Towards a Digital Diatom: Image Processing and Deep Learning Analysis of Bacillaria Paradoxa Dynamic Morphology
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Diatomic Compounds in the Soils of Bee-Farm and Nearby Territories in Samarskaya Oblast
BIO Web of Conferences 27, 00036 (2020) https://doi.org/10.1051/bioconf/20202700036 FIES 2020 Diatomic compounds in the soils of bee-farm and nearby territories in Samarskaya oblast N.Ye. Zemskova1,*, A.I. Fazlutdinova2, V.N. Sattarov2 and L.M. Safiullinа2 1Samara State Agrarian University, Ust-Kinelskiy, Samarskaya oblast, 446442, Russia 2Bashkir State Pedagogical University n.a. M. Akmulla, Ufa, 450008, Russia Abstract. This article sheds light on the role diatomic algae in soils play in the assessment of bee farm and nearby territories in four soil and landscape zones in Samarskaya Oblast. The community of diatomic algae is characterized by low species diversity, of which 23 taxons were found. The most often found species are represented by Hantzschia amphioxys (Ehrenberg) Grunow in Cleve & Grunow and Luticola mutica (Kützing) D.G.Mann in Round et al. The maximum of phyla (18) were found in the buffer (transient) zone; in the wooded steppe zone, 11 species were recorded; in the steppe – 2 species, and in the dry steppe zone no species of diatomic algae were found. The qualitative and quantitative characteristics of diatomic algae communities in various biotopes depend on the natural and climate features of a territory and the degree of the anthropogenic impact on the soil and vegetation, which is proved by the fact that high species wealth signifies that the ecosystem is stable and resilient to the changing conditions in the environment, while poor algal flora is less resilient due to the lower degree of diversity. 1 Introduction Diatomic algae play a special role in habitats with extreme conditions [6, 7]. -
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 -
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. -
Resilience to Temperature and Ph Changes in a Future Climate Change Scenario
Discussion Paper | Discussion Paper | Discussion Paper | Discussion Paper | Biogeosciences Discuss., 12, 4627–4654, 2015 www.biogeosciences-discuss.net/12/4627/2015/ doi:10.5194/bgd-12-4627-2015 BGD © Author(s) 2015. CC Attribution 3.0 License. 12, 4627–4654, 2015 This discussion paper is/has been under review for the journal Biogeosciences (BG). Resilience to Please refer to the corresponding final paper in BG if available. temperature and pH changes in a future Resilience to temperature and pH climate change changes in a future climate change scenario M. Pan£i¢ et al. scenario in six strains of the polar diatom Fragilariopsis cylindrus Title Page Abstract Introduction M. Pan£i¢1,2, P. J. Hansen3, A. Tammilehto1, and N. Lundholm1 Conclusions References 1Natural History Museum of Denmark, University of Copenhagen, Copenhagen K, Denmark Tables Figures 2National Institute of Aquatic Resources, DTU Aqua, Section for Marine Ecology and Oceanography, Technical University of Denmark, Charlottenlund, Denmark 3Marine Biological Section, University of Copenhagen, Helsingør, Denmark J I Received: 12 February 2015 – Accepted: 6 March 2015 – Published: 20 March 2015 J I Correspondence to: M. Pan£i¢ ([email protected]) Back Close Published by Copernicus Publications on behalf of the European Geosciences Union. Full Screen / Esc Printer-friendly Version Interactive Discussion 4627 Discussion Paper | Discussion Paper | Discussion Paper | Discussion Paper | Abstract BGD The effects of ocean acidification and increased temperature on physiology of six strains of the polar diatom Fragilariopsis cylindrus from Greenland were investigated. 12, 4627–4654, 2015 Experiments were performed under manipulated pH levels (8.0, 7.7, 7.4, and 7.1) and ◦ 5 different temperatures (1, 5 and 8 C) to simulate changes from present to plausible Resilience to future levels. -
