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The 2014 Golden Gate National Parks Bioblitz - Data Management and the Event Species List Achieving a Quality Dataset from a Large Scale Event
National Park Service U.S. Department of the Interior Natural Resource Stewardship and Science The 2014 Golden Gate National Parks BioBlitz - Data Management and the Event Species List Achieving a Quality Dataset from a Large Scale Event Natural Resource Report NPS/GOGA/NRR—2016/1147 ON THIS PAGE Photograph of BioBlitz participants conducting data entry into iNaturalist. Photograph courtesy of the National Park Service. ON THE COVER Photograph of BioBlitz participants collecting aquatic species data in the Presidio of San Francisco. Photograph courtesy of National Park Service. The 2014 Golden Gate National Parks BioBlitz - Data Management and the Event Species List Achieving a Quality Dataset from a Large Scale Event Natural Resource Report NPS/GOGA/NRR—2016/1147 Elizabeth Edson1, Michelle O’Herron1, Alison Forrestel2, Daniel George3 1Golden Gate Parks Conservancy Building 201 Fort Mason San Francisco, CA 94129 2National Park Service. Golden Gate National Recreation Area Fort Cronkhite, Bldg. 1061 Sausalito, CA 94965 3National Park Service. San Francisco Bay Area Network Inventory & Monitoring Program Manager Fort Cronkhite, Bldg. 1063 Sausalito, CA 94965 March 2016 U.S. Department of the Interior National Park Service Natural Resource Stewardship and Science Fort Collins, Colorado The National Park Service, Natural Resource Stewardship and Science office in Fort Collins, Colorado, publishes a range of reports that address natural resource topics. These reports are of interest and applicability to a broad audience in the National Park Service and others in natural resource management, including scientists, conservation and environmental constituencies, and the public. The Natural Resource Report Series is used to disseminate comprehensive information and analysis about natural resources and related topics concerning lands managed by the National Park Service. -
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. -
Periphytic Algal Biomass in Two Distinct Regions of a Tropical Coastal Lake
Acta Limnologica Brasiliensia, 2012, vol. 24, no. 3, p. 244-254 http://dx.doi.org/10.1590/S2179-975X2012005000042 Periphytic algal biomass in two distinct regions of a tropical coastal lake Biomassa de algas perifíticas em duas regiões distintas de uma lagoa costeira tropical Stéfano Zorzal de Almeida1 and Valéria de Oliveira Fernandes2 1Programa de Pós-graduação em Biologia Vegetal, Universidade Federal do Espírito Santo – UFES, Av. Fernando Ferrari, 514, Goiabeiras, CEP 29075-910, Vitória, ES, Brazil e-mail: [email protected] 2Departamento de Ciências Biológicas, Universidade Federal do Espírito Santo – UFES, Av. Fernando Ferrari, 514, Goiabeiras, CEP 29075-910, Vitória, ES, Brazil e-mail: [email protected] Abstract: Aim: This study assessed the phycoperiphyton biomass in two regions submitted to different human impacts on Juara Lake, a coastal ecosystem with multiple uses, to order to test the hypothesis that the sampling sites that receive domestic sewage shows higher biomass values. Methods: It was installed three experimental structures with artificial substrate (glass slides) in December 2009 in two sampling sites: ED – near the domestic sewage’s release; TR – in the area of intensive fish farming (net cages). Samplings were conducted in each experimental structure, after 21, 26 and 31 days for colonization. We evaluated: transparency, electric conductivity, pH, turbidity, total suspended solids, alkalinity, dissolved oxygen, water temperature, total nitrogen, nitrate, nitrite, ammonia nitrogen, total phosphorus, orthophosphate and silicate. The phycoperiphyton was analyzed regarding biomass: biovolume (total and per class); pigments (chlorophyll-a and b and carotenoids) and phaeophytin; dry weight and ash- free dry weight. Results: TR featured higher values of transparency, water temperature and silicate. -
