Aquatic Microbial Ecology 80:193
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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. -
Akashiwo Sanguinea
Ocean ORIGINAL ARTICLE and Coastal http://doi.org/10.1590/2675-2824069.20-004hmdja Research ISSN 2675-2824 Phytoplankton community in a tropical estuarine gradient after an exceptional harmful bloom of Akashiwo sanguinea (Dinophyceae) in the Todos os Santos Bay Helen Michelle de Jesus Affe1,2,* , Lorena Pedreira Conceição3,4 , Diogo Souza Bezerra Rocha5 , Luis Antônio de Oliveira Proença6 , José Marcos de Castro Nunes3,4 1 Universidade do Estado do Rio de Janeiro - Faculdade de Oceanografia (Bloco E - 900, Pavilhão João Lyra Filho, 4º andar, sala 4018, R. São Francisco Xavier, 524 - Maracanã - 20550-000 - Rio de Janeiro - RJ - Brazil) 2 Instituto Nacional de Pesquisas Espaciais/INPE - Rede Clima - Sub-rede Oceanos (Av. dos Astronautas, 1758. Jd. da Granja -12227-010 - São José dos Campos - SP - Brazil) 3 Universidade Estadual de Feira de Santana - Departamento de Ciências Biológicas - Programa de Pós-graduação em Botânica (Av. Transnordestina s/n - Novo Horizonte - 44036-900 - Feira de Santana - BA - Brazil) 4 Universidade Federal da Bahia - Instituto de Biologia - Laboratório de Algas Marinhas (Rua Barão de Jeremoabo, 668 - Campus de Ondina 40170-115 - Salvador - BA - Brazil) 5 Instituto Internacional para Sustentabilidade - (Estr. Dona Castorina, 124 - Jardim Botânico - 22460-320 - Rio de Janeiro - RJ - Brazil) 6 Instituto Federal de Santa Catarina (Av. Ver. Abrahão João Francisco, 3899 - Ressacada, Itajaí - 88307-303 - SC - Brazil) * Corresponding author: [email protected] ABSTRAct The objective of this study was to evaluate variations in the composition and abundance of the phytoplankton community after an exceptional harmful bloom of Akashiwo sanguinea that occurred in Todos os Santos Bay (BTS) in early March, 2007. -
Growth and Grazing Rates of the Herbivorous Dinoflagellate Gymnodinium Sp
MARINE ECOLOGY PROGRESS SERIES Published December 16 Mar. Ecol. Prog. Ser. Growth and grazing rates of the herbivorous dinoflagellate Gymnodinium sp. from the open subarctic Pacific Ocean Suzanne L. Strom' School of Oceanography WB-10, University of Washington. Seattle. Washington 98195, USA ABSTRACT: Growth, grazing and cell volume of the small heterotroph~cdinoflagellate Gyrnnodin~um sp. Isolated from the open subarctic Pacific Ocean were measured as a funct~onof food concentration using 2 phytoplankton food species. Growth and lngestlon rates increased asymptotically with Increas- ing phytoplankon food levels, as did grazer cell volume; rates at representative oceanic food levels were high but below maxima. Clearance rates decreased with lncreaslng food levels when Isochrysis galbana was the food source; they increased ~vithlncreaslng food levels when Synechococcus sp. was the food source. There was apparently a grazlng threshold for Ingestion of Synechococcus: below an initial Synechococcus concentration of 20 pgC 1.' ingestion rates on this alga were very low, while above this initial concentratlon Synechococcus was grazed preferent~ally Gross growth efficiency varied between 0.03 and 0.53 (mean 0.21) and was highest at low food concentrations. Results support the hypothesis that heterotrophic d~noflagellatesmay contribute to controlling population increases of small, rap~dly-grow~ngphytoplankton specles even at low oceanic phytoplankton concentrations. INTRODUCTION as Gymnodinium and Gyrodinium is difficult or impos- sible using older preservation and microscopy tech- Heterotrophic dinoflagellates can be a significant niques; experimental emphasis has been on more component of the microzooplankton in marine waters. easily recognizable and collectable microzooplankton In the oceanic realm, Lessard (1984) and Shapiro et al. -
