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Pliocene-Pleistocene Calcareous Nannofossil Biostratigraphy of Iodp
Florida State University Libraries Electronic Theses, Treatises and Dissertations The Graduate School 2013 Pliocene-Pleistocene Calcareous Nannofossil Biostratigraphy of IODP Hole 1396C Adjacent to Montserrat Island in the Lesser Antilles, Caribbean Sea, Plus Experimentally Induced Diagenesis Mohammed H. Aljahdali Follow this and additional works at the FSU Digital Library. For more information, please contact [email protected] THE FLORIDA STATE UNIVERSITY COLLEGE OF ARTS AND SCIENCES PLIOCENE-PLEISTOCENE CALCAREOUS NANNOFOSSIL BIOSTRATIGRAPHY OF IODP HOLE 1396C ADJACENT TO MONTSERRAT ISLAND IN THE LESSER ANTILLES, CARIBBEAN SEA, PLUS EXPERIMENTALLY INDUCED DIAGENESIS By MOHAMMED H. ALJAHDALI A Thesis submitted to the Department of Earth, Ocean and Atmospheric Sciences in partial fulfillment of the requirements for the Degree of Master of Science Degree Awarded: Spring Semester 2013 Mohammed H. Aljahdali defended this thesis on March 27, 2013. The members of the supervisory committee were: Sherwood W. Wise, Jr. Professor Directing Thesis Yang Wang Committee Member William Parker Committee Member The Graduate School has verified and approved the above-named committee members, and certifies that this thesis has been approved in accordance with university requirements. ii Dedicated To my family whose support has made this project possible. iii ACKNOWLEDGMENTS First of all, I would like to thank and express my gratitude to my major advisor Professor Sherwood “Woody” Wise for his encouragement and suggestion that made this work valuable. Woody introduced me to the Nannofossil micropaleontology field back in 2010 when I was looking for an advisor to work within the foraminifera field. I took classes in his lab with almost no idea about what nannofossils were. -
An Introduction to Phytoplanktons: Diversity and Ecology an Introduction to Phytoplanktons: Diversity and Ecology
Ruma Pal · Avik Kumar Choudhury An Introduction to Phytoplanktons: Diversity and Ecology An Introduction to Phytoplanktons: Diversity and Ecology Ruma Pal • Avik Kumar Choudhury An Introduction to Phytoplanktons: Diversity and Ecology Ruma Pal Avik Kumar Choudhury Department of Botany University of Calcutta Kolkata , West Bengal , India ISBN 978-81-322-1837-1 ISBN 978-81-322-1838-8 (eBook) DOI 10.1007/978-81-322-1838-8 Springer New Delhi Heidelberg New York Dordrecht London Library of Congress Control Number: 2014939609 © Springer India 2014 This work is subject to copyright. All rights are reserved by the Publisher, whether the whole or part of the material is concerned, specifi cally the rights of translation, reprinting, reuse of illustrations, recitation, broadcasting, reproduction on microfi lms or in any other physical way, and transmission or information storage and retrieval, electronic adaptation, computer software, or by similar or dissimilar methodology now known or hereafter developed. Exempted from this legal reservation are brief excerpts in connection with reviews or scholarly analysis or material supplied specifi cally for the purpose of being entered and executed on a computer system, for exclusive use by the purchaser of the work. Duplication of this publication or parts thereof is permitted only under the provisions of the Copyright Law of the Publisher’s location, in its current version, and permission for use must always be obtained from Springer. Permissions for use may be obtained through RightsLink at the Copyright Clearance Center. Violations are liable to prosecution under the respective Copyright Law. The use of general descriptive names, registered names, trademarks, service marks, etc. -
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. -
Coccolithophore Distribution in the Mediterranean Sea and Relate A