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. -
The Plankton Lifeform Extraction Tool: a Digital Tool to Increase The
Discussions https://doi.org/10.5194/essd-2021-171 Earth System Preprint. Discussion started: 21 July 2021 Science c Author(s) 2021. CC BY 4.0 License. Open Access Open Data The Plankton Lifeform Extraction Tool: A digital tool to increase the discoverability and usability of plankton time-series data Clare Ostle1*, Kevin Paxman1, Carolyn A. Graves2, Mathew Arnold1, Felipe Artigas3, Angus Atkinson4, Anaïs Aubert5, Malcolm Baptie6, Beth Bear7, Jacob Bedford8, Michael Best9, Eileen 5 Bresnan10, Rachel Brittain1, Derek Broughton1, Alexandre Budria5,11, Kathryn Cook12, Michelle Devlin7, George Graham1, Nick Halliday1, Pierre Hélaouët1, Marie Johansen13, David G. Johns1, Dan Lear1, Margarita Machairopoulou10, April McKinney14, Adam Mellor14, Alex Milligan7, Sophie Pitois7, Isabelle Rombouts5, Cordula Scherer15, Paul Tett16, Claire Widdicombe4, and Abigail McQuatters-Gollop8 1 10 The Marine Biological Association (MBA), The Laboratory, Citadel Hill, Plymouth, PL1 2PB, UK. 2 Centre for Environment Fisheries and Aquacu∑lture Science (Cefas), Weymouth, UK. 3 Université du Littoral Côte d’Opale, Université de Lille, CNRS UMR 8187 LOG, Laboratoire d’Océanologie et de Géosciences, Wimereux, France. 4 Plymouth Marine Laboratory, Prospect Place, Plymouth, PL1 3DH, UK. 5 15 Muséum National d’Histoire Naturelle (MNHN), CRESCO, 38 UMS Patrinat, Dinard, France. 6 Scottish Environment Protection Agency, Angus Smith Building, Maxim 6, Parklands Avenue, Eurocentral, Holytown, North Lanarkshire ML1 4WQ, UK. 7 Centre for Environment Fisheries and Aquaculture Science (Cefas), Lowestoft, UK. 8 Marine Conservation Research Group, University of Plymouth, Drake Circus, Plymouth, PL4 8AA, UK. 9 20 The Environment Agency, Kingfisher House, Goldhay Way, Peterborough, PE4 6HL, UK. 10 Marine Scotland Science, Marine Laboratory, 375 Victoria Road, Aberdeen, AB11 9DB, UK. -
Measurements of Plankton Distribution in the Ocean Using
Measurements of Plankton Distribution in the Ocean Using Submersible Holography Edwin Malkiel, Omar Alquaddoomi and Joseph Katz Department of Mechanical Engineering, The Johns Hopkins University Baltimore, MD 21218 USA Abstract A submersible holography system for in situ recordings of the spatial distribution of plankton has been developed and deployed. The system utilizes a ruby laser with an in-line recording configuration and has a sample volume of 732 ml. The reconstructed images have a resolution ranging from 10 - 20 µm for spherical particles and 3 µm for linear particles that lie within 100 mm from the film. Reconstructed volumes from holograms recorded during two recent deployments in the Strait of Georgia are scanned to obtain focused images of the particles, their position, size, orientation. The particles are also classified to several groups based on their morphological characteristics. One of the sets includes holograms recorded during a 15 minute vertical transect of the top 30 m of the water column. Along with the holograms, the data includes records of depth, temperature, salinity, dissolved oxygen and optical transmissivity. The results show substantial variations in population makeup between layers spaced a short distance apart, particle concentration maxima at and near a pycnocline and evidence of zooplankton migration. A predominant horizontal diatom orientation is indicated in the region of peak diatom concentration. Individual holograms show clustering within different classes of plankton. Keywords: holography, plankton distribution, thin layer, copepod 1.0 Introduction As demand on the world's fisheries increase, there is considerable concern over the sustainability of such resources. There is also concern over the increasing frequency of harmful algal blooms in coastal waters, not only because of their effect on the fisheries, but also because their effect on people. -
