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Culturing and Targeted Pacbio RS Amplicon Sequencing Reveals a Higher Order Taxonomic Diversity and Global Distribution
bioRxiv preprint doi: https://doi.org/10.1101/199125; this version posted October 8, 2017. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY 4.0 International license. Enigmatic Diphyllatea eukaryotes: Culturing and targeted PacBio RS amplicon sequencing reveals a higher order taxonomic diversity and global distribution Orr Russell J.S.1,2*, Zhao Sen3,4, Klaveness Dag5, Yabuki Akinori6, Ikeda Keiji7, Makoto M. Watanabe7, Shalchian-Tabrizi Kamran1,2* 1 Section for Genetics and Evolutionary Biology (EVOGENE), Department of Biosciences, University of Oslo, Oslo, Norway 2 Centre for Integrative Microbial Evolution (CIME), Section for Genetics and Evolutionary Biology (EVOGENE), Department of Biosciences, University of Oslo, Oslo, Norway 3 Department of Molecular Oncology, Institute of Cancer Research, Oslo University Hospital-Radiumhospitalet, Oslo, Norway 4 Medical Faculty, Center for Cancer Biomedicine, University of Oslo University Hospital, Oslo, Norway 5 Section for Aquatic Biology and Toxicology (AQUA), Department of Biosciences, University of Oslo, Oslo, Norway 6 Japan Agency for Marine-Earth Sciences and Technology (JAMSTEC), 2-15 Natsushima, Yokosuka, Kanagawa 237-0061, Japan 7 Faculty of Life and Environmental Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8572, Japan * Corresponding authors: Russell J. S. Orr & Kamran Shalchian-Tabrizi Email: [email protected] Mobile: +4748187013 Email: [email protected] Mobile: +4741045328 Address: Kristine Bonnevies hus, Blindernveien 31, 0371 Oslo, Norway Keywords: Diphyllatea, PacBio, rRNA, phylogeny, diversity, Collodictyon, amplicon, Sulcozoa 1 bioRxiv preprint doi: https://doi.org/10.1101/199125; this version posted October 8, 2017. -
Multigene Eukaryote Phylogeny Reveals the Likely Protozoan Ancestors of Opis- Thokonts (Animals, Fungi, Choanozoans) and Amoebozoa
Accepted Manuscript Multigene eukaryote phylogeny reveals the likely protozoan ancestors of opis- thokonts (animals, fungi, choanozoans) and Amoebozoa Thomas Cavalier-Smith, Ema E. Chao, Elizabeth A. Snell, Cédric Berney, Anna Maria Fiore-Donno, Rhodri Lewis PII: S1055-7903(14)00279-6 DOI: http://dx.doi.org/10.1016/j.ympev.2014.08.012 Reference: YMPEV 4996 To appear in: Molecular Phylogenetics and Evolution Received Date: 24 January 2014 Revised Date: 2 August 2014 Accepted Date: 11 August 2014 Please cite this article as: Cavalier-Smith, T., Chao, E.E., Snell, E.A., Berney, C., Fiore-Donno, A.M., Lewis, R., Multigene eukaryote phylogeny reveals the likely protozoan ancestors of opisthokonts (animals, fungi, choanozoans) and Amoebozoa, Molecular Phylogenetics and Evolution (2014), doi: http://dx.doi.org/10.1016/ j.ympev.2014.08.012 This is a PDF file of an unedited manuscript that has been accepted for publication. As a service to our customers we are providing this early version of the manuscript. The manuscript will undergo copyediting, typesetting, and review of the resulting proof before it is published in its final form. Please note that during the production process errors may be discovered which could affect the content, and all legal disclaimers that apply to the journal pertain. 1 1 Multigene eukaryote phylogeny reveals the likely protozoan ancestors of opisthokonts 2 (animals, fungi, choanozoans) and Amoebozoa 3 4 Thomas Cavalier-Smith1, Ema E. Chao1, Elizabeth A. Snell1, Cédric Berney1,2, Anna Maria 5 Fiore-Donno1,3, and Rhodri Lewis1 6 7 1Department of Zoology, University of Oxford, South Parks Road, Oxford OX1 3PS, UK. -
Stortingsvalget 1965. Hefte II Oversikt
