Mediophyceae Diatoms in Bilbao Estuary
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First Record of Benthic Diatoms
Available online at www.sciencedirect.com Revista Mexicana de Biodiversidad Revista Mexicana de Biodiversidad 86 (2015) 281–292 www.ib.unam.mx/revista/ Taxonomy and systematics First record of benthic diatoms (Bacillariophyceae and Fragilariophyceae) from Isla Guadalupe, Baja California, Mexico Primer registro de diatomeas bentónicas (Bacillariophyceae y Fragilariophyceae) de isla Guadalupe, Baja California, México Francisco Omar López-Fuerte a, David A. Siqueiros-Beltrones b,∗, Ricardo Yabur c a Laboratorio de Sistemas Arrecifales, Departamento Académico de Economía, Universidad Autónoma de Baja California Sur, Carretera al Sur, Km. 5.5, 23080 La Paz, B.C.S., Mexico b Departamento de Plancton y Ecología Marina, Centro Interdisciplinario de Ciencias Marinas, Intituto Politécnico Nacional, Av. Instituto Politécnico Nacional s/n, Col. Playa Palo de Santa Rita, 23096 La Paz, B.C.S., Mexico c Departamento Académico de Biología Marina, Universidad Autónoma de Baja California Sur, Carretera al Sur, Km. 5.5, 23080 La Paz, B.C.S., Mexico Received 13 June 2014; accepted 3 December 2014 Available online 26 May 2015 Abstract Guadalupe Island represents a unique ecosystem. Its volcanic origin and remoteness from the Baja California peninsula have allowed for the successful establishment of its distinctive flora and fauna. However, the difficulty in accessing the island has precluded the study of its biotic communities, mainly the marine ones. Consequently, no studies on benthic or planktonic diatoms have been hitherto published. Thus, the first records of marine benthic diatom species (epiphytic, epilithic, epizoic) from Guadalupe Island in the NW Mexican Pacific are here provided. One hundred and nineteen diatom taxa belonging to the Bacillariophyceae and Fragilariophyceae were identified, including species and varieties. -
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. -
Diversity in the Genus Skeletonema (Bacillariophyceae). Ii. an Assessment of the Taxonomy of S. Costatum-Like Species with the Description of Four New Species1
J. Phycol. 41, 151–176 (2005) r 2005 Phycological Society of America DOI: 10.1111/j.1529-8817.2005.04067.x DIVERSITY IN THE GENUS SKELETONEMA (BACILLARIOPHYCEAE). II. AN ASSESSMENT OF THE TAXONOMY OF S. COSTATUM-LIKE SPECIES WITH THE DESCRIPTION OF FOUR NEW SPECIES1 Diana Sarno,2 Wiebe H. C. F. Kooistra Stazione Zoologica ‘‘Anthon Dohrn,’’ Villa Comunale, 80121 Naples, Italy Linda K. Medlin Alfred Wegener Institute, Am Handelshafen 12, D-27570 Bremerhaven, Germany Isabella Percopo and Adriana Zingone Stazione Zoologica ‘‘Anthon Dohrn,’’ Villa Comunale, 80121 Naples, Italy The morphology of strains of Skeletonema Grev- Abbreviations: AIC, Akaike information criterion; ille emend Sarno et Zingone was examined in LM, CCAP, Culture Collection of Algae and Protozoa; TEM, and SEM and compared with sequence data CCMP, The Provasoli-Guillard National Center for from nuclear small subunit rDNA and partial large Cultures of Marine Phytoplankton; FP,fultoportula; subunit rDNA. Eight distinct entities were identi- FPP, fultoportula process; hLRTs, hierarchical like- fied, of which four were known: S. menzelii Guillard, lihood ratio tests; IFPP, intercalary fultoportula Carpenter et Reimann; S. pseudocostatum Medlin process; IRP, intercalary rimoportula; IRPP, inter- emend. Zingone et Sarno; S. subsalsum (Cleve) Bet- calary rimoportula process; LSU, large subunit; hge; and S. tropicum Cleve. The other four species ML, maximum likelihood; MP, maximum parsimo- were new: S. dohrnii Sarno et Kooistra sp. nov., S. ny; RP, rimoportula; RPP, rimoportula process; grethae Zingone et Sarno sp. nov., S. japonicum Zin- SSU, small subunit; SZN, Stazione Zoologica ‘‘A. gone et Sarno sp. nov., and S. marinoi Sarno et Zin- Dohrn’’ of Naples; TFP, terminal fultoportula; gone sp. -
Community Composition of the Morphologically Cryptic Diatom Genus Skeletonema in Narragansett Bay
