Dinoflagellates and Ciliates at Helgoland Roads, North
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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. -
Suitability of Great South Bay, New York to Blooms of Pfiesteria Piscicida and P
City University of New York (CUNY) CUNY Academic Works School of Arts & Sciences Theses Hunter College Summer 8-10-2015 Suitability of Great South Bay, New York to Blooms of Pfiesteria piscicida and P. shumwayae Prior to Superstorm Sandy, October 29, 2012 Pawel Tomasz Zablocki CUNY Hunter College How does access to this work benefit ou?y Let us know! More information about this work at: https://academicworks.cuny.edu/hc_sas_etds/6 Discover additional works at: https://academicworks.cuny.edu This work is made publicly available by the City University of New York (CUNY). Contact: [email protected] Suitability of Great South Bay, New York, to Blooms of Pfiesteria piscicida and P. shumwayae Prior to Superstorm Sandy, October 29, 2012. By Pawel Zablocki Submitted in partial fulfillment of the requirements for the degree of Master of Arts Hunter College of the City of New York 2015 Thesis sponsor: __25 July 2015 Peter X. Marcotullio Date First Reader _2 August 2015 Karl H. Szekielda Date Second Reader i Acknowledgements I would like to thank my advisor, Professor H. Gong and two of my excellent readers—Professor Peter Marcotullio and Professor Karl Szekielda who provided their invaluable advice, alleviated my concerns, and weathered the avalanche of my questions. ii Abstract of the Thesis Pfiesteria piscicida and P. shumwayae are toxic dinoflagellates implicated in massive fish kills in North Carolina and Maryland during 1990s. A set of physical, chemical, and biological factors influence population dynamics of these organisms. This study employs information gathered from relevant literature on temperature, salinity, dissolved oxygen, pH, turbulent mixing, and dissolved nutrients, bacteria, algae, microzooplankton, mesozooplankton, bivalve mollusks, finfish, and other toxic dinoflagellates, which influence Pfiesteria population dynamics. -
28-Protistsf20r.Ppt [Compatibility Mode]
9/3/20 Ch 28: The Protists (a.k.a. Protoctists) (meet these in more detail in your book and lab) 1 Protists invent: eukaryotic cells size complexity Remember: 1°(primary) endosymbiosis? -> mitochondrion -> chloroplast genome unicellular -> multicellular 2 1 9/3/20 For chloroplasts 2° (secondary) happened (more complicated) {3°(tertiary) happened too} 3 4 Eukaryotic “supergroups” (SG; between K and P) 4 2 9/3/20 Protists invent sex: meiosis and fertilization -> 3 Life Cycles/Histories (Fig 13.6) Spores and some protists (Humans do this one) 5 “Algae” Group PS Pigments Euglenoids chl a & b (& carotenoids) Dinoflagellates chl a & c (usually) (& carotenoids) Diatoms chl a & c (& carotenoids) Xanthophytes chl a & c (& carotenoids) Chrysophytes chl a & c (& carotenoids) Coccolithophorids chl a & c (& carotenoids) Browns chl a & c (& carotenoids) Reds chl a, phycobilins (& carotenoids) Greens chl a & b (& carotenoids) (more groups exist) 6 3 9/3/20 Name word roots (indicate nutrition) “algae” (-phyt-) protozoa (no consistent word ending) “fungal-like” (-myc-) Ecological terms plankton phytoplankton zooplankton 7 SG: Excavata/Excavates “excavated” feeding groove some have reduced mitochondria (e.g.: mitosomes, hydrogenosomes) 8 4 9/3/20 SG: Excavata O: Diplomonads: †Giardia Cl: Parabasalids: Trichonympha (bk only) †Trichomonas P: Euglenophyta/zoa C: Kinetoplastids = trypanosomes/hemoflagellates: †Trypanosoma C: Euglenids: Euglena 9 SG: “SAR” clade: Clade Alveolates cell membrane 10 5 9/3/20 SG: “SAR” clade: Clade Alveolates P: Dinoflagellata/Pyrrophyta: -
FIRST RECORD of Erythropsidinium Agile (GYMNODINIALES: WARNOWIACEAE) in the MEXICAN PACIFIC