Benthic and Planktonic Microalgal Community Structure and Primary Productivity in Lower Chesapeake Bay Matthew Reginald Semcheski Old Dominion University
Old Dominion University ODU Digital Commons Biological Sciences Theses & Dissertations Biological Sciences Spring 2014 Benthic and Planktonic Microalgal Community Structure and Primary Productivity in Lower Chesapeake Bay Matthew Reginald Semcheski Old Dominion University Follow this and additional works at: https://digitalcommons.odu.edu/biology_etds Part of the Biology Commons, Ecology and Evolutionary Biology Commons, Environmental Sciences Commons, and the Marine Biology Commons Recommended Citation Semcheski, Matthew R.. "Benthic and Planktonic Microalgal Community Structure and Primary Productivity in Lower Chesapeake Bay" (2014). Doctor of Philosophy (PhD), dissertation, Biological Sciences, Old Dominion University, DOI: 10.25777/j7nz-k382 https://digitalcommons.odu.edu/biology_etds/79 This Dissertation is brought to you for free and open access by the Biological Sciences at ODU Digital Commons. It has been accepted for inclusion in Biological Sciences Theses & Dissertations by an authorized administrator of ODU Digital Commons. For more information, please contact [email protected]. BENTHIC AND PLANKTONIC MICROALGAL COMMUNITY STRUCTURE AND PRIMARY PRODUCTIVITY IN LOWER CHESAPEAKE BAY by Matthew Reginald Semcheski B.S. May 2003, East Stroudsburg University M.S. August 2008, Old Dominion University A Dissertation Submitted to the Faculty of Old Dominion University in Partial Fulfillment of the Requirements for the Degree of DOCTOR OF PHILOSOPHY ECOLOGICAL SCIENCES OLD DOMINION UNIVERSITY MAY 2014 Approved by: Harold G. Marshall Kneeland K. Nesius (Member) John R. McConaugha (Member) ABSTRACT BENTHIC AND PLANKTONIC MICROALGAL COMMUNITY STRUCTURE AND PRIMARY PRODUCTIVITY IN LOWER CHESAPEAKE BAY Matthew Reginald Semcheski Old Dominion University, 2014 Director: Dr. Harold G. Marshall Microalgal populations are trophically important to a variety of micro- and macroheterotrophs in marine and estuarine systems. -
Proceedings of National Seminar on Biodiversity And
BIODIVERSITY AND CONSERVATION OF COASTAL AND MARINE ECOSYSTEMS OF INDIA (2012) --------------------------------------------------------------------------------------------------------------------------------------------------------- Patrons: 1. Hindi VidyaPracharSamiti, Ghatkopar, Mumbai 2. Bombay Natural History Society (BNHS) 3. Association of Teachers in Biological Sciences (ATBS) 4. International Union for Conservation of Nature and Natural Resources (IUCN) 5. Mangroves for the Future (MFF) Advisory Committee for the Conference 1. Dr. S. M. Karmarkar, President, ATBS and Hon. Dir., C B Patel Research Institute, Mumbai 2. Dr. Sharad Chaphekar, Prof. Emeritus, Univ. of Mumbai 3. Dr. Asad Rehmani, Director, BNHS, Mumbi 4. Dr. A. M. Bhagwat, Director, C B Patel Research Centre, Mumbai 5. Dr. Naresh Chandra, Pro-V. C., University of Mumbai 6. Dr. R. S. Hande. Director, BCUD, University of Mumbai 7. Dr. Madhuri Pejaver, Dean, Faculty of Science, University of Mumbai 8. Dr. Vinay Deshmukh, Sr. Scientist, CMFRI, Mumbai 9. Dr. Vinayak Dalvie, Chairman, BoS in Zoology, University of Mumbai 10. Dr. Sasikumar Menon, Dy. Dir., Therapeutic Drug Monitoring Centre, Mumbai 11. Dr, Sanjay Deshmukh, Head, Dept. of Life Sciences, University of Mumbai 12. Dr. S. T. Ingale, Vice-Principal, R. J. College, Ghatkopar 13. Dr. Rekha Vartak, Head, Biology Cell, HBCSE, Mumbai 14. Dr. S. S. Barve, Head, Dept. of Botany, Vaze College, Mumbai 15. Dr. Satish Bhalerao, Head, Dept. of Botany, Wilson College Organizing Committee 1. Convenor- Dr. Usha Mukundan, Principal, R. J. College 2. Co-convenor- Deepak Apte, Dy. Director, BNHS 3. Organizing Secretary- Dr. Purushottam Kale, Head, Dept. of Zoology, R. J. College 4. Treasurer- Prof. Pravin Nayak 5. Members- Dr. S. T. Ingale Dr. Himanshu Dawda Dr. Mrinalini Date Dr. -