Marine Plankton Diatoms of the West Coast of North America
MARINE PLANKTON DIATOMS OF THE WEST COAST OF NORTH AMERICA BY EASTER E. CUPP UNIVERSITY OF CALIFORNIA PRESS BERKELEY AND LOS ANGELES 1943 BULLETIN OF THE SCRIPPS INSTITUTION OF OCEANOGRAPHY OF THE UNIVERSITY OF CALIFORNIA LA JOLLA, CALIFORNIA EDITORS: H. U. SVERDRUP, R. H. FLEMING, L. H. MILLER, C. E. ZoBELL Volume 5, No.1, pp. 1-238, plates 1-5, 168 text figures Submitted by editors December 26,1940 Issued March 13, 1943 Price, $2.50 UNIVERSITY OF CALIFORNIA PRESS BERKELEY, CALIFORNIA _____________ CAMBRIDGE UNIVERSITY PRESS LONDON, ENGLAND [CONTRIBUTION FROM THE SCRIPPS INSTITUTION OF OCEANOGRAPHY, NEW SERIES, No. 190] PRINTED IN THE UNITED STATES OF AMERICA Taxonomy and taxonomic names change over time. The names and taxonomic scheme used in this work have not been updated from the original date of publication. The published literature on marine diatoms should be consulted to ensure the use of current and correct taxonomic names of diatoms. CONTENTS PAGE Introduction 1 General Discussion 2 Characteristics of Diatoms and Their Relationship to Other Classes of Algae 2 Structure of Diatoms 3 Frustule 3 Protoplast 13 Biology of Diatoms 16 Reproduction 16 Colony Formation and the Secretion of Mucus 20 Movement of Diatoms 20 Adaptations for Flotation 22 Occurrence and Distribution of Diatoms in the Ocean 22 Associations of Diatoms with Other Organisms 24 Physiology of Diatoms 26 Nutrition 26 Environmental Factors Limiting Phytoplankton Production and Populations 27 Importance of Diatoms as a Source of food in the Sea 29 Collection and Preparation of Diatoms for Examination 29 Preparation for Examination 30 Methods of Illustration 33 Classification 33 Key 34 Centricae 39 Pennatae 172 Literature Cited 209 Plates 223 Index to Genera and Species 235 MARINE PLANKTON DIATOMS OF THE WEST COAST OF NORTH AMERICA BY EASTER E. -
Morphological and Transcriptomic Evidence for Ammonium Induction of Sexual Reproduction in Thalassiosira Pseudonana and Other Centric Diatoms
RESEARCH ARTICLE Morphological and transcriptomic evidence for ammonium induction of sexual reproduction in Thalassiosira pseudonana and other centric diatoms Eric R. Moore1, Briana S. Bullington1, Alexandra J. Weisberg2, Yuan Jiang3, Jeff Chang2, Kimberly H. Halsey1* 1 Department of Microbiology, Oregon State University, Corvallis, Oregon, United States of America, 2 Department of Botany and Plant Pathology, Oregon State University, Corvallis, Oregon, United States of a1111111111 America, 3 Department of Statistics, Oregon State University, Corvallis, Oregon, United States of America a1111111111 a1111111111 * [email protected] a1111111111 a1111111111 Abstract The reproductive strategy of diatoms includes asexual and sexual phases, but in many spe- cies, including the model centric diatom Thalassiosira pseudonana, sexual reproduction has OPEN ACCESS never been observed. Furthermore, the environmental factors that trigger sexual reproduc- Citation: Moore ER, Bullington BS, Weisberg AJ, tion in diatoms are not understood. Although genome sequences of a few diatoms are avail- Jiang Y, Chang J, Halsey KH (2017) Morphological able, little is known about the molecular basis for sexual reproduction. Here we show that and transcriptomic evidence for ammonium induction of sexual reproduction in Thalassiosira ammonium reliably induces the key sexual morphologies, including oogonia, auxospores, pseudonana and other centric diatoms. PLoS ONE and spermatogonia, in two strains of T. pseudonana, T. weissflogii, and Cyclotella cryptica. 12(7): e0181098. https://doi.org/10.1371/journal. RNA sequencing revealed 1,274 genes whose expression patterns changed when T. pseu- pone.0181098 donana was induced into sexual reproduction by ammonium. Some of the induced genes Editor: Douglas A. Campbell, Mount Allison are linked to meiosis or encode flagellar structures of heterokont and cryptophyte algae. -
