Attributing Ceratocorys, Pentaplacodinium and Protoceratium to Protoceratiaceae (Dinophyceae), with Descriptions of Ceratocorys Malayensis Sp
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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. -
Patrons De Biodiversité À L'échelle Globale Chez Les Dinoflagellés
! ! ! ! ! !"#$%&'%&'()!(*+!&'%&,-./01%*$0!2&30%**%&%!&4+*0%&).*0%& ! 0$'1&2(&3'!4!5&6(67&)!#2%&8)!9!:16()!;6136%2()!;&<)%=&3'!>?!@&<283! ! A%'=)83')!$2%! 45&/678&,9&:9;<6=! ! A6?% 6B3)8&% ()!7%2>) >) '()!%.*&>9&?-./01%*$0!2&30%**%&%!&4+*0%&).*0%! ! ! 0?C)3!>)!(2!3DE=)!4! ! @!!"#$%&'()*(+,%),-*$',#.(/(01.23*00*(40%+"0*(23*5(0*'( >A86B?7C9??D;&E?78<=68AFG9;&H7IA8;! ! ! ! 06?3)8?)!()!4!.+!FGH0!*+./! ! ;)<283!?8!C?%I!16#$6='!>)!4! ! 'I5&*6J987&$=9I8J!0&%!G(&=3)%!K2%>I!L6?8>23&68!M6%!N1)28!01&)81)!O0GKLN0PJ!A(I#6?3D!Q!H6I2?#)RS8&!! !!H2$$6%3)?%! 3I6B5&K78&37J?6J;LAJ!S8&<)%=&3'!>)!T)8E<)!Q!0?&==)! !!H2$$6%3)?%! 'I5&47IA87&468=I9;6IJ!032U&68)!V66(67&12!G8368!;6D%8!6M!W2$()=!Q!"32(&)! XY2#&823)?%! 3I6B5&,7I;&$=9HH788J!SAFZ,ZWH0!0323&68!V66(67&[?)!>)!@&(()M%281D)R=?%RF)%!Q!L%281)! XY2#&823)?%! 'I5&*7BB79?9&$A786J!;\WXZN,A)(276=J!"LHXFXH!!"#$%"&'"&(%")$*&+,-./0#1&Q!L%281)!!! !!!Z6R>&%)13)?%!>)!3DE=)! 'I5&)6?6HM78&>9&17IC7;J&SAFZ,ZWH0!0323&68!5&6(67&[?)!>)!H6=16MM!Q!L%281)! ! !!!!!!!!!;&%)13)?%!>)!3DE=)! ! ! ! "#$%&#'!()!*+,+-,*+./! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! ! Remerciements* ! Remerciements* A!l'issue!de!ce!travail!de!recherche!et!de!sa!rédaction,!j’ai!la!preuve!que!la!thèse!est!loin!d'être!un!travail! solitaire.! En! effet,! je! n'aurais! jamais! pu! réaliser! ce! travail! doctoral! sans! le! soutien! d'un! grand! nombre! de! personnes!dont!l’amitié,!la!générosité,!la!bonne!humeur%et%l'intérêt%manifestés%à%l'égard%de%ma%recherche%m'ont% permis!de!progresser!dans!cette!phase!délicate!de!«!l'apprentiGchercheur!».! -
Protocols for Monitoring Harmful Algal Blooms for Sustainable Aquaculture and Coastal Fisheries in Chile (Supplement Data)
Protocols for monitoring Harmful Algal Blooms for sustainable aquaculture and coastal fisheries in Chile (Supplement data) Provided by Kyoko Yarimizu, et al. Table S1. Phytoplankton Naming Dictionary: This dictionary was constructed from the species observed in Chilean coast water in the past combined with the IOC list. Each name was verified with the list provided by IFOP and online dictionaries, AlgaeBase (https://www.algaebase.org/) and WoRMS (http://www.marinespecies.org/). The list is subjected to be updated. Phylum Class Order Family Genus Species Ochrophyta Bacillariophyceae Achnanthales Achnanthaceae Achnanthes Achnanthes longipes Bacillariophyta Coscinodiscophyceae Coscinodiscales Heliopeltaceae Actinoptychus Actinoptychus spp. Dinoflagellata Dinophyceae Gymnodiniales Gymnodiniaceae Akashiwo Akashiwo sanguinea Dinoflagellata Dinophyceae Gymnodiniales Gymnodiniaceae Amphidinium Amphidinium spp. Ochrophyta Bacillariophyceae Naviculales Amphipleuraceae Amphiprora Amphiprora spp. Bacillariophyta Bacillariophyceae Thalassiophysales Catenulaceae Amphora Amphora spp. Cyanobacteria Cyanophyceae Nostocales Aphanizomenonaceae Anabaenopsis Anabaenopsis milleri Cyanobacteria Cyanophyceae Oscillatoriales Coleofasciculaceae Anagnostidinema Anagnostidinema amphibium Anagnostidinema Cyanobacteria Cyanophyceae Oscillatoriales Coleofasciculaceae Anagnostidinema lemmermannii Cyanobacteria Cyanophyceae Oscillatoriales Microcoleaceae Annamia Annamia toxica Cyanobacteria Cyanophyceae Nostocales Aphanizomenonaceae Aphanizomenon Aphanizomenon flos-aquae -
Differentiating Two Closely Related Alexandrium Species Using Comparative Quantitative Proteomics
