Towards an Ecological Understanding of Dinoflagellate Cyst Functions
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Molecular Data and the Evolutionary History of Dinoflagellates by Juan Fernando Saldarriaga Echavarria Diplom, Ruprecht-Karls-Un
Molecular data and the evolutionary history of dinoflagellates by Juan Fernando Saldarriaga Echavarria Diplom, Ruprecht-Karls-Universitat Heidelberg, 1993 A THESIS SUBMITTED IN PARTIAL FULFILMENT OF THE REQUIREMENTS FOR THE DEGREE OF DOCTOR OF PHILOSOPHY in THE FACULTY OF GRADUATE STUDIES Department of Botany We accept this thesis as conforming to the required standard THE UNIVERSITY OF BRITISH COLUMBIA November 2003 © Juan Fernando Saldarriaga Echavarria, 2003 ABSTRACT New sequences of ribosomal and protein genes were combined with available morphological and paleontological data to produce a phylogenetic framework for dinoflagellates. The evolutionary history of some of the major morphological features of the group was then investigated in the light of that framework. Phylogenetic trees of dinoflagellates based on the small subunit ribosomal RNA gene (SSU) are generally poorly resolved but include many well- supported clades, and while combined analyses of SSU and LSU (large subunit ribosomal RNA) improve the support for several nodes, they are still generally unsatisfactory. Protein-gene based trees lack the degree of species representation necessary for meaningful in-group phylogenetic analyses, but do provide important insights to the phylogenetic position of dinoflagellates as a whole and on the identity of their close relatives. Molecular data agree with paleontology in suggesting an early evolutionary radiation of the group, but whereas paleontological data include only taxa with fossilizable cysts, the new data examined here establish that this radiation event included all dinokaryotic lineages, including athecate forms. Plastids were lost and replaced many times in dinoflagellates, a situation entirely unique for this group. Histones could well have been lost earlier in the lineage than previously assumed. -
The Revised Classification of Eukaryotes
See discussions, stats, and author profiles for this publication at: https://www.researchgate.net/publication/231610049 The Revised Classification of Eukaryotes Article in Journal of Eukaryotic Microbiology · September 2012 DOI: 10.1111/j.1550-7408.2012.00644.x · Source: PubMed CITATIONS READS 961 2,825 25 authors, including: Sina M Adl Alastair Simpson University of Saskatchewan Dalhousie University 118 PUBLICATIONS 8,522 CITATIONS 264 PUBLICATIONS 10,739 CITATIONS SEE PROFILE SEE PROFILE Christopher E Lane David Bass University of Rhode Island Natural History Museum, London 82 PUBLICATIONS 6,233 CITATIONS 464 PUBLICATIONS 7,765 CITATIONS SEE PROFILE SEE PROFILE Some of the authors of this publication are also working on these related projects: Biodiversity and ecology of soil taste amoeba View project Predator control of diversity View project All content following this page was uploaded by Smirnov Alexey on 25 October 2017. The user has requested enhancement of the downloaded file. The Journal of Published by the International Society of Eukaryotic Microbiology Protistologists J. Eukaryot. Microbiol., 59(5), 2012 pp. 429–493 © 2012 The Author(s) Journal of Eukaryotic Microbiology © 2012 International Society of Protistologists DOI: 10.1111/j.1550-7408.2012.00644.x The Revised Classification of Eukaryotes SINA M. ADL,a,b ALASTAIR G. B. SIMPSON,b CHRISTOPHER E. LANE,c JULIUS LUKESˇ,d DAVID BASS,e SAMUEL S. BOWSER,f MATTHEW W. BROWN,g FABIEN BURKI,h MICAH DUNTHORN,i VLADIMIR HAMPL,j AARON HEISS,b MONA HOPPENRATH,k ENRIQUE LARA,l LINE LE GALL,m DENIS H. LYNN,n,1 HILARY MCMANUS,o EDWARD A. D. -
Ellobiopsids of the Genus Thalassomyces Are Alveolates