Discussion Paper | Discussion Paper | Discussion Paper | Discussion Paper | Ocean Sci. Discuss., 11, 613–653, 2014 Open Access www.ocean-sci-discuss.net/11/613/2014/ Ocean Science OSD doi:10.5194/osd-11-613-2014 Discussions © Author(s) 2014. CC Attribution 3.0 License. 11, 613–653, 2014 This discussion paper is/has been under review for the journal Ocean Science (OS). Coccolithophore Please refer to the corresponding final paper in OS if available. distribution in the Mediterranean Sea Is coccolithophore distribution in the A. M. Oviedo et al. Mediterranean Sea related to seawater carbonate chemistry? Title Page Abstract Introduction A. M. Oviedo1, P. Ziveri1,2, M. Álvarez3, and T. Tanhua4 Conclusions References 1Institute of Environmental Science and Technology (ICTA), Universitat Autonoma de Barcelona (UAB), 08193 Bellaterra, Spain Tables Figures 2Earth & Climate Cluster, Department of Earth Sciences, FALW, Vrije Universiteit Amsterdam, FALW, HV1081 Amsterdam, the Netherlands J I 3IEO – Instituto Espanol de Oceanografia, Apd. 130, A Coruna, 15001, Spain 4GEOMAR Helmholtz-Zentrum für Ozeanforschung Kiel, Marine Biogeochemistry, J I Duesternbrooker Weg 20, 24105 Kiel, Germany Back Close Received: 31 December 2013 – Accepted: 15 January 2014 – Published: 20 February 2014 Full Screen / Esc Correspondence to: A. M. Oviedo ([email protected]) Published by Copernicus Publications on behalf of the European Geosciences Union. Printer-friendly Version Interactive Discussion 613 Discussion Paper | Discussion Paper | Discussion Paper | Discussion Paper | Abstract OSD The Mediterranean Sea is considered a “hot-spot” for climate change, being char- acterized by oligotrophic to ultra-oligotrophic waters and rapidly changing carbonate 11, 613–653, 2014 chemistry. Coccolithophores are considered a dominant phytoplankton group in these 5 waters. -
Vidakovic Et Al Distribution of Invasive Species Actinocyclus Normanii
DOI: 10.17110/StudBot.2016.47.2.201 Studia bot. hung. 47(2), pp. 201–212, 2016 DISTRIBUTION OF INVASIVE SPECIES ACTINOCYCLUS NORMANII (HEMIDISCACEAE, BACILLARIOPHYTA) IN SERBIA Danijela Vidaković1*, Jelena Krizmanić1, Gordana Subakov-Simić1 and Vesna Karadžić2 1University of Belgrade, Faculty of Biology, Institute of Botany and Botanical Garden “Jevremovac”, Takovska 43, 11000 Belgrade, Serbia; *[email protected] 2Institute of Public Health of Serbia “Dr Milan Jovanović Batut”, 11000 Belgrade, Serbia Vidaković, D., Krizmanić, J., Subakov-Simić, G. & Karadžić, V. (2016): Distribution of invasive species Actinocyclus normanii (Hemidiscaceae, Bacillariophyta) in Serbia. – Studia bot. hung. 47(2): 201–212. Abstract: In Serbia Actinocyclus normanii was registered in several rivers and canals. In 1997, it was found as planktonic species in the Tisza River and in benthic samples (in mud) in the Veliki Bački Canal. In 2002, it was found as planktonic species in the Danube–Tisza–Danube Canal (Kajtaso- vo) and the Ponjavica River (Brestovac and Omoljica). Four years later, in 2006, the species was found in plankton, benthos and epiphytic samples in the Ponjavica River (Omoljica). A. normanii is a cosmopolite, alkalibiontic and halophytic species. It occurs in waters with moderate to high conductivity and it is indicator of eutrophied, polluted waters. Its spread could be explained by eutrophication of surface waters. Key words: Actinocyclus normanii, distribution, invasive species, Serbia INTRODUCTION An invasive species is a non-native species to a new area, whose introduction has a tendency to spread and cause extinction of native species and is believed to cause economic or environmental harm or harm to human, animal, or plant health. -
Mannitol Biosynthesis in Algae : More Widespread and Diverse Than Previously Thought
This is a repository copy of Mannitol biosynthesis in algae : more widespread and diverse than previously thought. White Rose Research Online URL for this paper: https://eprints.whiterose.ac.uk/113250/ Version: Accepted Version Article: Tonon, Thierry orcid.org/0000-0002-1454-6018, McQueen Mason, Simon John orcid.org/0000-0002-6781-4768 and Li, Yi (2017) Mannitol biosynthesis in algae : more widespread and diverse than previously thought. New Phytologist. pp. 1573-1579. ISSN 1469-8137 https://doi.org/10.1111/nph.14358 Reuse Items deposited in White Rose Research Online are protected by copyright, with all rights reserved unless indicated otherwise. They may be downloaded and/or printed for private study, or other acts as permitted by national copyright laws. The publisher or other rights holders may allow further reproduction and re-use of the full text version. This is indicated by the licence information on the White Rose Research Online record for the item. Takedown If you