toxins Article Differentiating Two Closely Related Alexandrium Species Using Comparative Quantitative Proteomics Bryan John J. Subong 1,2,* , Arturo O. Lluisma 1, Rhodora V. Azanza 1 and Lilibeth A. Salvador-Reyes 1,* 1 Marine Science Institute, University of the Philippines- Diliman, Velasquez Street, Quezon City 1101, Philippines; [email protected] (A.O.L.); [email protected] (R.V.A.) 2 Department of Chemistry, The University of Tokyo, 7-3-1 Hongo, Bunkyo City, Tokyo 113-8654, Japan * Correspondence: [email protected] (B.J.J.S.); [email protected] (L.A.S.-R.) Abstract: Alexandrium minutum and Alexandrium tamutum are two closely related harmful algal bloom (HAB)-causing species with different toxicity. Using isobaric tags for relative and absolute quantita- tion (iTRAQ)-based quantitative proteomics and two-dimensional differential gel electrophoresis (2D-DIGE), a comprehensive characterization of the proteomes of A. minutum and A. tamutum was performed to identify the cellular and molecular underpinnings for the dissimilarity between these two species. A total of 1436 proteins and 420 protein spots were identified using iTRAQ-based proteomics and 2D-DIGE, respectively. Both methods revealed little difference (10–12%) between the proteomes of A. minutum and A. tamutum, highlighting that these organisms follow similar cellular and biological processes at the exponential stage. Toxin biosynthetic enzymes were present in both organisms. However, the gonyautoxin-producing A. minutum showed higher levels of osmotic growth proteins, Zn-dependent alcohol dehydrogenase and type-I polyketide synthase compared to the non-toxic A. tamutum. Further, A. tamutum had increased S-adenosylmethionine transferase that may potentially have a negative feedback mechanism to toxin biosynthesis. -
Microzooplankton Composition and Dynamics in Lake Erie
MICROZOOPLANKTON COMPOSITION AND DYNAMICS IN LAKE ERIE A Thesis Presented to The Graduate Faculty of the University of Akron In Partial Fulfillment of the Requirements for the Degree Master of Science Kenneth M. Moats May 2006 MICROZOOPLANKTON COMPOSITION AND DYNAMICS IN LAKE ERIE Kenneth M. Moats Thesis Approved: Accepted: ______________________________ ______________________________ Advisor Department Chair Peter J. Lavrentyev Richard L. Londraville ______________________________ ______________________________ Committee Member Dean of the College R. Joel Duff Ronald F. Levant ______________________________ ______________________________ Committee Member Dean of the Graduate School David M. Klarer George R. Newkome ______________________________ Date ii ACKNOWLEDGEMENTS I would like to thank my graduate advisor Dr. Peter Lavrentyev for introducing me to the study of aquatic microbial ecology and for the opportunity to conduct this study. The importance of his guidance and expertise in every aspect of this research cannot be understated. I would also like to thank him for the patience, support, and encouragement he provided throughout my tenure. I would also like to thank the other members of my advisory committee, Dr. Joel Duff and Dr. David Klarer, for the helpful advice and comments offered during the preparation of this manuscript. I would like to extend my thanks to Dr. Klarer and the staff of Old Woman Creek NERR for logistical support and the sharing of unpublished data on Old Woman Creek. I thank Dr. Frank Jochem of Florida International University, Dr. Henry Vanderploeg and Dr. Stuart Ludsin of Great Lakes Environmental Research Laboratory, and the Captain and crew of the US EPA R/V Lake Guardian for logistical support during the Lake Erie experiments. -
A Parasite of Marine Rotifers: a New Lineage of Dinokaryotic Dinoflagellates (Dinophyceae)