J. Eukaryot. Microbiol., 51(2), 2004 pp. 246±252 q 2004 by the Society of Protozoologists Ellobiopsids of the Genus Thalassomyces are Alveolates JEFFREY D. SILBERMAN,a,b1 ALLEN G. COLLINS,c,2 LISA-ANN GERSHWIN,d,3 PATRICIA J. JOHNSONa and ANDREW J. ROGERe aDepartment of Microbiology, Immunology, and Molecular Genetics, University of California at Los Angeles, California, USA, and bInstitute of Geophysics and Planetary Physics, University of California at Los Angeles, California, USA, and cEcology, Behavior and Evolution Section, Division of Biology, University of California, La Jolla, California, USA, and dDepartment of Integrative Biology and Museum of Paleontology, University of California, Berkeley, California, USA, and eCanadian Institute for Advanced Research, Program in Evolutionary Biology, Genome Atlantic, Department of Biochemistry and Molecular Biology, Dalhousie University, Halifax, Nova Scotia, Canada ABSTRACT. Ellobiopsids are multinucleate protist parasites of aquatic crustaceans that possess a nutrient absorbing `root' inside the host and reproductive structures that protrude through the carapace. Ellobiopsids have variously been af®liated with fungi, `colorless algae', and dino¯agellates, although no morphological character has been identi®ed that de®nitively allies them with any particular eukaryotic lineage. The arrangement of the trailing and circumferential ¯agella of the rarely observed bi-¯agellated `zoospore' is reminiscent of dino¯agellate ¯agellation, but a well-organized `dinokaryotic nucleus' has never been observed. Using small subunit ribosomal RNA gene sequences from two species of Thalassomyces, phylogenetic analyses robustly place these ellobiopsid species among the alveolates (ciliates, apicomplexans, dino¯agellates and relatives) though without a clear af®liation to any established alveolate lineage. Our trees demonstrate that Thalassomyces fall within a dino¯agellate 1 apicomplexa 1 Perkinsidae 1 ``marine alveolate group 1'' clade, clustering most closely with dino¯agellates. -
A New View on the Morphology and Phylogeny Of
Manuscript to be reviewed A new view on the morphology and phylogeny of eugregarines suggested by the evidence from the gregarine Ancora sagittata (Leuckart, 1860) Labbé, 1899 (Apicomplexa: Eugregarinida) Timur G Simdyanov Corresp., 1 , Laure Guillou 2, 3 , Andrei Y Diakin 4 , Kirill V Mikhailov 5, 6 , Joseph Schrével 7, 8 , Vladimir V Aleoshin 5, 6 1 Department of Invertebrate Zoology, Faculty of Biology, Lomonosov Moscow State University, Moscow, Russian Federation 2 CNRS, UMR 7144, Laboratoire Adaptation et Diversité en Milieu Marin, Roscoff, France 3 CNRS, UMR 7144, Station Biologique de Roscoff, Sorbonne Universités, Université Pierre et Marie Curie - Paris 6, Roscoff, France 4 Department of Botany and Zoology, Faculty of Science, Masaryk University, Brno, Czech Republic 5 Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Moscow, Russian Federation 6 Institute for Information Transmission Problems, Russian Academy of Sciences, Moscow, Russian Federation 7 CNRS 7245, Molécules de Communication et Adaptation Moléculaire (MCAM), Paris, France 8 Sorbonne Universités, Muséum National d’Histoire Naturelle (MNHN), UMR 7245, Paris, France Corresponding Author: Timur G Simdyanov Email address: [email protected] Background. Gregarines are a group of early branching Apicomplexa parasitizing invertebrate animals. Despite their wide distribution and relevance to the understanding the phylogenesis of apicomplexans, gregarines remain understudied: light microscopy data are insufficient for classification, and electron -
Pigment-Based Chloroplast Types in Dinoflagellates