University of Rhode Island DigitalCommons@URI Open Access Master's Theses 2015 COMMUNITY COMPOSITION OF THE MORPHOLOGICALLY CRYPTIC DIATOM GENUS SKELETONEMA IN NARRAGANSETT BAY Kelly Canesi University of Rhode Island, [email protected] Follow this and additional works at: https://digitalcommons.uri.edu/theses Recommended Citation Canesi, Kelly, "COMMUNITY COMPOSITION OF THE MORPHOLOGICALLY CRYPTIC DIATOM GENUS SKELETONEMA IN NARRAGANSETT BAY" (2015). Open Access Master's Theses. Paper 549. https://digitalcommons.uri.edu/theses/549 This Thesis is brought to you for free and open access by DigitalCommons@URI. It has been accepted for inclusion in Open Access Master's Theses by an authorized administrator of DigitalCommons@URI. For more information, please contact [email protected]. COMMUNITY COMPOSITION OF THE MORPHOLOGICALLY CRYPTIC DIATOM GENUS SKELETONEMA IN NARRAGANSETT BAY BY KELLY CANESI A THESIS SUBMITTED IN PARTIAL FULFILLMENT OF THE REQUIREMENTS FOR THE DEGREE OF MASTER OF SCIENCE IN OCEANOGRAPHY UNIVERSITY OF RHODE ISLAND 2015 MASTER OF SCIENCE THESIS OF KELLY CANESI APPROVED: Thesis Committee: Major Professor: Tatiana Rynearson Candace Oviatt Christopher Lane Nasser H. Zawia DEAN OF THE GRADUATE SCHOOL UNIVERSITY OF RHODE ISLAND 2015 ABSTRACT It is well known that morphologically cryptic species are routinely present in planktonic communities but their role in important ecological and biogeochemical processes is poorly understood. I investigated the presence of cryptic species in the genus Skeletonema, an important bloom-forming diatom, using high-throughput genetic sequencing and examined the ecological dynamics of communities relative to environmental conditions. Samples were obtained from the Narragansett Bay Long-Term Plankton Time Series, where Skeletonema spp. -
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. -
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 -
Biology and Systematics of Heterokont and Haptophyte Algae1
American Journal of Botany 91(10): 1508±1522. 2004. BIOLOGY AND SYSTEMATICS OF HETEROKONT AND HAPTOPHYTE ALGAE1 ROBERT A. ANDERSEN Bigelow Laboratory for Ocean Sciences, P.O. Box 475, West Boothbay Harbor, Maine 04575 USA In this paper, I review what is currently known of phylogenetic relationships of heterokont and haptophyte algae. Heterokont algae are a monophyletic group that is classi®ed into 17 classes and represents a diverse group of marine, freshwater, and terrestrial algae. Classes are distinguished by morphology, chloroplast pigments, ultrastructural features, and gene sequence data. Electron microscopy and molecular biology have contributed signi®cantly to our understanding of their evolutionary relationships, but even today class relationships are poorly understood. Haptophyte algae are a second monophyletic group that consists of two classes of predominately marine phytoplankton. The closest relatives of the haptophytes are currently unknown, but recent evidence indicates they may be part of a large assemblage (chromalveolates) that includes heterokont algae and other stramenopiles, alveolates, and cryptophytes. Heter- okont and haptophyte algae are important primary producers in aquatic habitats, and they are probably the primary carbon source for petroleum products (crude oil, natural gas). Key words: chromalveolate; chromist; chromophyte; ¯agella; phylogeny; stramenopile; tree of life. Heterokont algae are a monophyletic group that includes all (Phaeophyceae) by Linnaeus (1753), and shortly thereafter, photosynthetic organisms with tripartite tubular hairs on the microscopic chrysophytes (currently 5 Oikomonas, Anthophy- mature ¯agellum (discussed later; also see Wetherbee et al., sa) were described by MuÈller (1773, 1786). The history of 1988, for de®nitions of mature and immature ¯agella), as well heterokont algae was recently discussed in detail (Andersen, as some nonphotosynthetic relatives and some that have sec- 2004), and four distinct periods were identi®ed. -
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. -
Manual for Phytoplankton Sampling and Analysis in the Black Sea
Manual for Phytoplankton Sampling and Analysis in the Black Sea Dr. Snejana Moncheva Dr. Bill Parr Institute of Oceanology, Bulgarian UNDP-GEF Black Sea Ecosystem Academy of Sciences, Recovery Project Varna, 9000, Dolmabahce Sarayi, II. Hareket P.O.Box 152 Kosku 80680 Besiktas, Bulgaria Istanbul - TURKEY Updated June 2010 2 Table of Contents 1. INTRODUCTION........................................................................................................ 5 1.1 Basic documents used............................................................................................... 1.2 Phytoplankton – definition and rationale .............................................................. 1.3 The main objectives of phytoplankton community analysis ........................... 1.4 Phytoplankton communities in the Black Sea ..................................................... 