OGES OISIEE SAISIKK II 199 SOIGSAGE 6 EE II OESIK SOIG EECIOS 6 l II Gnrl Srv SAISISK SEAYÅ CEA UEAU O SAISICS O OWAY OSO 66 Tidligere utkommet. Statistik vedkommende Valgmandsvalgene og Stortingsvalgene 1815-1885: NOS III 219, 1888: Medd. fra det Statist. Centralbureau 7, 1889, suppl. 2, 1891: Medd. fra det Statist. Centralbureau 10, 1891, suppl. 2, 1894 III 245, 1897 III 306, 1900 IV 25, 1903 IV 109. Stortingsvalget 1906 NOS V 49, 1909 V 128, 1912 V 189, 1915 VI 65, 1918 VI 150, 1921 VII 66, 1924 VII 176, 1927 VIII 69, 1930 VIII 157, 1933 IX 26, 1936 IX 107, 1945 X 132, 1949 XI 13, 1953 XI 180, 1957 XI 299, 1961 XII 68, 1961 A 126. Stortingsvalget 1965 I NOS A 134. MARIENDALS BOKTRYKKERI A/S, GJØVIK Forord I denne publikasjonen er det foretatt en analyse av resultatene fra stortings- valget 1965. Opplegget til analysen er stort sett det samme som for stortings- valget 1961 og bygger på et samarbeid med Chr. Michelsens Institutt og Institutt for Samfunnsforskning. Som tillegg til oversikten er tatt inn de offisielle valglister ved stortingsvalget i 1965. Detaljerte talloppgaver fra stortingsvalget er offentliggjort i Stortingsvalget 1965, hefte I (NOS A 134). Statistisk Sentralbyrå, Oslo, 1. juni 1966. Petter Jakob Bjerve Gerd Skoe Lettenstrom Preface This publication contains a survey of the results of the Storting elections 1965. The survey appears in approximately the same form as the survey of the 1961 elections and has been prepared in co-operation with Chr. Michelsen's Institute and the Institute for Social Research. -
Protist Phylogeny and the High-Level Classification of Protozoa
Europ. J. Protistol. 39, 338–348 (2003) © Urban & Fischer Verlag http://www.urbanfischer.de/journals/ejp Protist phylogeny and the high-level classification of Protozoa Thomas Cavalier-Smith Department of Zoology, University of Oxford, South Parks Road, Oxford, OX1 3PS, UK; E-mail: [email protected] Received 1 September 2003; 29 September 2003. Accepted: 29 September 2003 Protist large-scale phylogeny is briefly reviewed and a revised higher classification of the kingdom Pro- tozoa into 11 phyla presented. Complementary gene fusions reveal a fundamental bifurcation among eu- karyotes between two major clades: the ancestrally uniciliate (often unicentriolar) unikonts and the an- cestrally biciliate bikonts, which undergo ciliary transformation by converting a younger anterior cilium into a dissimilar older posterior cilium. Unikonts comprise the ancestrally unikont protozoan phylum Amoebozoa and the opisthokonts (kingdom Animalia, phylum Choanozoa, their sisters or ancestors; and kingdom Fungi). They share a derived triple-gene fusion, absent from bikonts. Bikonts contrastingly share a derived gene fusion between dihydrofolate reductase and thymidylate synthase and include plants and all other protists, comprising the protozoan infrakingdoms Rhizaria [phyla Cercozoa and Re- taria (Radiozoa, Foraminifera)] and Excavata (phyla Loukozoa, Metamonada, Euglenozoa, Percolozoa), plus the kingdom Plantae [Viridaeplantae, Rhodophyta (sisters); Glaucophyta], the chromalveolate clade, and the protozoan phylum Apusozoa (Thecomonadea, Diphylleida). Chromalveolates comprise kingdom Chromista (Cryptista, Heterokonta, Haptophyta) and the protozoan infrakingdom Alveolata [phyla Cilio- phora and Miozoa (= Protalveolata, Dinozoa, Apicomplexa)], which diverged from a common ancestor that enslaved a red alga and evolved novel plastid protein-targeting machinery via the host rough ER and the enslaved algal plasma membrane (periplastid membrane). -
Carthamus Tinctorius) and Wild Relatives of the Genus Carthamus Marion Mayerhofer1, Reinhold Mayerhofer1, Deborah Topinka2, Jed Christianson1, Allen G Good1*
Mayerhofer et al. BMC Plant Biology 2011, 11:47 http://www.biomedcentral.com/1471-2229/11/47 RESEARCHARTICLE Open Access Introgression potential between safflower (Carthamus tinctorius) and wild relatives of the genus Carthamus Marion Mayerhofer1, Reinhold Mayerhofer1, Deborah Topinka2, Jed Christianson1, Allen G Good1* Abstract Background: Safflower, Carthamus tinctorius, is a thistle that is grown commercially for the production of oil and birdseed and recently, as a host for the production of transgenic pharmaceutical proteins. C. tinctorius can cross with a number of its wild relatives, creating the possibility of gene flow from safflower to weedy species. In this study we looked at the introgression potential between different members of the genus Carthamus, measured the fitness of the parents versus the F1 hybrids, followed the segregation of a specific transgene in the progeny and tried to identify traits important for adaptation to different environments. Results: Safflower hybridized and produced viable offspring with members of the section Carthamus and species with chromosome numbers of n = 10 and n = 22, but