Dynamics of Late Spring and Summer Phytoplankton Communities on Georges Bank, with Emphasis on Diatoms, Alexandrium Spp., and Other Dinoflagellates
Deep-Sea Research II 103 (2014) 120–138 Contents lists available at ScienceDirect Deep-Sea Research II journal homepage: www.elsevier.com/locate/dsr2 Dynamics of late spring and summer phytoplankton communities on Georges Bank, with emphasis on diatoms, Alexandrium spp., and other dinoflagellates Rachel M. Gettings, David W. Townsend n, Maura A. Thomas, Lee Karp-Boss School of Marine Sciences, University of Maine, Orono, ME, USA article info abstract Available online 18 May 2013 We analyzed the distribution, abundance, and succession patterns of major phytoplankton taxa on Keywords: Georges Bank in relation to hydrography, nutrients, and size-fractionated chlorophyll concentrations 4 μ o μ – Georges Bank ( 20 m; 20 m) on three oceanographic cruises from late spring through summer 2008 (28 April 5 Alexandrium May, 27 May–4 June, and 27 June–3 July). The April–May phytoplankton community was dominated Dinoflagellates numerically by the diatoms Skeletonema spp., Thalassiosira spp., Coscinodiscus spp., and Chaetoceros spp., Diatoms with highest total diatom cell densities exceeding 200,000 cells l−1 on the Northeast Peak. In May–June, Phytoplankton community low nitrate and silicate concentrations over the Bank, along with patches of slightly elevated ammonium, were apparently supporting a predominantly dinoflagellate population; the toxic dinoflagellate Alexan- drium spp. reached 13,000 cells l−1. Diatom cell densities on the second cruise in May–June were less than 60,000 cells l−1 and their spatial distributions did not overlap with the highest cell densities of Alexandrium spp. or other dinoflagellates. On the third and last cruise, in June–July, reduced nitrate and silicate concentrations were accompanied by a shift in the phytoplankton community: Alexandrium spp. -
(Achnanthales) Dos Rios Ivaí, São João E Dos Patos, Bacia Hidrográfica Do Rio Ivaí, Município De Prudentópolis, PR, Brasil
Acta bot. bras. 21(2): 421-441. 2007 Coscinodiscophyceae, Fragilariophyceae e Bacillariophyceae (Achnanthales) dos rios Ivaí, São João e dos Patos, bacia hidrográfica do rio Ivaí, município de Prudentópolis, PR, Brasil Fernanda Ferrari1,2 e Thelma Alvim Veiga Ludwig1 Recebido em 26/09/2005. Aceito em 27/10/2006 RESUMO – (Coscinodiscophyceae, Fragilariophyceae e Bacillariophyceae (Achnanthales) dos rios Ivaí, São João e dos Patos, bacia hidrográfica do rio Ivaí, município de Prudentópolis, PR, Brasil). Realizou-se o levantamento florístico das Coscinodiscophyceae, Fragilariophyceae e Bacillariophyceae (Achnanthales) dos rios Ivaí, São João e dos Patos, pertencentes à bacia hidrográfica do rio Ivaí, município de Prudentópolis, Paraná. Quarenta e uma amostras foram coletadas em março, junho e julho/2002 e janeiro/2003, e analisadas. As coletas fitoplanctônicas foram feitas através de arrasto superficial com rede de plâncton (25 µm) e as perifíticas através da coleta de porções submersas de macrófitas aquáticas, rochas, cascalho, sedimento ou substrato arenoso. Foram identificados, nove táxons pertencentes à classe Coscinodiscophyceae, oito à classe Fragilariophyceae e quinze à ordem Achnanthales (Bacillariophyceae). Thalassiosira weissflogii (Grunow) Fryxell & Hasle, Achnanthidium sp., Planothidium biporomum (Hohn & Hellerman) Lange-Bertalot e Cocconeis placentula var. pseudolineata Geitler consistiram em novas citações para o estado do Paraná. Palavras-chave: Diatomáceas, algas, ecossistemas lóticos, taxonomia, Bacillariophyta ABSTRACT – (Coscinodiscophyceae, Fragilariophyceae and Bacillariophyceae (Achnanthales) of the Ivaí, São João and Patos rivers in the Ivaí basin, Prudentópolis, Paraná State, Brazil). A floristic study of Coscinodiscophyceae, Fragilariophyceae and Bacillariophyceae (Achnanthales) in the Ivaí, São João and Patos rivers from the upper Ivaí river basin, located at Prudentópolis, Paraná State, Brazil is presented. -