Nucleotide Amino Acid Size (Nt) #Orfs Marnavirus Heterosigma Akashiwo Heterosigma Akashiwo RNA Heterosigma Lang Et Al
Supplementary Table 1: Summary of information for all viruses falling within the seven Marnaviridae genera in our analyses. Accession Genome Genus Species Virus name Strain Abbreviation Source Country Reference Nucleotide Amino acid Size (nt) #ORFs Marnavirus Heterosigma akashiwo Heterosigma akashiwo RNA Heterosigma Lang et al. , 2004; HaRNAV AY337486 AAP97137 8587 One Canada RNA virus 1 virus akashiwo Tai et al. , 2003 Marine single- ASG92540 Moniruzzaman et Classification pending Q sR OV 020 KY286100 9290 Two celled USA ASG92541 al ., 2017 eukaryotes Marine single- Moniruzzaman et Classification pending Q sR OV 041 KY286101 ASG92542 9328 One celled USA al ., 2017 eukaryotes APG78557 Classification pending Wenzhou picorna-like virus 13 WZSBei69459 KX884360 9458 One Bivalve China Shi et al ., 2016 APG78557 Classification pending Changjiang picorna-like virus 2 CJLX30436 KX884547 APG79001 7171 One Crayfish China Shi et al ., 2016 Beihai picorna-like virus 57 BHHQ57630 KX883356 APG76773 8518 One Tunicate China Shi et al ., 2016 Classification pending Beihai picorna-like virus 57 BHJP51916 KX883380 APG76812 8518 One Tunicate China Shi et al ., 2016 Marine single- ASG92530 Moniruzzaman et Classification pending N OV 137 KY130494 7746 Two celled USA ASG92531 al ., 2017 eukaryotes Hubei picorna-like virus 7 WHSF7327 KX884284 APG78434 9614 One Pill worm China Shi et al ., 2016 Classification pending Hubei picorna-like virus 7 WHCC111241 KX884268 APG78407 7945 One Insect China Shi et al ., 2016 Sanxia atyid shrimp virus 2 WHCCII13331 KX884278 APG78424 10445 One Insect China Shi et al ., 2016 Classification pending Freshwater atyid Sanxia atyid shrimp virus 2 SXXX37884 KX883708 APG77465 10400 One China Shi et al ., 2016 shrimp Labyrnavirus Aurantiochytrium single Aurantiochytrium single stranded BAE47143 Aurantiochytriu AuRNAV AB193726 9035 Three4 Japan Takao et al. -
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: -
The Planktonic Protist Interactome: Where Do We Stand After a Century of Research?
bioRxiv preprint doi: https://doi.org/10.1101/587352; this version posted May 2, 2019. 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. Bjorbækmo et al., 23.03.2019 – preprint copy - BioRxiv The planktonic protist interactome: where do we stand after a century of research? Marit F. Markussen Bjorbækmo1*, Andreas Evenstad1* and Line Lieblein Røsæg1*, Anders K. Krabberød1**, and Ramiro Logares2,1** 1 University of Oslo, Department of Biosciences, Section for Genetics and Evolutionary Biology (Evogene), Blindernv. 31, N- 0316 Oslo, Norway 2 Institut de Ciències del Mar (CSIC), Passeig Marítim de la Barceloneta, 37-49, ES-08003, Barcelona, Catalonia, Spain * The three authors contributed equally ** Corresponding authors: Ramiro Logares: Institute of Marine Sciences (ICM-CSIC), Passeig Marítim de la Barceloneta 37-49, 08003, Barcelona, Catalonia, Spain. Phone: 34-93-2309500; Fax: 34-93-2309555. [email protected] Anders K. Krabberød: University of Oslo, Department of Biosciences, Section for Genetics and Evolutionary Biology (Evogene), Blindernv. 31, N-0316 Oslo, Norway. Phone +47 22845986, Fax: +47 22854726. [email protected] Abstract Microbial interactions are crucial for Earth ecosystem function, yet our knowledge about them is limited and has so far mainly existed as scattered records. Here, we have surveyed the literature involving planktonic protist interactions and gathered the information in a manually curated Protist Interaction DAtabase (PIDA). In total, we have registered ~2,500 ecological interactions from ~500 publications, spanning the last 150 years. -