not with n = 32. The T-DNA construct of a transgenic C. tinctorius line was passed on to the F1 progeny in a Mendelian fashion, except in one specific cross, where it was deleted at a frequency of approximately 21%. Analyzing fitness and key morphological traits like colored seeds, shattering seed heads and the presence of a pappus, we found no evidence of hybrid vigour or increased weediness in the F1 hybrids of commercial safflower and its wild relatives. Conclusion: Our results suggest that hybridization between commercial safflower and its wild relatives, while feasible in most cases we studied, does not generate progeny with higher propensity for weediness. -
Spore Prints
SPORE PRINTS BULLETIN OF THE PUGET SOUND MYCOLOGICAL SOCIETY Number 463 June 2010 RARE SQUAMANITA PARADOXA FOUND The Squamanita could also be growing in other areas of Vancou- The Spore Print, L.A. Myco. Soc., January 2010 ver Island, said Ceska, who would like to hear from anyone who thinks they have seen the mushroom. Vancouver Island, Canada - An extremely rare mushroom that Southern Vancouver Island has a wealth of fungi, said Ceska, who looks as if it’s wearing yellow rubber boots has been found on believes someone should be compiling an in-depth inventory of Observatory Hill in Saanich, B.C. species in B.C. During the five years Ceska has been working on Victoria mycologist Oluna Ceska, who is working on a fungi the Observatory Hill inventory, she has documented 850 species. inventory for scientists at the National Research Council’s Domin- “And I am sure that is not close to the final number,” she said. ion Astrophysical Observatory, found the Squamanita paradoxa mushroom on Nov. 27 and has now had its identity confirmed. FUNGUS SPREADS SOUTH FROM B.C., Squamanita paradoxa BECOMES MORE DEADLY various sources A. Ceska It’s the first time the It sounds like a villain from a science fiction film. Squamanita has been Cryptococcus gattii—an airborne fungus that appeared on Vancou- found in Canada, she ver Island in the late 1990s—is real, and it’s gathering strength as said. it spreads to the south. According to research published April 22 Ceska’s husband, Ad- in the journal Public Library of Science Pathogens, it has mutated olf, former botany cu- into a more lethal strain since it moved into Oregon. -
Polypore Diversity in North America with an Annotated Checklist
Mycol Progress (2016) 15:771–790 DOI 10.1007/s11557-016-1207-7 ORIGINAL ARTICLE Polypore diversity in North America with an annotated checklist Li-Wei Zhou1 & Karen K. Nakasone2 & Harold H. Burdsall Jr.2 & James Ginns3 & Josef Vlasák4 & Otto Miettinen5 & Viacheslav Spirin5 & Tuomo Niemelä 5 & Hai-Sheng Yuan1 & Shuang-Hui He6 & Bao-Kai Cui6 & Jia-Hui Xing6 & Yu-Cheng Dai6 Received: 20 May 2016 /Accepted: 9 June 2016 /Published online: 30 June 2016 # German Mycological Society and Springer-Verlag Berlin Heidelberg 2016 Abstract Profound changes to the taxonomy and classifica- 11 orders, while six other species from three genera have tion of polypores have occurred since the advent of molecular uncertain taxonomic position at the order level. Three orders, phylogenetics in the 1990s. The last major monograph of viz. Polyporales, Hymenochaetales and Russulales, accom- North American polypores was published by Gilbertson and modate most of polypore species (93.7 %) and genera Ryvarden in 1986–1987. In the intervening 30 years, new (88.8 %). We hope that this updated checklist will inspire species, new combinations, and new records of polypores future studies in the polypore mycota of North America and were reported from North America. As a result, an updated contribute to the diversity and systematics of polypores checklist of North American polypores is needed to reflect the worldwide. polypore diversity in there. We recognize 492 species of polypores from 146 genera in North America. Of these, 232 Keywords Basidiomycota . Phylogeny . Taxonomy . species are unchanged from Gilbertson and Ryvarden’smono- Wood-decaying fungus graph, and 175 species required name or authority changes. -
Carduncellus-Carthamus Complex (Asteraceae) Based on ITS Sequences