CICIMAR Oceánides 25(2): 137-142 (2010) FIRST RECORD OF Erythropsidinium agile (GYMNODINIALES: WARNOWIACEAE) IN THE MEXICAN PACIFIC Primer registro de Erythropsidinium agile et Swezy, 1921, Proterythropsis Kofoid et Swezy, (Gymnodiniales: Warnowiaceae) en el 1921, Warnowia Lindemann, 1928, Greuetodinium Pacífico Mexicano Loeblich III, 1980, and Erythropsidinium P.C. Silva, 1960. Ten species of Erythropsidinium have been RESUMEN. Se registra por primera vez Erythropsi- described from warm and temperate seas. However, dinium agile, un dinoflagelado de la Familia Warno- a taxonomical study based on the changes in struc- wiaceae para el Pacífico Mexicano, dentro de Bahía ture, position, and coloration of the ocelloid in the de La Paz (Golfo de California). Se observaron 26 course of the cell division or individual development ejemplares de E. agile, principalmente en muestras revealed that some species had different morpho- de fitoplancton de red para el periodo de estudio (Ju- types (Elbrächter, 1979). At present the valid species nio, 2006 a Junio, 2010). En muestras de botella se currently considered to belong to this genus are: estimaron densidades entre 80 y 1000 cél. L–1. Los ejemplares de E. agile mostraron gran variación en E. agile (Hertwig, 1884) P.C. Silva, 1960, E. cochlea forma, tamaño y coloración; se presentaron princi- (Schütt, 1895) P.C. Silva, 1960, E. extrudens (Ko- palmente en el período invierno-primavera, cuando foid et Swezy, 1921) P.C. Silva, 1960, and E. minus la columna del agua está homogénea, a temperatu- (Kofoid et Swezy, 1921) P.C. Silva, 1960. For the ras entre 19 y 22 °C y rica en nutrientes. -
University of Oklahoma
UNIVERSITY OF OKLAHOMA GRADUATE COLLEGE MACRONUTRIENTS SHAPE MICROBIAL COMMUNITIES, GENE EXPRESSION AND PROTEIN EVOLUTION A DISSERTATION SUBMITTED TO THE GRADUATE FACULTY in partial fulfillment of the requirements for the Degree of DOCTOR OF PHILOSOPHY By JOSHUA THOMAS COOPER Norman, Oklahoma 2017 MACRONUTRIENTS SHAPE MICROBIAL COMMUNITIES, GENE EXPRESSION AND PROTEIN EVOLUTION A DISSERTATION APPROVED FOR THE DEPARTMENT OF MICROBIOLOGY AND PLANT BIOLOGY BY ______________________________ Dr. Boris Wawrik, Chair ______________________________ Dr. J. Phil Gibson ______________________________ Dr. Anne K. Dunn ______________________________ Dr. John Paul Masly ______________________________ Dr. K. David Hambright ii © Copyright by JOSHUA THOMAS COOPER 2017 All Rights Reserved. iii Acknowledgments I would like to thank my two advisors Dr. Boris Wawrik and Dr. J. Phil Gibson for helping me become a better scientist and better educator. I would also like to thank my committee members Dr. Anne K. Dunn, Dr. K. David Hambright, and Dr. J.P. Masly for providing valuable inputs that lead me to carefully consider my research questions. I would also like to thank Dr. J.P. Masly for the opportunity to coauthor a book chapter on the speciation of diatoms. It is still such a privilege that you believed in me and my crazy diatom ideas to form a concise chapter in addition to learn your style of writing has been a benefit to my professional development. I’m also thankful for my first undergraduate research mentor, Dr. Miriam Steinitz-Kannan, now retired from Northern Kentucky University, who was the first to show the amazing wonders of pond scum. Who knew that studying diatoms and algae as an undergraduate would lead me all the way to a Ph.D. -
Dinoflagelados (Dinophyta) De Los Órdenes Prorocentrales Y Dinophysiales Del Sistema Arrecifal Veracruzano, México
Symbol.dfont in 8/10 pts abcdefghijklmopqrstuvwxyz ABCDEFGHIJKLMNOPQRSTUVWXYZ Symbol.dfont in 10/12 pts abcdefghijklmopqrstuvwxyz ABCDEFGHIJKLMNOPQRSTUVWXYZ Symbol.dfont in 12/14 pts abcdefghijklmopqrstuvwxyz ABCDEFGHIJKLMNOPQRSTUVWXYZ Dinoflagelados (Dinophyta) de los órdenes Prorocentrales y Dinophysiales del Sistema Arrecifal Veracruzano, México Dulce Parra-Toriz1,3, María de Lourdes Araceli Ramírez-Rodríguez1 & David Uriel Hernández-Becerril2 1. Facultad de Biología, Universidad Veracruzana, Circuito Gonzalo Beltrán s/n, Zona Universitaria, Xalapa, Veracruz, 91090 México; [email protected] 2. Instituto de Ciencias del Mar y Limnología, Universidad Nacional Autónoma de México (UNAM). Apartado Postal 70-305, México D.F. 04510 México; [email protected] 3. Posgrado en Ciencias del Mar. Instituto de Ciencias del Mar y Limnología, Universidad Nacional Autónoma de México (UNAM). Apartado Postal 70-305, México D.F. 04510 México; [email protected] Recibido 12-III-2010. Corregido 24-VIII-2010. Aceptado 23-IX-2010. Abstract: Dinoflagellates (Dinophyta) of orders Dinophysiales and Prorocentrales of the Veracruz Reef System, Mexico. Dinoflagellates are a