Vol. 465: 33–52, 2012 MARINE ECOLOGY PROGRESS SERIES Published September 28 doi: 10.3354/meps09879 Mar Ecol Prog Ser Pigment-based chloroplast types in dinoflagellates Manuel Zapata1,†, Santiago Fraga2, Francisco Rodríguez2,*, José L. Garrido1 1Instituto de Investigaciones Marinas, CSIC, c/ Eduardo Cabello 6, 36208 Vigo, Spain 2Instituto Español de Oceanografía, Subida a Radio Faro 50, 36390 Vigo, Spain ABSTRACT: Most photosynthetic dinoflagellates contain a chloroplast with peridinin as the major carotenoid. Chloroplasts from other algal lineages have been reported, suggesting multiple plas- tid losses and replacements through endosymbiotic events. The pigment composition of 64 dino- flagellate species (122 strains) was analysed by using high-performance liquid chromatography. In addition to chlorophyll (chl) a, both chl c2 and divinyl protochlorophyllide occurred in chl c-con- taining species. Chl c1 co-occurred with chl c2 in some peridinin-containing (e.g. Gambierdiscus spp.) and fucoxanthin-containing dinoflagellates (e.g. Kryptoperidinium foliaceum). Chl c3 occurred in dinoflagellates whose plastids contained 19’-acyloxyfucoxanthins (e.g. Karenia miki- motoi). Chl b was present in green dinoflagellates (Lepidodinium chlorophorum). Based on unique combinations of chlorophylls and carotenoids, 6 pigment-based chloroplast types were defined: Type 1: peridinin/dinoxanthin/chl c2 (Alexandrium minutum); Type 2: fucoxanthin/ 19’-acyloxy fucoxanthins/4-keto-19’-acyloxy-fucoxanthins/gyroxanthin diesters/chl c2, c3, mono - galac to syl-diacylglycerol-chl c2 (Karenia mikimotoi); Type 3: fucoxanthin/19’-acyloxyfucoxan- thins/gyroxanthin diesters/chl c2, c3 (Karlodinium veneficum); Type 4: fucoxanthin/chl c1, c2 (K. foliaceum); Type 5: alloxanthin/chl c2/phycobiliproteins (Dinophysis tripos); Type 6: neoxanthin/ violaxanthin/a major unknown carotenoid/chl b (Lepidodinium chlorophorum). -
Genetic and Phenotypic Diversity Characterization of Natural Populations of the Parasitoid Parvilucifera Sinerae
Vol. 76: 117–132, 2015 AQUATIC MICROBIAL ECOLOGY Published online October 22 doi: 10.3354/ame01771 Aquat Microb Ecol OPENPEN ACCESSCCESS Genetic and phenotypic diversity characterization of natural populations of the parasitoid Parvilucifera sinerae Marta Turon1, Elisabet Alacid1, Rosa Isabel Figueroa2, Albert Reñé1, Isabel Ferrera1, Isabel Bravo3, Isabel Ramilo3, Esther Garcés1,* 1Departament de Biologia Marina i Oceanografia, Institut de Ciències del Mar, CSIC, Pg. Marítim de la Barceloneta 37-49, 08003 Barcelona, Spain 2Department of Biology, Lund University, Box 118, 221 00 Lund, Sweden 3Centro Oceanográfico de Vigo, IEO (Instituto Español de Oceanografía), Subida a Radio Faro 50, 36390 Vigo, Spain ABSTRACT: Parasites exert important top-down control of their host populations. The host−para- site system formed by Alexandrium minutum (Dinophyceae) and Parvilucifera sinerae (Perkinso- zoa) offers an opportunity to advance our knowledge of parasitism in planktonic communities. In this study, DNA extracted from 73 clonal strains of P. sinerae, from 10 different locations along the Atlantic and Mediterranean coasts, was used to genetically characterize this parasitoid at the spe- cies level. All strains showed identical sequences of the small and large subunits and internal tran- scribed spacer of the ribosomal RNA, as well as of the β-tubulin genes. However, the phenotypical characterization showed variability in terms of host invasion, zoospore success, maturation time, half-maximal infection, and infection rate. This characterization grouped the strains within 3 phe- notypic types distinguished by virulence traits. A particular virulence pattern could not be ascribed to host-cell bloom appearance or to the location or year of parasite-strain isolation; rather, some parasitoid strains from the same bloom significantly differed in their virulence traits. -
Alveolata) Using Small Subunit Rrna Gene Sequences Suggests They Are the Free-Living Sister Group to Apicomplexans