UC San Diego UC San Diego Previously Published Works
UC San Diego UC San Diego Previously Published Works Title Diversity of the diatom genus Fragilariopsis in the Argentine Sea and Antarctic waters: morphology, distribution and abundance Permalink https://escholarship.org/uc/item/5p2517zr Journal Polar Biology, 33(11) ISSN 1432-2056 Authors Cefarelli, Adrián O. Ferrario, Martha E. Almandoz, Gastón O. et al. Publication Date 2010-11-01 DOI 10.1007/s00300-010-0794-z Peer reviewed eScholarship.org Powered by the California Digital Library University of California Polar Biol (2010) 33:1463–1484 DOI 10.1007/s00300-010-0794-z ORIGINAL PAPER Diversity of the diatom genus Fragilariopsis in the Argentine Sea and Antarctic waters: morphology, distribution and abundance Adria´n O. Cefarelli • Martha E. Ferrario • Gasto´n O. Almandoz • Adria´n G. Atencio • Rut Akselman • Marı´a Vernet Received: 9 October 2009 / Revised: 2 March 2010 / Accepted: 12 March 2010 / Published online: 16 October 2010 Ó The Author(s) 2010. This article is published with open access at Springerlink.com Abstract Fragilariopsis species composition and abun- Drake Passage and twelve in the Weddell Sea. F. curta, dance from the Argentine Sea and Antarctic waters were F. kerguelensis, F. pseudonana and F. rhombica were analyzed using light and electron microscopy. Twelve present everywhere. species (F. curta, F. cylindrus, F. kerguelensis, F. nana, F. obliquecostata, F. peragallii, F. pseudonana, F. rhombica, Keywords Phytoplankton Á Diatom Á Fragilariopsis Á F. ritscheri, F. separanda, F. sublinearis and F. vanheurckii) Antarctica Á Argentine Sea are described and compared with samples from the Frengu- elli Collection, Museo de La Plata, Argentina. F. peragallii was examined for the first time using electron microscopy, Introduction and F. -
Holocene) Diatoms (Bacillariophyta
U.S. DEPARTMENT OF THE INTERIOR U.S. GEOLOGICAL SURVEY Taxonomy of recent and fossil (Holocene) diatoms (Bacillariophyta) from northern Willapa Bay, Washington by Eileen Hemphill-Haley1 OPEN-FILE REPORT 93-289 This report is preliminary and has not been reviewed for conformity with Geological Survey editorial standards or with the North American Stratigraphic Code. Any use of trade, product, or firm names is for descriptive purposes only and does not imply endorsement by the U.S. Government. 1. Menlo Park, CA 94025 TABLE OF CONTENTS ABSTRACT........................................................................................................................! INTRODUCTION..............................................................................................................^ Background for the Study .......................................................................................1 Related Studies......................................................................................................2 METHODS........................................................................................................................^ FLORAL LIST.....................................................................................................................4 ACKNOWLEDGMENTS......................................................................................................120 REFERENCES...................................................................................................................121 FIGURES Figure 1. Sample -