Plant Syst. Evol. 221:89-105 (2000) Plant Systematics and Evolution © Springer-Verlag 2000 Printed in Austria Generic delimitation and phylogeny of the Carduncellus-Carthamus complex (Asteraceae) based on ITS sequences R. Vilatersana, A. Susanna, N. Garcia-Jacas, and T. Garnatje Institut Botfinic de Barcelona (CSIC), Barcelona, Spain Received August 18, 1999 Accepted October 21, 1999 Abstract. Within the Mediterranean complex 50 species (Dittrich 1977). These two genera Carduncellus-Carthamus, taxonomic classification share a native distribution ranging from the has proven problematic. Numerous attempts to Iberian Peninsula and Morocco to West Asia, clarify the relative systematic boundaries have but the core of Carduncellus centers in the included splitting Carduncellus and Cartharnus western Mediterranean (Iberian Peninsula and into several genera, but none of these proposed North Africa, eastward to Greece and Egypt), classifications have been generally accepted. For a comprehensive resolution of the relationships while Carthamus centers in the eastern Medi- within this group, we used sequences of the terranean Basin, except for a small section Internal Transcribed Spacers (ITS) of nuclear endemic to southern Spain and Morocco ribosomal DNA. The results indicate that the (Fig. 1). complex should be classified into four genera: In addition, some species such as Car- Carduncellus, Carthamus, Ferneniasia and Phonus. tharnus lanatus L., probably of hybrid origin, The relationship between the western group and Carthamus leucocaulos Sibth. & Sm. are (Carduncellus, Femeniasia and Phonus) and the widely naturalized as noxious weeds in the eastern genus Carthamus are not resolved by western Mediterranean region, as well as in analysis of ITS sequences, but the two groups Mediterranean climatic regions of Argentina, are probably not close relatives. -
3. Overview of Existing Fungus Monitoring Protocols
Version 2.9, 20.12.2004 Monitoring protocol for wood-inhabiting fungi in the Alberta Biodiversity Monitoring Program for the Alberta Biodiversity Monitoring Program Jogeir N. Stokland 1 Anna-Liisa Sippola 2 December 2004 1Norwegian Institute of Land Inventory, Norway 2University of Lapland, Arctic Centre, Finland 1 Disclaimer The views, statements, and conclusions expressed in this report are those of the authors and should not be construed as conclusions or opinions of the ABMP. Development of the ABMP has continued since this report was produced. Thus, the report may not accurately reflect current ideas. 2 1. INTRODUCTION ...................................................................................................................... 4 1.1 Brief introduction to biodiversity in dead wood................................................................... 4 1.2 Knowledge about fungus diversity in Alberta and Canada .................................................. 5 2. FUNGAL DIVERSITY ON DEAD WOOD IN BOREAL FORESTS...................................... 5 2.1. Different fungus groups - their strengths and weaknesses for long-term monitoring ......... 5 2.2 Dead wood attributes that are important to fungal diversity............................................... 12 2.3 Brief comparison of fungi on dead wood in Scandinavia and Canada............................... 14 2.4 Brief description of Alberta forest types and expected fungus diversity patterns .............. 15 2.5 Polypore species diversity at local and regional levels...................................................... -
Offentlig Journal
Norsk kulturråd 05.07.2012 Offentlig journal Periode: 28-06-2012 - 30-06-2012 Journalenhet: Alle Avdeling: Alle Saksbehandler: Alle Notater (X): Nei Notater (N): Nei Norsk kulturråd 05.07.2012 Offentlig journal Periode: 28-06-2012 - 06/00856-22 U Dok.dato: 31.05.2012 Jour.dato: 29.06.2012 Arkivdel: PNKR Arkivkode: 321\Kulturvern Tilg. kode: U Par.: Mottaker: Stiftelsen Lillehammer museum - Gaute Jacobsen Sak: På sporet av den tapte samtid: Videreutvikling av samtidsdokumentasjon i museene 2006-2009 - omdisponering av restmidler Dok: Vedtak om avslag - Søknad om omdisponering av restmidler - På sporet av den tapte samtid Saksansv: Flerfaglig seksjon / SJK Saksbeh: Flerfaglig seksjon / SJK 07/01077-7 I Dok.dato: Udatert Jour.dato: 28.06.2012 Arkivdel: PNKR Arkivkode: 321\Fonograminnspillinger Tilg. kode: U Par.: Avsender: LAWO Classics AS Sak: Helene Wold - sanger