J. Elrkutyt. Microhiol., 49(6), 2002 pp. 49G.504 0 2002 by the Society of Prutozoolugists The Phylogeny of Colpodellids (Alveolata) Using Small Subunit rRNA Gene Sequences Suggests They are the Free-living Sister Group to Apicomplexans OLGA N. KUVARDINA,’.hBRIAN S. LEANDER,’,aVLADIMIR V. ALESHIN,h ALEXANDER P. MYL’NIKOV,” PATRICK J. KEELING‘‘and TIMUR G. SIMDYANOVh “Canadian Institute for Advunced Resenrch, Program in Evolutionury Biology, Department of Botany, Universiv of British Columbia, Vancouver, BC V6T 124, Canada, and hDepartnzents of Evolutionary Biochemistry and litvertebrate Zoology, Belozersb Institute of Physico-Chemical Biology, Moscow State University, Moscow 119 899, Russian Federation, and ‘Instinrtefor the Biology of Inland Waters, Russian Academy of Sciences, Borok, Yaroslnvskaya oblavt 152742, Russian Federation ABSTRACT. In an attempt to reconstruct early alveolate evolution, we have examined the phylogenetic position of colpodellids by analyzing small subunit rDNA sequences from Colpodella pontica Myl’nikov 2000 and Colpodella sp. (American Type Culture Col- lection 50594). All phylogenetic analyses grouped the colpodellid sequences together with strong support and placed them strongly within the Alveolata. Most analyses showed colpodellids as the sister group to an apicomplexan clade, albeit with weak support. Sequences from two perkinsids, Perkinsus and Parvilucifera, clustered together and consistently branched as the sister group to dino- flagellates as shown previously. These data demonstrate that colpodellids and perkinsids are plesiomorphically similar in morphology and help provide a phylogenetic framework for inferring the combination of character states present in the last common ancestor of dinoflagellates and apicomplexans. We can infer that this ancestor was probably a myzocytotic predator with two heterodynamic flagella, micropores, trichocysts, rhoptries, micronemes, a polar ring, and a coiled open-sided conoid. -
The Phylogeny of Colpodellids (Alveolata) Using Small Subunit Rrna Gene Sequences Suggests They Are the Free-Living Sister Group to Apicomplexans
J. Eukaryot. Microbiol., 49(6), 2002 pp. 498±504 q 2002 by the Society of Protozoologists The Phylogeny of Colpodellids (Alveolata) Using Small Subunit rRNA Gene Sequences Suggests They are the Free-living Sister Group to Apicomplexans OLGA N. KUVARDINA,1,b BRIAN S. LEANDER,1,a VLADIMIR V. ALESHIN,b ALEXANDER P. MYL'NIKOV,c PATRICK J. KEELINGa and TIMUR G. SIMDYANOVb aCanadian Institute for Advanced Research, Program in Evolutionary Biology, Department of Botany, University of British Columbia, Vancouver, BC V6T 1Z4, Canada, and bDepartments of Evolutionary Biochemistry and Invertebrate Zoology, Belozersky Institute of Physico-Chemical Biology, Moscow State University, Moscow 119 899, Russian Federation, and cInstitute for the Biology of Inland Waters, Russian Academy of Sciences, Borok, Yaroslavskaya oblast 152742, Russian Federation ABSTRACT. In an attempt to reconstruct early alveolate evolution, we have examined the phylogenetic position of colpodellids by analyzing small subunit rDNA sequences from Colpodella pontica Myl'nikov 2000 and Colpodella sp. (American Type Culture Col- lection 50594). All phylogenetic analyses grouped the colpodellid sequences together with strong support and placed them strongly within the Alveolata. Most analyses showed colpodellids as the sister group to an apicomplexan clade, albeit with weak support. Sequences from two perkinsids, Perkinsus and Parvilucifera, clustered together and consistently branched as the sister group to dino- ¯agellates as shown previously. These data demonstrate that colpodellids and perkinsids are plesiomorphically similar in morphology and help provide a phylogenetic framework for inferring the combination of character states present in the last common ancestor of dino¯agellates and apicomplexans. We can infer that this ancestor was probably a myzocytotic predator with two heterodynamic ¯agella, micropores, trichocysts, rhoptries, micronemes, a polar ring, and a coiled open-sided conoid. -