consider content in White Rose Research Online to be in breach of UK law, please notify us by emailing [email protected] including the URL of the record and the reason for the withdrawal request. [email protected] https://eprints.whiterose.ac.uk/ 1 Mannitol biosynthesis in algae: more widespread and diverse than previously thought. Thierry Tonon1,*, Yi Li1 and Simon McQueen-Mason1 1 Department of Biology, Centre for Novel Agricultural Products, University of York, Heslington, York, YO10 5DD, UK. * Author for correspondence: tel +44 1904328785; email [email protected] Key words: Algae, primary metabolism, mannitol biosynthesis, mannitol-1-phosphate dehydrogenase, mannitol-1-phosphatase, haloacid dehalogenase, histidine phosphatase, evolution of metabolic pathways. -
Lateral Gene Transfer of Anion-Conducting Channelrhodopsins Between Green Algae and Giant Viruses
bioRxiv preprint doi: https://doi.org/10.1101/2020.04.15.042127; this version posted April 23, 2020. 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. 1 5 Lateral gene transfer of anion-conducting channelrhodopsins between green algae and giant viruses Andrey Rozenberg 1,5, Johannes Oppermann 2,5, Jonas Wietek 2,3, Rodrigo Gaston Fernandez Lahore 2, Ruth-Anne Sandaa 4, Gunnar Bratbak 4, Peter Hegemann 2,6, and Oded 10 Béjà 1,6 1Faculty of Biology, Technion - Israel Institute of Technology, Haifa 32000, Israel. 2Institute for Biology, Experimental Biophysics, Humboldt-Universität zu Berlin, Invalidenstraße 42, Berlin 10115, Germany. 3Present address: Department of Neurobiology, Weizmann 15 Institute of Science, Rehovot 7610001, Israel. 4Department of Biological Sciences, University of Bergen, N-5020 Bergen, Norway. 5These authors contributed equally: Andrey Rozenberg, Johannes Oppermann. 6These authors jointly supervised this work: Peter Hegemann, Oded Béjà. e-mail: [email protected] ; [email protected] 20 ABSTRACT Channelrhodopsins (ChRs) are algal light-gated ion channels widely used as optogenetic tools for manipulating neuronal activity 1,2. Four ChR families are currently known. Green algal 3–5 and cryptophyte 6 cation-conducting ChRs (CCRs), cryptophyte anion-conducting ChRs (ACRs) 7, and the MerMAID ChRs 8. Here we 25 report the discovery of a new family of phylogenetically distinct ChRs encoded by marine giant viruses and acquired from their unicellular green algal prasinophyte hosts. -
Ordem Surirellales (Bacillariophyceae) No Estado De São Paulo: Levantamento Florístico
Krysna Stephanny de Morais Ferreira Ordem Surirellales (Bacillariophyceae) no Estado de São Paulo: levantamento florístico Dissertação apresentada ao Instituto de Botânica da Secretaria do Meio Ambiente do Estado de São Paulo como parte dos requisitos para obtenção do título de MESTRE em BIODIVERSIDADE VEGETAL E MEIO AMBIENTE, Área de Concentração Plantas Avasculares em Análises Ambientais. SÃO PAULO 2016 Krysna Stephanny de Morais Ferreira Ordem Surirellales (Bacillariophyceae) no Estado de São Paulo: levantamento florístico Dissertação apresentada ao Instituto de Botânica da Secretaria do Meio Ambiente do Estado de São Paulo como parte dos requisitos para obtenção do título de MESTRE em BIODIVERSIDADE VEGETAL E MEIO AMBIENTE, Área de Concentração Plantas Avasculares em Análises Ambientais. ORIENTADOR: PROF. DR. CARLOS EDUARDO DE MATTOS BICUDO i ii À minha mãe Aurilene e ao meu pai Edilson, família e amigos, dedico. iii Tudo que é seu encontrará uma maneira de chegar até você. (Chico Xavier) iv AGRADECIMENTOS Em primeiro lugar gostaria de agradecer a Deus por ser minha base e nunca ter me abandonado nos momentos difíceis. Ao meu queridíssimo Prof. Dr. Carlos Eduardo de Mattos Bicudo pela confiança, incentivo e apoio. Obrigada, de coração, por tudo que me foi passado, pelos conhecimentos científicos e pelas agradáveis conversas e conselhos. Obrigada por fazer mais leve essa caminhada e pelas palavras certas nos momentos de “aperreio”. Obrigada mesmo, de verdade. À Profª Drª Denise de Campos Bicudo pelo conhecimento a mim passado, pelos conselhos e por ser essa pessoa simpática, amável e gentil que sempre nos recebe de braços abertos. À Profª Drª Carla Ferragut por todo conhecimento e experiência a nós passada em laboratório, nas aulas e no dia-a-dia. -
Is Coccolithophore Distribution in the Mediterranean Sea Related to Seawater Carbonate Chemistry? A