og solostykker av Møller-Ibsen/ Lemming/ Blom/ Lange -Mûller/ F&H Rung - fonograminnspilling 2007 Dok: Rapport og regnskap - Helene Wold - sanger og solostykker av Møller-Ibsen/ Lemming/ Blom/ Lange -Mûller/ F&H Rung - fonograminnspilling 2007 Saksansv: Musikk / TRB Saksbeh: Musikk / HEKO 07/01626-12 U Dok.dato: Udatert Jour.dato: 29.06.2012 Arkivdel: PNKR Arkivkode: 321\Fonograminnspillinger Tilg. kode: U Par.: Mottaker: Grappa Musikkforlag AS Sak: Torleif Torgersen - verker for klaver av Carl Arnold - fonograminnspilling 2007 Dok: Utbetaling 2. del - Torleif Torgersen - verker for klaver av Carl Arnold - fonograminnspilling 2007 Saksansv: Musikk / HEKO Saksbeh: Musikk / HEKO Side1 Norsk kulturråd 05.07.2012 Offentlig journal Periode: 28-06-2012 - 07/05922-7 U Dok.dato: 25.06.2012 Jour.dato: 28.06.2012 Arkivdel: PNKR Arkivkode: 321\Billedkunst og kunsthåndverk Tilg. -
Upgrade of Østensjø Line
Project name: Upgrade of Østensjø Line Project period: 2014-2017 Owner: Sporveien Oslo AS Client: Sporveien Oslo AS In brief: Engineering design of upgrade of around 8 kilometres. Metro line corridor between Hellerud and Mortensrud Project size: Facelift for metro line from Hellerud to 909 MNOK ex. VAT Mortensrud The Østensjø Line is the metro line between Hellerud and Mortensrud. The Østensjø Line was opened as a tram line from Vålerenga to Oppsal in 1926, and in 1958 the tram line was extended to Bøler. In 1967, the Østensjø Line was upgraded to metro standard, and the line was extended to Skullerud. In 1998, the metro line was extended all the way out to Mortensrud. The construction of the Løren Line, which was due to open in 2016, would free up capacity through the city centre tunnel for one train every 15 minutes in both directions. The newly-available capacity in the city centre tunnel would be used to increase the train frequency on the Østensjø Line from a 15 minute service to a 7.5 minute service. At that time, the Østensjø Line was in such poor condition that an extensive upgrade of the line was needed before the train frequency could be increased. In May 2014, Aas-Jakobsen was hired by Sporveien Oslo AS to design the upgrade of the Østensjø Line. Our sub-consultants on the project were Vianova, Geovita, ElectroNova, ECT, NGI, Grindaker, Brekke & Strand Akustikk, Safetec, Ingenia and Sweco. The engineering design work started in May 2014, and by early 2015 the inquiry for competitive tender had been sent out for five different contracts covering the bulk of the work. -
Freshwater Algae in Britain and Ireland - Bibliography
Freshwater algae in Britain and Ireland - Bibliography Floras, monographs, articles with records and environmental information, together with papers dealing with taxonomic/nomenclatural changes since 2003 (previous update of ‘Coded List’) as well as those helpful for identification purposes. Theses are listed only where available online and include unpublished information. Useful websites are listed at the end of the bibliography. Further links to relevant information (catalogues, websites, photocatalogues) can be found on the site managed by the British Phycological Society (http://www.brphycsoc.org/links.lasso). Abbas A, Godward MBE (1964) Cytology in relation to taxonomy in Chaetophorales. Journal of the Linnean Society, Botany 58: 499–597. Abbott J, Emsley F, Hick T, Stubbins J, Turner WB, West W (1886) Contributions to a fauna and flora of West Yorkshire: algae (exclusive of Diatomaceae). Transactions of the Leeds Naturalists' Club and Scientific Association 1: 69–78, pl.1. Acton E (1909) Coccomyxa subellipsoidea, a new member of the Palmellaceae. Annals of Botany 23: 537–573. Acton E (1916a) On the structure and origin of Cladophora-balls. New Phytologist 15: 1–10. Acton E (1916b) On a new penetrating alga. New Phytologist 15: 97–102. Acton E (1916c) Studies on the nuclear division in desmids. 1. Hyalotheca dissiliens (Smith) Bréb. Annals of Botany 30: 379–382. Adams J (1908) A synopsis of Irish algae, freshwater and marine. Proceedings of the Royal Irish Academy 27B: 11–60. Ahmadjian V (1967) A guide to the algae occurring as lichen symbionts: isolation, culture, cultural physiology and identification. Phycologia 6: 127–166 Allanson BR (1973) The fine structure of the periphyton of Chara sp.