The New Higher Level Classification of Eukaryotes with Emphasis on the Taxonomy of Protists
J. Eukaryot. Microbiol., 52(5), 2005 pp. 399–451 r 2005 by the International Society of Protistologists DOI: 10.1111/j.1550-7408.2005.00053.x The New Higher Level Classification of Eukaryotes with Emphasis on the Taxonomy of Protists SINA M. ADL,a ALASTAIR G. B. SIMPSON,a MARK A. FARMER,b ROBERT A. ANDERSEN,c O. ROGER ANDERSON,d JOHN R. BARTA,e SAMUEL S. BOWSER,f GUY BRUGEROLLE,g ROBERT A. FENSOME,h SUZANNE FREDERICQ,i TIMOTHY Y. JAMES,j SERGEI KARPOV,k PAUL KUGRENS,1 JOHN KRUG,m CHRISTOPHER E. LANE,n LOUISE A. LEWIS,o JEAN LODGE,p DENIS H. LYNN,q DAVID G. MANN,r RICHARD M. MCCOURT,s LEONEL MENDOZA,t ØJVIND MOESTRUP,u SHARON E. MOZLEY-STANDRIDGE,v THOMAS A. NERAD,w CAROL A. SHEARER,x ALEXEY V. SMIRNOV,y FREDERICK W. SPIEGELz and MAX F. J. R. TAYLORaa aDepartment of Biology, Dalhousie University, Halifax, NS B3H 4J1, Canada, and bCenter for Ultrastructural Research, Department of Cellular Biology, University of Georgia, Athens, Georgia 30602, USA, and cBigelow Laboratory for Ocean Sciences, West Boothbay Harbor, ME 04575, USA, and dLamont-Dogherty Earth Observatory, Palisades, New York 10964, USA, and eDepartment of Pathobiology, Ontario Veterinary College, University of Guelph, Guelph, ON N1G 2W1, Canada, and fWadsworth Center, New York State Department of Health, Albany, New York 12201, USA, and gBiologie des Protistes, Universite´ Blaise Pascal de Clermont-Ferrand, F63177 Aubiere cedex, France, and hNatural Resources Canada, Geological Survey of Canada (Atlantic), Bedford Institute of Oceanography, PO Box 1006 Dartmouth, NS B2Y 4A2, Canada, and iDepartment of Biology, University of Louisiana at Lafayette, Lafayette, Louisiana 70504, USA, and jDepartment of Biology, Duke University, Durham, North Carolina 27708-0338, USA, and kBiological Faculty, Herzen State Pedagogical University of Russia, St. -
In Situ Occurrence, Prevalence and Dynamics of Parvilucifera Parasitoids During Recurrent Blooms of the Toxic Dinoflagellate Alexandrium Minutum
ORIGINAL RESEARCH published: 31 August 2017 doi: 10.3389/fmicb.2017.01624 In situ Occurrence, Prevalence and Dynamics of Parvilucifera Parasitoids during Recurrent Blooms of the Toxic Dinoflagellate Alexandrium minutum Elisabet Alacid *, Albert Reñé, Jordi Camp and Esther Garcés Departament de Biologia Marina i Oceanografia, Institut de Ciències del Mar, CSIC, Barcelona, Spain Dinoflagellate blooms are natural phenomena that often occur in coastal areas, which in addition to their large number of nutrient-rich sites are characterized by highly restricted hydrodynamics within bays, marinas, enclosed beaches, and harbors. In these areas, massive proliferations of dinoflagellates have harmful effects on humans and the ecosystem. However, the high cell density reached during blooms make them vulnerable to parasitic infections. Under laboratory conditions parasitoids are able to exterminate an entire host population. In nature, Parvilucifera parasitoids infect the toxic dinoflagellate Edited by: Alexandrium minutum during bloom conditions but their prevalence and impact remain Télesphore Sime-Ngando, unexplored. In this study, we evaluated the in situ occurrence, prevalence, and dynamics Centre National de la Recherche (CNRS), France of Parvilucifera parasitoids during recurrent blooms of A. minutum in a confined site in the Reviewed by: NW Mediterranean Sea as well as the contribution of parasitism to bloom termination. Catharina Alves-de-Souza, Parvilucifera parasitoids were recurrently detected from 2009 to 2013, during seasonal University of North Carolina at outbreaks of A. minutum . Parasitic infections in surface waters occurred after the Wilmington, United States 4 5 −1 Lourdes Velo Suarez, abundance of A. minutum reached 10 –10 cells L , suggesting a density threshold French Research Institute for beyond which Parvilucifera transmission is enhanced and the number of infected cells Exploitation of the Sea, France increases. -
