“ der Universität Tübingen von 1974 bis 2011 und ihrer internationalen Ausstrahlung. Leitschiene unseres gemeinsamen mykologischen Forschungskonzeptes war die Verknüpfung von Gelände- mit Laborarbeiten sowie von Forschung mit Lehre. Dieses Konzept spiegelte sich in einem weit gefächerten Lehrangebot, das insbesondere den Pflanzen als dem Hauptsubstrat der Pilze breiten Raum gab. Lichtmikroskopische Untersuchungen der zellulären Baupläne von Pilzen bildeten das Fundament für unsere Arbeiten: Identifikationen, Ontogeniestudien, Vergleiche von Mikromorphologien, Überprüfen von Kulturen, Präparateauswahl für Elektronenmikroskopie, etc. Bereits an diesen Beispielen wird die Methodenvernetzung erkennbar. In dem zu besprechenden Zeitraum wurden Ultrastrukturuntersuchungen und Nukleinsäuresequenzierungen als revolutionierende Methoden für den täglichen Laborbetrieb verfügbar. Flankiert wurden diese Neuerungen durch ständig verbesserte Datenaufbereitungen und Auswertungsprogramme für Computer. Zusammen mit den traditionellen Anwendungen der Lichtmikroskopie und der Kultivierung von Pilzen stand somit ein effizientes Methodenspektrum zur Verfügung, das für systematische, phylogenetische und ökologische Fragestellungen gleichermaßen eingesetzt werden konnte, insbesondere in der Antibiotikaforschung, beim Studium zellulärer -
Congressional Budget Justification 2015
U.S. AFRICAN DEVELOPMENT FOUNDATION Pathways to Prosperity “Making Africa’s Growth Story Real in Grassroots Communities” CONGRESSIONAL BUDGET JUSTIFICATION Fiscal Year 2015 March 31, 2014 Washington, D.C. United States African Development Foundation (This page was intentionally left blank) 2 USADF 2015 CONGRESSIONAL BUDGET JUSTIFICATION United States African Development Foundation THE BOARD OF DIRECTORS AND THE PRESIDENT OF THE UNITED STATES AFRICAN DEVELOPMENT FOUNDATION WASHINGTON, DC We are pleased to present to the Congress the Administration’s FY 2015 budget justification for the United States African Development Foundation (USADF). The FY 2015 request of $24 million will provide resources to establish new grants in 15 African countries and to support an active portfolio of 350 grants to producer groups engaged in community-based enterprises. USADF is a Federally-funded, public corporation promoting economic development among marginalized populations in Sub-Saharan Africa. USADF impacts 1,500,000 people each year in underserved communities across Africa. Its innovative direct grants program (less than $250,000 per grant) supports sustainable African-originated business solutions that improve food security, generate jobs, and increase family incomes. In addition to making an economic impact in rural populations, USADF’s programs are at the forefront of creating a network of in-country technical service providers with local expertise critical to advancing Africa’s long-term development needs. USADF furthers U.S. priorities by directing small amounts of development resources to disenfranchised groups in hard to reach, sensitive regions across Africa. USADF ensures that critical U.S. development initiatives such as Ending Extreme Poverty, Feed the Future, Power Africa, and the Young African Leaders Initiative reach out to those communities often left out of Africa’s growth story. -
CARBÓN PARCIAL DEL TRIGO Tilletia Indica Mitra Ficha Técnica
CARBÓN PARCIAL DEL TRIGO Tilletia indica Mitra Ficha Técnica No. 24 Durán, 2008., Durán 2016., Castlebury & Shivas 2006. ISBN: Pendiente Mayo, 2019 Dirección: DGSV/CNRF/PVEF Código EPPO : NEOVIN. Fecha de actualización: Mayo, 2019. Comentarios y sugerencias enviar correo a: [email protected] CONTENIDO IDENTIDAD .................................................................................................................................................................................................... 1 Nombre científico ................................................................................................................................................................................ 