Taxonomy and Diversity of a Little-Known Diatom Genus Simonsenia (Bacillariaceae) in the Marine Littoral: Novel Taxa from the Yellow Sea and the Gulf of Mexico
Plant Ecology and Evolution 152 (2): 248–261, 2019 https://doi.org/10.5091/plecevo.2019.1614 REGULAR PAPER Taxonomy and diversity of a little-known diatom genus Simonsenia (Bacillariaceae) in the marine littoral: novel taxa from the Yellow Sea and the Gulf of Mexico Byoung-Seok Kim1,8,*, Andrzej Witkowski2,8, Jong-Gyu Park3, Chunlian Li4,2, Rosa Trobajo5, David G. Mann5,6, So-Yeon Kim1, Matt Ashworth7, Małgorzata Bąk2 & Romain Gastineau2 1Department of Oceanography, College of Ocean Science and Engineering, Kunsan National University, Gunsan 54150, Republic of Korea 2Palaeoceanology Unit, Faculty of Geosciences, Natural Sciences Education and Research Centre, University of Szczecin, Mickiewicza 16a, 70-383 Szczecin, Poland 3Department of Marine Life and Applied Sciences, College of Ocean Science and Engineering, Kunsan National University, Gunsan 54150, Republic of Korea 4Institute of Ecological Sciences, School of Life Sciences, South China Normal University, Guangzhou 510631, China 5Institute of Agriculture and Food Research and Technology (IRTA), Sant Carles de la Ràpita, E-43540, Spain 6Royal Botanic Garden Edinburgh, Edinburgh EH3 5LR, Scotland, UK 7UTEX Culture Collection of Algae, Department of Molecular Biosciences, University of Texas at Austin, 205 W. 24th St. MS C0930 Austin, Texas 78712, United States 8Both authors contributed equally to this work *Author for correspondence: [email protected] Background and aims – The diatom genus Simonsenia has been considered for some time a minor taxon, limited in its distribution to fresh and slightly brackish waters. Recently, knowledge of its diversity and geographic distribution has been enhanced with new species described from brackish-marine waters of the southern Iberian Peninsula and from inland freshwaters of South China, and here we report novel Simonsenia from fully marine waters. -
Phylogeny of the Bacillariaceae with Emphasis on the Genus Pseudo-Nitzschia (Bacillariophyceae) Based on Partial LSU Rdna
Eur. J. Phycol. (2002), 37: 115–134. # 2002 British Phycological Society 115 DOI: 10.1017\S096702620100347X Printed in the United Kingdom Phylogeny of the Bacillariaceae with emphasis on the genus Pseudo-nitzschia (Bacillariophyceae) based on partial LSU rDNA NINA LUNDHOLM, NIELS DAUGBJERG AND ØJVIND MOESTRUP Department of Phycology, Botanical Institute, University of Copenhagen, Øster Farimagsgade 2D, 1353 Copenhagen K, Denmark (Received 10 July 2001; accepted 18 October 2001) In order to elucidate the phylogeny and evolutionary history of the Bacillariaceae we conducted a phylogenetic analysis of 42 species (sequences were determined from more than two strains of many of the Pseudo-nitzschia species) based on the first 872 base pairs of nuclear-encoded large subunit (LSU) rDNA, which include some of the most variable domains. Four araphid genera were used as the outgroup in maximum likelihood, parsimony and distance analyses. The phylogenetic inferences revealed the Bacillariaceae as monophyletic (bootstrap support ! 90%). A clade comprising Pseudo-nitzschia, Fragilariopsis and Nitzschia americana (clade A) was supported by high bootstrap values (! 94%) and agreed with the morphological features revealed by electron microscopy. Data for 29 taxa indicate a subdivision of clade A, one clade comprising Pseudo-nitzschia species, a second clade consisting of Pseudo-nitzschia species and Nitzschia americana, and a third clade comprising Fragilariopsis species. Pseudo-nitzschia as presently defined is paraphyletic and emendation of the genus is probably needed. The analyses suggested that Nitzschia is not monophyletic, as expected from the great morphological diversity within the genus. A cluster characterized by possession of detailed ornamentation on the frustule is indicated. Eighteen taxa (16 within the Bacillariaceae) were tested for production of domoic acid, a neurotoxic amino acid. -