The Revised Classification of Eukaryotes
Published in Journal of Eukaryotic Microbiology 59, issue 5, 429-514, 2012 which should be used for any reference to this work 1 The Revised Classification of Eukaryotes SINA M. ADL,a,b ALASTAIR G. B. SIMPSON,b CHRISTOPHER E. LANE,c JULIUS LUKESˇ,d DAVID BASS,e SAMUEL S. BOWSER,f MATTHEW W. BROWN,g FABIEN BURKI,h MICAH DUNTHORN,i VLADIMIR HAMPL,j AARON HEISS,b MONA HOPPENRATH,k ENRIQUE LARA,l LINE LE GALL,m DENIS H. LYNN,n,1 HILARY MCMANUS,o EDWARD A. D. MITCHELL,l SHARON E. MOZLEY-STANRIDGE,p LAURA W. PARFREY,q JAN PAWLOWSKI,r SONJA RUECKERT,s LAURA SHADWICK,t CONRAD L. SCHOCH,u ALEXEY SMIRNOVv and FREDERICK W. SPIEGELt aDepartment of Soil Science, University of Saskatchewan, Saskatoon, SK, S7N 5A8, Canada, and bDepartment of Biology, Dalhousie University, Halifax, NS, B3H 4R2, Canada, and cDepartment of Biological Sciences, University of Rhode Island, Kingston, Rhode Island, 02881, USA, and dBiology Center and Faculty of Sciences, Institute of Parasitology, University of South Bohemia, Cˇeske´ Budeˇjovice, Czech Republic, and eZoology Department, Natural History Museum, London, SW7 5BD, United Kingdom, and fWadsworth Center, New York State Department of Health, Albany, New York, 12201, USA, and gDepartment of Biochemistry, Dalhousie University, Halifax, NS, B3H 4R2, Canada, and hDepartment of Botany, University of British Columbia, Vancouver, BC, V6T 1Z4, Canada, and iDepartment of Ecology, University of Kaiserslautern, 67663, Kaiserslautern, Germany, and jDepartment of Parasitology, Charles University, Prague, 128 43, Praha 2, Czech -
Cryptic Infection of a Broad Taxonomic and Geographic Diversity of Tadpoles by Perkinsea Protists
Cryptic infection of a broad taxonomic and geographic PNAS PLUS diversity of tadpoles by Perkinsea protists Aurélie Chambouveta,b,1, David J. Gowerb, Miloslav Jirkuc, Michael J. Yabsleyd,e, Andrew K. Davisf, Guy Leonarda, Finlay Maguireb,g, Thomas M. Doherty-Boneb,h,i, Gabriela Bueno Bittencourt-Silvaj, Mark Wilkinsonb, and Thomas A. Richardsa,k,1 aBiosciences, College of Life and Environmental Sciences, University of Exeter, Exeter EX4 4QD, United Kingdom; bDepartment of Life Sciences, The Natural History Museum, London SW7 5BD, United Kingdom; cInstitute of Parasitology, Biology Centre, Czech Academy of Sciences, 370 05 Ceske Budejovice, Czech Republic; dWarnell School of Forestry and Natural Resources, The University of Georgia, Athens, GA 30602; eSoutheastern Cooperative Wildlife Disease Study, Department of Population Health, College of Veterinary Medicine, The University of Georgia, Athens, GA 30602; fOdum School of Ecology, The University of Georgia, Athens, GA 30602; gGenetics, Ecology and Evolution, University College London, London WC1E 6BT, United Kingdom; hSchool of Geography, University of Leeds, Leeds LS2 9JT, United Kingdom; iSchool of Biology, University of Leeds, Leeds LS2 9JT, United Kingdom; jDepartment of Environmental Sciences, University of Basel, CH-4056 Basel, Switzerland; and kCIFAR Program in Integrated Microbial Biodiversity, Canadian Institute for Advanced Research, Toronto, ON, Canada M5G 1Z8 Edited by Francisco J. Ayala, University of California, Irvine, CA, and approved July 6, 2015 (received for review January 5, 2015) The decline of amphibian populations, particularly frogs, is often spherical cells preferentially infecting livers of tadpoles of the cited as an example in support of the claim that Earth is un- Southern Leopard Frog (Lithobates sphenocephalus, formerly dergoing its sixth mass extinction event.