Hindawi Publishing Corporation Journal of Marine Biology Volume 2015, Article ID 614609, 5 pages http://dx.doi.org/10.1155/2015/614609 Research Article A Parasite of Marine Rotifers: A New Lineage of Dinokaryotic Dinoflagellates (Dinophyceae) Fernando Gómez1 and Alf Skovgaard2 1 Laboratory of Plankton Systems, Oceanographic Institute, University of Sao˜ Paulo, Prac¸a do Oceanografico´ 191, Cidade Universitaria,´ 05508-900 Butanta,˜ SP, Brazil 2Department of Veterinary Disease Biology, University of Copenhagen, Stigbøjlen 7, 1870 Frederiksberg C, Denmark Correspondence should be addressed to Fernando Gomez;´ [email protected] Received 11 July 2015; Accepted 27 August 2015 Academic Editor: Gerardo R. Vasta Copyright © 2015 F. Gomez´ and A. Skovgaard. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Dinoflagellate infections have been reported for different protistan and animal hosts. We report, for the first time, the association between a dinoflagellate parasite and a rotifer host, tentatively Synchaeta sp. (Rotifera), collected from the port of Valencia, NW Mediterranean Sea. The rotifer contained a sporangium with 100–200 thecate dinospores that develop synchronically through palintomic sporogenesis. This undescribed dinoflagellate forms a new and divergent fast-evolved lineage that branches amongthe dinokaryotic dinoflagellates. 1. Introduction form independent lineages with no evident relation to other dinoflagellates [12]. In this study, we describe a new lineage of The alveolates (or Alveolata) are a major lineage of protists an undescribed parasitic dinoflagellate that largely diverged divided into three main phyla: ciliates, apicomplexans, and from other known dinoflagellates. -
Plant Life MagillS Encyclopedia of Science
MAGILLS ENCYCLOPEDIA OF SCIENCE PLANT LIFE MAGILLS ENCYCLOPEDIA OF SCIENCE PLANT LIFE Volume 4 Sustainable Forestry–Zygomycetes Indexes Editor Bryan D. Ness, Ph.D. Pacific Union College, Department of Biology Project Editor Christina J. Moose Salem Press, Inc. Pasadena, California Hackensack, New Jersey Editor in Chief: Dawn P. Dawson Managing Editor: Christina J. Moose Photograph Editor: Philip Bader Manuscript Editor: Elizabeth Ferry Slocum Production Editor: Joyce I. Buchea Assistant Editor: Andrea E. Miller Page Design and Graphics: James Hutson Research Supervisor: Jeffry Jensen Layout: William Zimmerman Acquisitions Editor: Mark Rehn Illustrator: Kimberly L. Dawson Kurnizki Copyright © 2003, by Salem Press, Inc. All rights in this book are reserved. No part of this work may be used or reproduced in any manner what- soever or transmitted in any form or by any means, electronic or mechanical, including photocopy,recording, or any information storage and retrieval system, without written permission from the copyright owner except in the case of brief quotations embodied in critical articles and reviews. For information address the publisher, Salem Press, Inc., P.O. Box 50062, Pasadena, California 91115. Some of the updated and revised essays in this work originally appeared in Magill’s Survey of Science: Life Science (1991), Magill’s Survey of Science: Life Science, Supplement (1998), Natural Resources (1998), Encyclopedia of Genetics (1999), Encyclopedia of Environmental Issues (2000), World Geography (2001), and Earth Science (2001). ∞ The paper used in these volumes conforms to the American National Standard for Permanence of Paper for Printed Library Materials, Z39.48-1992 (R1997). Library of Congress Cataloging-in-Publication Data Magill’s encyclopedia of science : plant life / edited by Bryan D. -
Understanding Bioluminescence in Dinoflagellates—How Far Have We Come?