1 Sinonimia .................................................................................................................................................................................................. 1 Clasificación taxonómica ................................................................................................................................................................ 1 Nombre común .................................................................................................................................................................................... 1 Código EPPO .......................................................................................................................................................................................... 1 Estatus Fitosanitario ......................................................................................................................................................................... -
Molecular Phylogeny of Ustilago and Sporisorium Species (Basidiomycota, Ustilaginales) Based on Internal Transcribed Spacer (ITS) Sequences1
Color profile: Disabled Composite Default screen 976 Molecular phylogeny of Ustilago and Sporisorium species (Basidiomycota, Ustilaginales) based on internal transcribed spacer (ITS) sequences1 Matthias Stoll, Meike Piepenbring, Dominik Begerow, Franz Oberwinkler Abstract: DNA sequence data from the internal transcribed spacer (ITS) region of the nuclear rDNA genes were used to determine a phylogenetic relationship between the graminicolous smut genera Ustilago and Sporisorium (Ustilaginales). Fifty-three members of both genera were analysed together with three related outgroup genera. Neighbor-joining and Bayesian inferences of phylogeny indicate the monophyly of a bipartite genus Sporisorium and the monophyly of a core Ustilago clade. Both methods confirm the recently published nomenclatural change of the cane smut Ustilago scitaminea to Sporisorium scitamineum and indicate a putative connection between Ustilago maydis and Sporisorium. Overall, the three clades resolved in our analyses are only weakly supported by morphological char- acters. Still, their preferences to parasitize certain subfamilies of Poaceae could be used to corroborate our results: all members of both Sporisorium groups occur exclusively on the grass subfamily Panicoideae. The core Ustilago group mainly infects the subfamilies Pooideae or Chloridoideae. Key words: basidiomycete systematics, ITS, molecular phylogeny, Bayesian analysis, Ustilaginomycetes, smut fungi. Résumé : Afin de déterminer la relation phylogénétique des genres Ustilago et Sporisorium (Ustilaginales), responsa- bles du charbon chez les graminées, les auteurs ont utilisé les données de séquence de la région espaceur transcrit interne (ITS) des gènes nucléiques ADNr. Ils ont analysé 53 membres de ces genres, ainsi que trois genres apparentés. Les liens avec les voisins et l’inférence bayésienne de la phylogénie indiquent la monophylie d’un genre Sporisorium bipartite et la monophylie d’un clade Ustilago central. -
Tilletia Indica.Pdf
Podsumowanie Analizy Zagrożenia Agrofagiem (Ekspres PRA) dla Tilletia indica Obszar PRA: Rzeczpospolita Polska Opis obszaru zagrożenia: Obszar całego kraju Główne wnioski Prawdopodobieństwo wniknięcia T. indica na teren PRA jest ściśle związane z importem zakażonego ziarna. Istnieje ryzyko zadomowienia się patogenu na obszarze PRA i wywoływania szkód w produkcji rolnej. W przypadku sprowadzania z miejsc, gdzie występuje choroba konieczne jest prowadzenie działań fitosanitarnych jak kontrola materiału nasiennego lub ziarna przeznaczonego na inne cele. Wskazane jest także zaniechanie importu w przypadku epidemii na nowym terenie lub z rejonów o silnym natężeniu infekcji. Sprowadzanie ziarna produkowanego poza obszarem występowania T. indica nie wymaga podejmowania specjalnych zabiegów fitosanitarnych. Wszelkie sygnały o obecności agrofaga powinny zostać poddane wnikliwej analizie, a zakażone rośliny lub materiał zniszczone. Ze względu na duże zdolności teliospor do przetrwania w niekorzystnych