Exploring Species Boundaries in the Diatom Genus Rhoicosphenia Using Morphology, Phylogeny, Ecology, and Biogeography Evan William Thomas
University of Colorado, Boulder CU Scholar Ecology & Evolutionary Biology Graduate Theses & Ecology & Evolutionary Biology Dissertations Spring 1-1-2016 Exploring Species Boundaries in the Diatom Genus Rhoicosphenia Using Morphology, Phylogeny, Ecology, and Biogeography Evan William Thomas Follow this and additional works at: http://scholar.colorado.edu/ebio_gradetds Part of the Ecology and Evolutionary Biology Commons, Environmental Microbiology and Microbial Ecology Commons, Molecular Biology Commons, and the Systems Biology Commons This Dissertation is brought to you for free and open access by Ecology & Evolutionary Biology at CU Scholar. It has been accepted for inclusion in Ecology & Evolutionary Biology Graduate Theses & Dissertations by an authorized administrator of CU Scholar. For more information, please contact [email protected]. i EXPLORING SPECIES BOUNDARIES IN THE DIATOM GENUS RHOICOSPHENIA USING MORPHOLOGY, PHYLOGENY, ECOLOGY, AND BIOGEOGRAPHY by EVAN WILLIAM THOMAS B.A., University of Michigan, 2005 M.S., Bowling Green State University, 2007 A thesis submitted to the Faculty of the Graduate School of the University of Colorado in partial fulfillment of the requirement for the degree of Doctor of Philosophy Department of Ecology and Evolutionary Biology 2016 ii This thesis entitled: Exploring species boundaries in the diatom genus Rhoicosphenia using morphology, phylogeny, ecology, and biogeography written by Evan William Thomas has been approved for the Department of Ecology and Evolutionary Biology ––––––––––––––––––––––––––––––––––– -
FRAGILARIOPSIS CYLINDRUS and ITS POTENTIAL AS an INDICATOR SPECIES for COLD WATER RATHER THAN for SEA ICE Cecilie Von Quillfeldt
THE DIATOM FRAGILARIOPSIS CYLINDRUS AND ITS POTENTIAL AS AN INDICATOR SPECIES FOR COLD WATER RATHER THAN FOR SEA ICE Cecilie von Quillfeldt To cite this version: Cecilie von Quillfeldt. THE DIATOM FRAGILARIOPSIS CYLINDRUS AND ITS POTENTIAL AS AN INDICATOR SPECIES FOR COLD WATER RATHER THAN FOR SEA ICE. Vie et Milieu / Life & Environment, Observatoire Océanologique - Laboratoire Arago, 2004, pp.137-143. hal- 03218115 HAL Id: hal-03218115 https://hal.sorbonne-universite.fr/hal-03218115 Submitted on 5 May 2021 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. FRAGILARIOPSIS CYLINDRUS AS INDICATOR FOR COLD WATER C. H. von QUILLFELDT VIE MILIEU, 2004, 54 (2-3) : 137-143 THE DIATOM FRAGILARIOPSIS CYLINDRUS AND ITS POTENTIAL AS AN INDICATOR SPECIES FOR COLD WATER RATHER THAN FOR SEA ICE CECILIE H. von QUILLFELDT Norwegian Polar Institute, The Polar Environmental Centre, 9296 Tromsø, Norway [email protected] FRAGILARIOPSIS CYLINDRUS ABSTRACT. – The importance of the diatom Fragilariopsis cylindrus (Grunow) DIATOM Krieger in Helmcke & Krieger in the Arctic and Antarctic is well known. It is used INDICATOR as an indicator of sea ice when the paleoenvironment is being described. It is often PHYTOPLANKTON SEA ICE among the dominant taxa in different sea ice communities, sometimes making an COLD WATER important contribution to a subsequent phytoplankton growth when released by ice ARCTIC melt.