Check List 15 (5): 951–963
15 5 ANNOTATED LIST OF SPECIES Check List 15 (5): 951–963 https://doi.org/10.15560/15.5.951 Dinoflagellates in tropical estuarine waters from the Maraú River, Camamu Bay, northeastern Brazil Caio Ceza da Silva Nunes1, Sylvia Maria Moreira Susini-Ribeiro1, 2, Kaoli Pereira Cavalcante3 1 Mestrado em Sistemas Aquáticos Tropicais, Universidade Estadual de Santa Cruz, Rodovia Jorge Amado, km 16, Salobrinho, 45662090 Ilhéus, BA, Brazil. 2 Universidade Estadual de Santa Cruz, Rodovia Jorge Amado, km 16, Salobrinho, 45662090 Ilhéus, BA, Brazil. 3 Universidade Estadual Vale do Acaraú, Avenida da Universidade, 850, Campus da Betânia, Betânia, 62040370, Sobral, CE, Brazil. Corresponding author: Caio Ceza da Silva Nunes, [email protected] Abstract Dinoflagellates display great diversity in tropical regions and play an important role in the complex microbial food webs of marine and brackish environments. The goal of this study is to identify planktonic dinoflagellates and their distribution in the estuary of the Maraú River, Camamu Bay, state of Bahia, in a region with increasing use of shellfish farming. Samples were carried out monthly from August 2006 to July 2007 at four stations along the estuary. Plankton was sampled with a 20 μm mesh net. We identified 20 dinoflagellate species. The greatest species richness was ob- served in the genera Protoperidinium (five spp.), Tripos (four spp.), and Prorocentrum (three spp.). Based on literature, six species were classified as potentially harmful: Akashiwo sanguinea, Dinophysis caudata, Gonyaulax spinifera, Prorocentrum micans, Scrippsiella cf. acuminata, and Tripos furca. Protoperidinium venustum was recorded for the first time in coastal waters of Bahia. Keywords Brackish water, Dinophyta, distribution, potentially harmful species, taxonomy. -
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. -
Planktonic Algal Blooms from 2000 to 2015 in Acapulco
125: 61-93 October 2018 Research article Planktonic algal blooms from 2000 to 2015 in Acapulco Bay, Guerrero, Mexico Florecimientos de microalgas planctónicas de 2000 al 2015 en la Bahía de Acapulco, Guerrero, México María Esther Meave del Castillo1,2 , María Eugenia Zamudio-Resendiz1 ABSTRACT: 1 Universidad Autónoma Metro- Background and Aims: Harmful algal blooms (HABs) affect the marine ecosystem in multiple ways. The politana, Unidad Iztapalapa, De- objective was to document the species that produced blooms in Acapulco Bay over a 15-year period (2000- partamento de Hidrobiología, La- boratorio de Fitoplancton Marino 2015) and analyze the presence of these events with El Niño-Southern Oscillation (ENSO). y Salobre, Av. San Rafael Atlixco Methods: Thirty-five collections, made during the years 2000, 2002-2004, 2006-2011, 2013-2015, were 186, Col. Vicentina, Iztapalapa, undertaken with phytoplankton nets and Van Dorn bottle, yielding 526 samples, of which 423 were quanti- 09340 Cd. Mx., México. fied using the Utermöhl method. The relationship of HAB with ENSO was made with standardized values 2 Author for correspondence: of Multivariate ENSO Index (MEI) and the significance was evaluated with the method quadrant sums of [email protected] Olmstead-Tukey. Key results: Using data of cell density and high relative abundance (>60%), 53 blooms were recorded, most Received: November 21, 2017. of them occurring during the rainy season (June-October) and dry-cold season (November-March), plus 37 Reviewed: January 10, 2018. blooms reported by other authors. These 90 blooms were composed of 40 taxa: 21 diatoms and 19 dinoflagel- Accepted: April 6, 2018. -
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 -