Microorganisms 2013, 1, 3-25; doi:10.3390/microorganisms1010003 OPEN ACCESS microorganisms ISSN 2076-2607 www.mdpi.com/journal/microorganisms Review Understanding Bioluminescence in Dinoflagellates—How Far Have We Come? Martha Valiadi 1,* and Debora Iglesias-Rodriguez 2 1 Department of Evolutionary Ecology, Max Planck Institute for Evolutionary Biology, August-Thienemann-Strasse, Plӧn 24306, Germany 2 Department of Ecology, Evolution and Marine Biology, University of California Santa Barbara, Santa Barbara, CA 93106, USA; E-Mail: [email protected] * Author to whom correspondence should be addressed; E-Mail: [email protected] or [email protected]; Tel.: +49-4522-763277; Fax: +49-4522-763310. Received: 3 May 2013; in revised form: 20 August 2013 / Accepted: 24 August 2013 / Published: 5 September 2013 Abstract: Some dinoflagellates possess the remarkable genetic, biochemical, and cellular machinery to produce bioluminescence. Bioluminescent species appear to be ubiquitous in surface waters globally and include numerous cosmopolitan and harmful taxa. Nevertheless, bioluminescence remains an enigmatic topic in biology, particularly with regard to the organisms’ lifestyle. In this paper, we review the literature on the cellular mechanisms, molecular evolution, diversity, and ecology of bioluminescence in dinoflagellates, highlighting significant discoveries of the last quarter of a century. We identify significant gaps in our knowledge and conflicting information and propose some important research questions -
Removal of the Toxic Dinoflagellate Alexandrium Tamarense (Dinophyta
Revista de Biología Marina y Oceanografía Vol. 50, Nº2: 347-352, agosto 2015 DOI 10.4067/S0718-19572015000300012 RESEARCH NOTE Removal of the toxic dinoflagellate Alexandrium tamarense (Dinophyta, Gonyaulacales) by Mnemiopsis leidyi (Ctenophora, Lobata) in controlled experimental conditions Remoción del dinoflagelado tóxico Alexandrium tamarense (Dinophyta, Gonyaulacales) por Mnemiopsis leidyi (Ctenophora, Lobata) en condiciones experimentales controladas Sergio Bolasina1,2, Hugo Benavides1,4, Nora Montoya1, José Carreto1,4, Marcelo Acha1,3,4 and Hermes Mianzan1,3,4 1Instituto Nacional de Investigación y Desarrollo Pesquero - INIDEP, Paseo Victoria Ocampo N°1, Escollera Norte, (7602), Mar del Plata, Buenos Aires, Argentina. [email protected] 2Núcleo em Ecologia e Desenvolvimento Sócio-Ambiental de Macaé -NUPEM/UFRJ, Rua São José do Barreto 764, Macaé, Rio de Janeiro, Brasil. (Present address) 3Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Argentina 4Universidad Nacional de Mar del Plata, Funes 3350 (7600) Mar del Plata, Buenos Aires, Argentina Abstract.- The objective of the present study is to estimate the removal capability of the ctenophore Mnemiopsis leidyi (Ctenophora, Lobata) on cultures of the toxic dinoflagellate Alexandrium tamarense (Dinophyta, Gonyaulacales). For this purpose, observations on its clearance and survival rates were made in controlled experiments, using different A. tamarense cell concentrations. Mnemiopsis leidyi is able to remove dinoflagellates actively from the water column only at the lowest density tested (150 cells mL-1). Animals exposed to 300 cells mL-1 presented negative clearance and removal rates (survival= 67%). All ctenophores exposed at the highest concentrations of toxic dinoflagellates (600 cells mL-1) died after 4 h. Removal may occur mainly by incorporating and entangling cells in the mucus strands formed by the ctenophore, and in a lesser way by ingestion. -
The Windblown: Possible Explanations for Dinophyte DNA
bioRxiv preprint doi: https://doi.org/10.1101/2020.08.07.242388; this version posted August 10, 2020. 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-NC-ND 4.0 International license. The windblown: possible explanations for dinophyte DNA in forest soils Marc Gottschlinga, Lucas Czechb,c, Frédéric Mahéd,e, Sina Adlf, Micah Dunthorng,h,* a Department Biologie, Systematische Botanik und Mykologie, GeoBio-Center, Ludwig- Maximilians-Universität München, D-80638 Munich, Germany b Computational Molecular Evolution Group, Heidelberg Institute for Theoretical Studies, D- 69118 Heidelberg, Germany c Department of Plant Biology, Carnegie Institution for Science, Stanford, CA 94305, USA d CIRAD, UMR BGPI, F-34398, Montpellier, France e BGPI, Université de Montpellier, CIRAD, IRD, Montpellier SupAgro, Montpellier, France f Department of Soil Sciences, College of Agriculture and Bioresources, University of Saskatchewan, Saskatoon, S7N 5A8, SK, Canada g Eukaryotic Microbiology, Faculty of Biology, Universität Duisburg-Essen, D-45141 Essen, Germany h Centre for Water and Environmental Research (ZWU), Universität Duisburg-Essen, D- 45141 Essen, Germany Running title: Dinophytes in soils Correspondence M. Dunthorn, Eukaryotic Microbiology, Faculty of Biology, Universität Duisburg-Essen, Universitätsstrasse 5, D-45141 Essen, Germany Telephone number: +49-(0)-201-183-2453; email: [email protected] bioRxiv preprint doi: https://doi.org/10.1101/2020.08.07.242388; this version posted August 10, 2020. 