warunkach zwalczanie chemiczne lub płodozmian mogą okazać się nieskuteczne. Ryzyko fitosanitarne dla zagrożonego obszaru (indywidualna ranga prawdopodobieństwa wejścia, Wysokie Średnie X Niskie zadomowienia, rozprzestrzenienia oraz wpływu w tekście dokumentu) Poziom niepewności oceny: (uzasadnienie rangi w punkcie 18. Indywidualne rangi niepewności dla prawdopodobieństwa wejścia, Wysoka Średnia Niska X zadomowienia, rozprzestrzenienia oraz wpływu w tekście) Inne rekomendacje: 1 Ekspresowa Analiza Zagrożenia Agrofagiem: Tilletia indica Przygotowana przez: dr Katarzyna Pieczul, prof. dr hab. Marek Korbas, mgr Jakub Danielewicz, dr Katarzyna Sadowska, mgr Michał Czyż, mgr Magdalena Gawlak, lic. Agata Olejniczak dr Tomasz Kałuski; Instytut Ochrony Roślin – Państwowy Instytut Badawczy, ul. Węgorka 20, 60-318 Poznań. Data: 10.08.2017 Etap 1 Wstęp Powód wykonania PRA: Tilletia indica jest patogenem porażającym pszenicę i pszenżyto oraz potencjalnie niektóre z gatunków traw dziko rosnących. Patogen stwarza realne zagrożenie dla upraw zbóż na obszarze PRA. -
Tilletia Indica) of Wheat Prem Lal Kashyap 1, Satvinder Kaur 1, Gulzar S
1873 Prem Lal Kashyap et al./ Elixir Agriculture 31 (2011) 1873-1876 Available online at www.elixirpublishers.com (Elixir International Journal) Agriculture Elixir Agriculture 31 (2011) 1873-1876 Novel methods for quarantine detection of karnal bunt (tilletia indica) of wheat Prem Lal Kashyap 1, Satvinder Kaur 1, Gulzar S. Sanghera 2, Santhokh S. Kang 1 and PPS Pannu 1 1 Molecular Diagnostic Laboratory, Department of Plant Pathology, Punjab Agricultural University, Ludhiana- 141004 2 SKUAST (K) - Rice Research and Regional Station, Khudwani, Anantnag, 192102, Jammu and Kashmir, India ARTICLE INFO ABSTRACT Article history: Prior knowledge about the presence of a plant pathogen in an infected plant material and Received: 8 December 2010; natural reservoir is the first requirement for a successful disease management strategy. This Received in revised form: becomes more crucial in case of quarantine pathogen like T. indica in order to alleviate 29 December 2010; unnecessary restrictions that prevent the movement of wheat across the globe and tells how Accepted: 1 February 2011; this pathogen hinders the wheat trade of India. More over the potential risk of its dissemination in international wheat trade and germplasm exchange, there is a need for quick, sensitive, Keywords reliable and alarming method to identify T. indica to facilitate implementation of specific Tilletia indica, disease control strategies and for accurately selecting areas for quarantine. The detection of Detection, Karnal bunt (KB) is based primarily on the presence of teliospores on wheat seeds. However, Karnal bunt, accurate and reliable identification of T. indica teliospores by spore morphology alone is not Wheat always possible. Research based on genomic advances and innovative detection methods as well as better knowledge of the T. -
REDERC (Benin).Pdf
Empowered lives. Resilient nations. THE COMMUNITY NATURE RESERVE DEVELOPMENT NETWORK (REDERC) Benin Equator Initiative Case Studies Local sustainable development solutions for people, nature, and resilient communities UNDP EQUATOR INITIATIVE CASE STUDY SERIES Local and indigenous communities across the world are advancing innovative sustainable development solutions that work for people and for nature. Few publications or case studies tell the full story of how such initiatives evolve, the breadth of their impacts, or how they change over time. Fewer still have undertaken to tell these stories with community practitioners themselves guiding the narrative. To mark its 10-year anniversary, the Equator Initiative aims to fill this gap. The following case study is one in a growing series that details the work of Equator Prize winners – vetted and peer-reviewed best practices in community-based environmental conservation and sustainable livelihoods. These cases are intended to inspire the policy dialogue needed to take local success to scale, to improve the global knowledge base on local environment and development solutions, and to serve as models for replication. Case studies are best viewed and understood with reference to ‘The Power of Local Action: Lessons from 10 Years of the Equator Prize’, a compendium of lessons learned and policy guidance that draws from the case material. Click on the map to visit the Equator Initiative’s searchable case study database. Editors Editor-in-Chief: Joseph Corcoran Managing Editor: Oliver Hughes Contributing -