Marine Ecology Progress Series 346:75
Vol. 346: 75–88, 2007 MARINE ECOLOGY PROGRESS SERIES Published September 27 doi: 10.3354/meps07026 Mar Ecol Prog Ser OPENPEN ACCESSCCESS Tropical phytoplankton community development in mesocosms inoculated with different life stages Karolina Härnström1,*, Anna Godhe1, V. Saravanan2, Indrani Karunasagar2, Iddya Karunasagar2, Ann-Sofi Rehnstam-Holm3 1Department of Marine Ecology, Marine Botany, Göteborg University, PO Box 461, 405 30 Göteborg, Sweden 2Department of Fishery Microbiology, College of Fisheries, Karnataka Veterinary Animal and Fisheries Sciences University, PO Box 527, Mangalore 575 002, India 3Institution of Mathematics and Natural Sciences, Kristianstad University, 291 88 Kristianstad, Sweden ABSTRACT: Many diatom species have the ability to form benthic resting stages, but the importance of these stages as a supply for planktonic blooms is uncertain. A mesocosm study was carried out in December 2005 to January 2006 in Mangalore, India. Mesocosms were inoculated with various com- binations of benthic and/or planktonic cells, sampled from the coastal SE Arabian Sea, and the devel- opment of the planktonic community was followed. Diatoms dominated the phytoplankton commu- nity in all mesocosms, irrespective of inoculum. The most significant differences among inoculum types were altered species composition, and the timings of the maximum cell abundances, which lagged behind in the sediment mesocosms. Populations of Thalassiosira were initiated by both plank- ton and benthic propagules. Taxa known from temperate coastal areas to seed bloom by benthic propagules, such as Chaetoceros and Skeletonema, were predominantly seeded by planktonic cells in this experiment; this implies differential seeding strategy within the same species at different latitudes. The species assemblage encountered in the plankton and sediment was similar, which indicates that the benthic resting stages seed an autochthonous phytoplankton flora in the area. -
Life in the Oceanic Realms
GENERAL ¨ ARTICLE Life in the Oceanic Realms Chandralata Raghukumar The marine environment includes the nutrient-rich coastal waters, relatively nutrient-poor open oceanic waters, coral reef atolls, metal-rich hydrothermal vent fluids with tem- peratures of 200-350oC, cold-seeps, estuaries, mangrove swamps, intertidal beaches and rocky shores. Oceans are home to some of the most diverse and unique life forms. This Chandralata Raghukumar article is an attempt to introduce some of the fundamentals of is an emeritus scientist at biologicaloceanography andmarine biologyto describe life in the National Institute of the sea. Oceanography, Goa. After obtaining a PhD in plant I’dliketobeunderthesea, pathology, she worked for 5 years on fungal diseases In an octopus’s garden in the shade, of marine algae in the We would be warm below the storm, Institute for Marine In our little hideaway beneath the waves, Research, Bremerhaven, We would be so happy, you and me, Germany. At NIO she worked on algal and coral No one there to tell us what to do. pathology and marine fungal biotechnology. Her May this song by the Beatles be an inspiration to a career in major interests are biological oceanography! The general notion about oceanogra- industrially important phy research revolves around scuba diving, killer whales, sharks, enzymes from marine fungi and physiology of giant octopus and lobsters. But the oceans are much more than deep-sea fungi. these. Oceans are home to some of the most diverse life forms. These vary from whales, several metres long to bacteria smaller than a micron, creatures drab to stunning looking, sedate to constant swimmers, those which eat from anything to everything and those which are choosy about their meals.