2. SAMPLING ................................................................................................................. 9 2.1 Site selection................................................................................................................. 2.2 Depth ............................................................................................................................... 2.3 Frequency and seasonality ....................................................................................... 2.4 Algal Blooms................................................................................................................. 2.4.1 Phytoplankton bloom detection -
Insights Into Global Planktonic Diatom Diversity: Comparisons Between Phylogenetically Meaningful Units That Account for Time
bioRxiv preprint doi: https://doi.org/10.1101/167809; this version posted July 24, 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-ND 4.0 International license. Insights into global planktonic diatom diversity: Comparisons between phylogenetically meaningful units that account for time Teofil Nakov, Jeremy M. Beaulieu, and Andrew J. Alverson Department of Biological Sciences University of Arkansas 1 University of Arkansas, SCEN 601 Fayetteville, AR 72701 Abstract Metabarcoding has offered unprecedented insights into microbial diversity. In many studies, short DNA sequences are binned into consecutively higher Linnaean ranks, and ranked groups (e.g., genera) are the units of biodiver- sity analyses. These analyses assume that Linnaean ranks are biologically meaningful and that identically ranked groups are comparable. We used a meta-barcode dataset for marine planktonic diatoms to illustrate the limits of this approach. We found that the 20 most abundant marine planktonic diatom genera ranged in age from 4 to 134 million years, indicating the non- equivalence of genera because some had more time to diversify than others. Still, species richness was only weakly correlated with genus age, highlighting variation in rates of speciation and/or extinction. Taxonomic classifications often do not reflect phylogeny, so genus-level analyses can include phylogenet- ically nested genera, further confounding rank-based analyses. These results underscore the indispensable role of phylogeny in understanding patterns of microbial diversity. Keywords: diversification, metabarcoding, microbes, phylogeny Preprint submitted to Bioarxiv July 24, 2017 bioRxiv preprint doi: https://doi.org/10.1101/167809; this version posted July 24, 2017. -
Dynamics of Phytoplankton Communities in Eutrophying Tropical Shrimp Ponds Affected by Vibriosis
1 Marine Pollution Bulletin Achimer September 2016, Volume 110, Issue 1, Pages 449-459 http://dx.doi.org/10.1016/j.marpolbul.2016.06.015 http://archimer.ifremer.fr http://archimer.ifremer.fr/doc/00343/45411/ © 2016 Elsevier Ltd. All rights reserved. Dynamics of phytoplankton communities in eutrophying tropical shrimp ponds affected by vibriosis Lemonnier Hugues 1, *, Lantoine François 2, Courties Claude 2, Guillebault Delphine 2, 3, Nézan Elisabeth 4, Chomérat Nicolas 4, Escoubeyrou Karine 5, Galinié Christian 6, Blockmans Bernard 6, Laugier Thierry 1 1 IFREMER LEAD, BP 2059, 98846 Nouméa cedex, New Caledonia, France 2 Sorbonne Universités, UPMC Univ Paris 06, UMR 8222, LECOB, Observatoire Océanologique, F- 66650 Banyuls/mer, France 3 Microbia Environnement, Observatoire Océanologique de Banyuls, 66650 Banyuls-sur mer, France 4 IFREMER, LER BO, Station de Biologie Marine, Place de la Croix, BP 40537, 29185 Concarneau Cedex, France 5 Sorbonne Universités, UPMC Univ Paris 06, CNRS, Plate-forme Bio2Mar, Observatoire Océanologique, F-66650 Banyuls/Mer, France 6 GFA, Groupement des Fermes Aquacoles, ORPHELINAT, 1 rue Dame Lechanteur, 98800 Nouméa cedex, New Caledonia, France * Corresponding author : Hugues Lemonnier, email address : [email protected] Abstract : Tropical shrimp aquaculture systems in New Caledonia regularly face major crises resulting from outbreaks of Vibrio infections. Ponds are highly dynamic and challenging environments and display a wide range of trophic conditions. In farms affected by vibriosis, phytoplankton biomass and composition are highly variable. These conditions may promote the development of harmful algae increasing shrimp susceptibility to bacterial infections. Phytoplankton compartment before and during mortality outbreaks was monitored at a shrimp farm that has been regularly and highly impacted by these diseases.