A Survey of Ballistosporic Phylloplane Yeasts in Baton Rouge, Louisiana
Louisiana State University LSU Digital Commons LSU Master's Theses Graduate School 2012 A survey of ballistosporic phylloplane yeasts in Baton Rouge, Louisiana Sebastian Albu Louisiana State University and Agricultural and Mechanical College, [email protected] Follow this and additional works at: https://digitalcommons.lsu.edu/gradschool_theses Part of the Plant Sciences Commons Recommended Citation Albu, Sebastian, "A survey of ballistosporic phylloplane yeasts in Baton Rouge, Louisiana" (2012). LSU Master's Theses. 3017. https://digitalcommons.lsu.edu/gradschool_theses/3017 This Thesis is brought to you for free and open access by the Graduate School at LSU Digital Commons. It has been accepted for inclusion in LSU Master's Theses by an authorized graduate school editor of LSU Digital Commons. For more information, please contact [email protected]. A SURVEY OF BALLISTOSPORIC PHYLLOPLANE YEASTS IN BATON ROUGE, LOUISIANA A Thesis Submitted to the Graduate Faculty of the Louisiana Sate University and Agricultural and Mechanical College in partial fulfillment of the requirements for the degree of Master of Science in The Department of Plant Pathology by Sebastian Albu B.A., University of Pittsburgh, 2001 B.S., Metropolitan University of Denver, 2005 December 2012 Acknowledgments It would not have been possible to write this thesis without the guidance and support of many people. I would like to thank my major professor Dr. M. Catherine Aime for her incredible generosity and for imparting to me some of her vast knowledge and expertise of mycology and phylogenetics. Her unflagging dedication to the field has been an inspiration and continues to motivate me to do my best work. -
Iodiversity of Australian Smut Fungi
Fungal Diversity iodiversity of Australian smut fungi R.G. Shivas'* and K. Vanky2 'Queensland Department of Primary Industries, Plant Pathology Herbarium, 80 Meiers Road, Indooroopilly, Queensland 4068, Australia 2 Herbarium Ustilaginales Vanky, Gabriel-Biel-Str. 5, D-72076 Tiibingen, Germany Shivas, R.G. and Vanky, K. (2003). Biodiversity of Australian smut fungi. Fungal Diversity 13 :137-152. There are about 250 species of smut fungi known from Australia of which 95 are endemic. Fourteen of these endemic species were first collected in the period culminating with the publication of Daniel McAlpine's revision of Australian smut fungi in 1910. Of the 68 species treated by McAlpine, 10 were considered to be endemic to Australia at that time. Only 23 of the species treated by McAlpine have names that are currently accepted. During the following eighty years until 1990, a further 31 endemic species were collected and just 11 of these were named and described in that period. Since 1990, 50 further species of endemic smut fungi have been collected and named in Australia. There are 115 species that are restricted to either Australia or to Australia and the neighbouring countries of Indonesia, New Zealand, Papua New Guinea and the Philippines . These 115 endemic species occur in 24 genera, namely Anthracoidea (1 species), Bauerago (1), Cintractia (3), Dermatosorus (1), Entyloma (3), Farysporium (1), Fulvisporium (1), Heterotolyposporium (1), Lundquistia (1), Macalpinomyces (4), Microbotryum (2), Moreaua (20), Pseudotracya (1), Restiosporium (5), Sporisorium (26), Thecaphora (2), Tilletia (12), Tolyposporella (1), Tranzscheliella (1), Urocystis (2), Ustanciosporium (1), Ustilago (22), Websdanea (1) and Yelsemia (2). About a half of these local and regional endemic species occur on grasses and a quarter on sedges.