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. -
Diversidad Del Microfitoplancton En Las Aguas Oceánicas Alrededor De Cuba
DIVERSIDAD DEL MICROFITOPLANCTON EN LAS AGUAS OCEÁNICAS ALREDEDOR DE CUBA Sandra Loza Álvarez1 y Gladys Margarita Lugioyo Gallardo1* RESUMEN Se evalúa la diversidad de la comunidad microfitoplanctónica en las aguas oceánicas alrededor de Cuba durante cuatro cruceros (febrero-marzo de 1999, julio-agosto del 2003, marzo del 2005 y agosto del 2005). Las muestras se recolectaron con botellas Nansen de 10 L de capa- cidad, a nivel subsuperficial y se concentraron mediante filtración invertida, a través de una malla de 20 µm de diámetro de poro. El volumen de agua filtrado por estaciones osciló entre 5 y 10 L. Se reportan un total de 181 especies de microalgas ubicadas en las diferentes categorías taxonómicas. El microfitoplancton estuvo dominado en cuanto al número de especies por dia- tomeas 85 y dinoflagelados 47, seguidas por cianobacterias con 23 especies y las dictiocofitas y primnesiofitas con 23 especies (mayormente cocolitofóridos). De las diatomeas, las familias Bacillariaceae, Chaetoceraceae y Rhizosoleniaceae aportan el mayor número de especies con los géneros Nitzschia, Chaetoceros y Rhizosolenia. En los dinoflagelados se distinguen las familias Ceratiaceae, Protoperidiniaceae y Oxytosaceae y los géneros Ceratium, Protoperidi- nium y Oxytoxum. Las aguas oceánicas al norte de Cuba presentan mayor diversidad de espe- cies (136) con respecto a las del sur (103), como lo demuestra el índice de riqueza (R1) que en el norte fue de 48.35, mientras en el sur fue de 28.19. Palabras claves: Microfitoplancton, diversidad, taxonomía, aguas oceánicas, Cuba. ABSTRACT The structure of the microphytoplankton community was evaluated in oceanic waters around Cuba during four cruises (February-March 1999, July-August 2003, March 2005 and August 2005). -
Is Karenia a Synonym of Asterodinium-Brachidinium (Gymnodiniales, Dinophyceae)?
Acta Bot. Croat. 64 (2), 263–274, 2005 CODEN: ABCRA25 ISSN 0365–0588 Is Karenia a synonym of Asterodinium-Brachidinium (Gymnodiniales, Dinophyceae)? FERNANDO GÓMEZ1*, YUKIO NAGAHAMA2,HARUYOSHI TAKAYAMA3,KEN FURUYA2 1 Station Marine de Wimereux, Université des Sciences et Technologies de Lille, CNRS UMR 8013 ELICO, 28 avenue Foch, BP 80, F-62930 Wimereux, France. 2 Department of Aquatic Biosciences, University of Tokyo, 1-1-1 Yayoi, Bunkyo, Tokyo 113-8657, Japan. 3 Hiroshima Prefectural Fisheries and Marine Technology Center, Hatami 6-1-21, Ondo-cho, Kure Hiroshima 737-1205, Japan From material collected in open waters of the NW and Equatorial Pacific Ocean the de- tailed morphology of brachidiniaceans based on two specimens of Asterodinium gracile is reported for the first time. SEM observations showed that the straight apical groove, the morphological characters and orientation of the cell body were similar to those described for species of Karenia. Brachidinium and Asterodinium showed high morphological vari- ability in the length of the extensions and intermediate specimens with Karenia. Karenia-like cells that strongly resemble Brachidinium and Asterodinium but lacking the extensions co-occurred with the typical specimens. The life cycle and morphology of Karenia papilionacea should be investigated under natural conditions because of the strong simi- larity with the brachidiniaceans. Key words: Phytoplankton, Asterodinium, Brachidinium, Brachydinium, Gymnodinium, Karenia, Dinophyta, apical groove, SEM, Pacific Ocean. Introduction Fixatives, such as formaline or Lugol, do not sufficiently preserve unarmoured dino- flagellates to allow species identification. Body shape and morphology often change dur- ing the process of fixation so that even differentiating between the genera Gymnodinium Stein and Gyrodinium Kofoid et Swezy is difficult (ELBRÄCHTER 1979).