major taxonomic group in marine phytoplankton communities in terms of diversity and biomass. Some species are also important because they form blooms and/or produce toxins that may cause diverse problems. The composition of planktonic dinoflagellates of the orders Prorocentrales and Dinophysiales, in the Veracruz Reef System, were obtained during the period of October 2006 to January 2007. For this, samples were taken from the surface at 10 stations with net of 30µm mesh, and were analyzed by light and scanning electron microscopy. Each species was described and illustrated, measured and their dis- tribution and ecological data is also given. A total of nine species were found and identified, belonging to four genera: Dinophysis was represented by three species; Prorocentrum by three, Phalacroma by two, and only one species of Ornithocercus was detected. -
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. -
There Is Not a Latin Root Word Clear Your Desk Protist Quiz Grade Quiz
There is not a Latin Root Word Clear your desk Protist Quiz Grade Quiz Malaria Fever Wars Classification Kingdom Protista contains THREE main groups of organisms: 1. Protozoa: “animal-like protists” 2. Algae: “plant-like protists” 3. Slime & Water Molds: “fungus-like protists” Basics of Protozoa Unicellular Eukaryotic unlike bacteria 65, 000 different species Heterotrophic Free-living (move in aquatic environments) or Parasitic Habitats include oceans, rivers, ponds, soil, and other organisms. Protozoa Reproduction ALL protozoa can use asexual reproduction through binary fission or multiple fission FEW protozoa reproduce sexually through conjugation. Adaptation Special Protozoa Adaptations Eyespot: detects changes in the quantity/ quality of light, and physical/chemical changes in their environment Cyst: hardened external covering that protects protozoa in extreme environments. Basics of Algae: “Plant-like” protists. MOST unicellular; SOME multicellular. Make food by photosynthesis (“autotrophic prostists”). Were classified as plants, BUT… – Lack tissue differentiation- NO roots, stems, leaves, etc. – Reproduce differently Most algal cells have pyrenoids (organelles that make and store starch) Can use asexual or sexual reproduction. Algae Structure: Thallus: body portion; usually haploid Body Structure: 1) unicellular: single-celled; aquatic (Ex.phytoplankton, Chlamydomonas) 2) colonial: groups of coordinated cells; “division of labor” (Ex. Volvox) 3) filamentous: rod-shaped thallus; some anchor to ocean bottom (Ex. Spyrogyra) 4) multicellular: large, complex, leaflike thallus (Ex. Macrocystis- giant kelp) Basics of Fungus-like Protists: Slime Molds: Water Molds: Once classified as fungi Fungus-like; composed of Found in damp soil, branching filaments rotting logs, and other Commonly freshwater; decaying matter. some in soil; some Some white, most yellow parasites. -
Wrc Research Report No. 131 Effects of Feedlot Runoff
WRC RESEARCH REPORT NO. 131 EFFECTS OF FEEDLOT RUNOFF ON FREE-LIVING AQUATIC CILIATED PROTOZOA BY Kenneth S. Todd, Jr. College of Veterinary Medicine Department of Veterinary Pathology and Hygiene University of Illinois Urbana, Illinois 61801 FINAL REPORT PROJECT NO. A-074-ILL This project was partially supported by the U. S. ~epartmentof the Interior in accordance with the Water Resources Research Act of 1964, P .L. 88-379, Agreement No. 14-31-0001-7030. UNIVERSITY OF ILLINOIS WATER RESOURCES CENTER 2535 Hydrosystems Laboratory Urbana, Illinois 61801 AUGUST 1977 ABSTRACT Water samples and free-living and sessite ciliated protozoa were col- lected at various distances above and below a stream that received runoff from a feedlot. No correlation was found between the species of protozoa recovered, water chemistry, location in the stream, or time of collection. Kenneth S. Todd, Jr'. EFFECTS OF FEEDLOT RUNOFF ON FREE-LIVING AQUATIC CILIATED PROTOZOA Final Report Project A-074-ILL, Office of Water Resources Research, Department of the Interior, August 1977, Washington, D.C., 13 p. KEYWORDS--*ciliated protozoa/feed lots runoff/*water pollution/water chemistry/Illinois/surface water INTRODUCTION The current trend for feeding livestock in the United States is toward large confinement types of operation. Most of these large commercial feedlots have some means of manure disposal and programs to prevent runoff from feed- lots from reaching streams. However, there are still large numbers of smaller feedlots, many of which do not have adequate facilities for disposal of manure or preventing runoff from reaching waterways. The production of wastes by domestic animals was often not considered in the past, but management of wastes is currently one of the largest problems facing the livestock industry. -