Grazing Impacts of the Heterotrophic Dinoflagellate Polykrikos Kofoidii on a Bloom of Gymnodinium Catenatum
AQUATIC MICROBIAL ECOLOGY Published April 30 Aquat Microb Ecol NOTE Grazing impacts of the heterotrophic dinoflagellate Polykrikos kofoidii on a bloom of Gymnodinium catenatum Yukihiko Matsuyama'f*,Masahide Miyamoto2, Yuichi ~otani' 'National Research Institute of Fisheries and Environment of Inland Sea, Maruishi, Ohno, Saeki, Hiroshima 739-0452, Japan 2KumamotoAriake Fisheries Direction Office, Iwasaki, Tamana, Kumamoto 865-0016, Japan ABSTRACT: In 1998, a red tide of the paralytic shellfish an assessment of the natural population of G. catena- poisoning (PSP)-producing dinoflagellate Gymnodinium cate- turn coupled with a laboratory incubation experiment naturn Graham occurred in Yatsushiro Sea, western Japan. to evaluate the bloom fate. We present data showing The dramatic decline of dominant G. catenatum cells oc- curred during the field and laboratory assessments, accompa- considerable predation by the pseudocolonial hetero- nied with growth of the heterotrophic dinoflagellate Poly- trophic dinoflagellate Polykrikos kofoidii Chatton on knkos kofoidii Chatton. Microscopic observations on both the dominant G. catenatum population, and discuss field and laboratory cultured bloom water revealed that the ecological importance of the genus Polykrikos and >50% of P. kofoidii predated on the natural population of G. catenaturn, and 1 to 8 G. catenatum cells were found in its grazing impact on harmful algal blooms. food vacuoles of P. kofoidii pseudocolonies. Our results sug- Materials and methods. Filed population surveys: gest that predation by P. kofoidii contributes to the cessation The Gymnodinium catenatum bloom occurred from 19 of a G. catenatum bloom. January to 5 February in Miyano-Gawachi Bay, west- ern Yatsushiro Sea, Kyushu Island (Fig. 1). Five cruises KEY WORDS: PSP - Gymnodimurn catenatum . -
Ecosystem State Change in the Arabian Sea Fuelled by the Recent Loss of Snow Over the Himalayan- Tibetan Plateau Region Joaquim I
www.nature.com/scientificreports OPEN Ecosystem state change in the Arabian Sea fuelled by the recent loss of snow over the Himalayan- Tibetan Plateau region Joaquim I. Goes 1 ✉ , Hongzhen Tian1,2, Helga do Rosario Gomes1, O. Roger Anderson 1, Khalid Al-Hashmi3, Sergio deRada4, Hao Luo5, Lubna Al-Kharusi6, Adnan Al-Azri7 & Douglas G. Martinson1 The recent trend of global warming has exerted a disproportionately strong infuence on the Eurasian land surface, causing a steady decline in snow cover extent over the Himalayan-Tibetan Plateau region. Here we show that this loss of snow is undermining winter convective mixing and causing stratifcation of the upper layer of the Arabian Sea at a much faster rate than predicted by global climate models. Over the past four decades, the Arabian Sea has also experienced a profound loss of inorganic nitrate. In all probability, this is due to increased denitrifcation caused by the expansion of the permanent oxygen minimum zone and consequent changes in nutrient stoichiometries. These exceptional changes appear to be creating a niche particularly favorable to the mixotroph, Noctiluca scintillans which has recently replaced diatoms as the dominant winter, bloom forming organism. Although Noctiluca blooms are non-toxic, they can cause fsh mortality by exacerbating oxygen defciency and ammonifcation of seawater. As a consequence, their continued range expansion represents a signifcant and growing threat for regional fsheries and the welfare of coastal populations dependent on the Arabian Sea for sustenance. Te Arabian Sea (AS) is a unique, low-latitude oceanic ecosystem because it is infuenced by monsoonal winds that reverse their direction seasonally1.