An Evolutionary Switch in the Specificity of an Endosomal CORVET Tether Underlies
bioRxiv preprint doi: https://doi.org/10.1101/210328; this version posted October 27, 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-NC-ND 4.0 International license. Title: An evolutionary switch in the specificity of an endosomal CORVET tether underlies formation of regulated secretory vesicles in the ciliate Tetrahymena thermophila Daniela Sparvolia, Elisabeth Richardsonb*, Hiroko Osakadac*, Xun Land,e*, Masaaki Iwamotoc, Grant R. Bowmana,f, Cassandra Kontura,g, William A. Bourlandh, Denis H. Lynni,j, Jonathan K. Pritchardd,e,k, Tokuko Haraguchic,l, Joel B. Dacksb, and Aaron P. Turkewitza th a Department of Molecular Genetics and Cell Biology, The University of Chicago, 920 E 58 Street, Chicago IL USA b Department of Cell Biology, University of Alberta, Canada c Advanced ICT Research Institute, National Institute of Information and Communications Technology (NICT), Kobe 651-2492, Japan. d Department of Genetics, Stanford University, Stanford, CA, 94305 e Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305 f current affiliation: Department of Molecular Biology, University of Wyoming, Laramie g current affiliation: Department of Genetics, Yale University School of Medicine, New Haven, CT 06510 h Department of Biological Sciences, Boise State University, Boise ID 83725-1515 I Department of Integrative Biology, University of Guelph, Guelph ON N1G 2W1, Canada j current affiliation: Department of Zoology, University of British Columbia, Vancouver, BC, V6T 1Z4, Canada k Department of Biology, Stanford University, Stanford, CA, 94305 l Graduate School of Frontier Biosciences, Osaka University, Suita 565-0871, Japan. -
Seasonal and Interannual Changes in Ciliate and Dinoflagellate
ORIGINAL RESEARCH published: 07 February 2017 doi: 10.3389/fmars.2017.00016 Seasonal and Interannual Changes in Ciliate and Dinoflagellate Species Assemblages in the Arctic Ocean (Amundsen Gulf, Beaufort Sea, Canada) Edited by: Deo F. L. Onda 1, 2, 3, Emmanuelle Medrinal 1, 3, André M. Comeau 1, 3 †, Mary Thaler 1, 2, 3, George S. Bullerjahn, Marcel Babin 1, 2 and Connie Lovejoy 1, 2, 3* Bowling Green State University, USA Reviewed by: 1 Département de Biologie and Québec-Océan, Université Laval, Quebec, QC, Canada, 2 Takuvik, Joint International Rebecca Gast, Laboratory, UMI 3376, Centre National de la Recherche Scientifique (CNRS, France) and Université Laval, Québec, QC, Woods Hole Oceanographic Canada, 3 Institut de Biologie Intégrative et des Systèmes, Université Laval, Quebec, QC, Canada Institution, USA Alison Clare Cleary, Independent Researcher, San Recent studies have focused on how climate change could drive changes in Francisco, United States phytoplankton communities in the Arctic. In contrast, ciliates and dinoflagellates that can *Correspondence: contribute substantially to the mortality of phytoplankton have received less attention. Connie Lovejoy Some dinoflagellate and ciliate species can also contribute to net photosynthesis, [email protected] which suggests that species composition could reflect food web complexity. To identify †Present Address: André M. Comeau, potential seasonal and annual species occurrence patterns and to link species with Centre for Comparative Genomics and environmental conditions, we first examined the seasonal pattern of microzooplankton Evolutionary Bioinformatics-Integrated Microbiome Resource, Department of and then performed an in-depth analysis of interannual species variability. We used Pharmacology, Dalhousie University, high-throughput amplicon sequencing to identify ciliates and dinoflagellates to the lowest Canada taxonomic level using a curated Arctic 18S rRNA gene database.