Discussion Paper | Discussion Paper | Discussion Paper | Discussion Paper | Ocean Sci. Discuss., 11, 613–653, 2014 Open Access www.ocean-sci-discuss.net/11/613/2014/ Ocean Science doi:10.5194/osd-11-613-2014 Discussions © Author(s) 2014. CC Attribution 3.0 License. This discussion paper is/has been under review for the journal Ocean Science (OS). Please refer to the corresponding final paper in OS if available. Is coccolithophore distribution in the Mediterranean Sea related to seawater carbonate chemistry? A. M. Oviedo1, P. Ziveri1,2, M. Álvarez3, and T. Tanhua4 1Institute of Environmental Science and Technology (ICTA), Universitat Autonoma de Barcelona (UAB), 08193 Bellaterra, Spain 2Earth & Climate Cluster, Department of Earth Sciences, FALW, Vrije Universiteit Amsterdam, FALW, HV1081 Amsterdam, the Netherlands 3IEO – Instituto Espanol de Oceanografia, Apd. 130, A Coruna, 15001, Spain 4GEOMAR Helmholtz-Zentrum für Ozeanforschung Kiel, Marine Biogeochemistry, Duesternbrooker Weg 20, 24105 Kiel, Germany Received: 31 December 2013 – Accepted: 15 January 2014 – Published: 20 February 2014 Correspondence to: A. M. Oviedo ([email protected]) Published by Copernicus Publications on behalf of the European Geosciences Union. 613 Discussion Paper | Discussion Paper | Discussion Paper | Discussion Paper | Abstract The Mediterranean Sea is considered a “hot-spot” for climate change, being char- acterized by oligotrophic to ultra-oligotrophic waters and rapidly changing carbonate chemistry. Coccolithophores are considered a dominant phytoplankton group in these 5 waters. As a marine calcifying organism they are expected to respond to the ongo- ing changes in seawater CO2 systems parameters. However, very few studies have covered the entire Mediterranean physiochemical gradients from the Strait of Gibral- tar to the Eastern Mediterranean Levantine Basin. -
High-Throughput Sequencing for Algal Systematics
High-throughput sequencing for algal systematics Mariana C. Oliveiraa, Sonja I. Repettib, Cintia Ihaab, Christopher J. Jacksonb, Pilar Díaz-Tapiabc, Karoline Magalhães Ferreira Lubianaa, Valéria Cassanoa, Joana F. Costab, Ma. Chiela M. Cremenb, Vanessa R. Marcelinobde, Heroen Verbruggenb a Department of Botany, Biosciences Institute, University of São Paulo, São Paulo 05508-090, Brazil b School of BioSciences, University of Melbourne, Victoria 3010, Australia c Coastal Biology Research Group, Faculty of Sciences and Centre for Advanced Scientific Research (CICA), University of A Coruña, 15071, A Coruña, Spain d Marie Bashir Institute for Infectious Diseases and Biosecurity and Sydney Medical School, University of Sydney, New South Wales 2006, Australia e Westmead Institute for Medical Research, Westmead, New South Wales 2145, Australia Abstract In recent years, the use of molecular data in algal systematics has increased as high-throughput sequencing (HTS) has become more accessible, generating very large data sets at a reasonable cost. In this perspectives paper, our goal is to describe how HTS technologies can advance algal systematics. Following an introduction to some common HTS technologies, we discuss how metabarcoding can accelerate algal species discovery. We show how various HTS methods can be applied to generate datasets for accurate species delimitation, and how HTS can be applied to historical type specimens to assist the nomenclature process. Finally, we discuss how HTS data such as organellar genomes and transcriptomes can be used to construct well resolved phylogenies, leading to a stable and natural classification of algal groups. We include examples of bioinformatic workflows that may be applied to process data for each purpose, along with common programs used to achieve each step. -
Revisions to the Classification, Nomenclature, and Diversity of Eukaryotes
University of Rhode Island DigitalCommons@URI Biological Sciences Faculty Publications Biological Sciences 9-26-2018 Revisions to the Classification, Nomenclature, and Diversity of Eukaryotes Christopher E. Lane Et Al Follow this and additional works at: https://digitalcommons.uri.edu/bio_facpubs Journal of Eukaryotic Microbiology ISSN 1066-5234 ORIGINAL ARTICLE Revisions to the Classification, Nomenclature, and Diversity of Eukaryotes Sina M. Adla,* , David Bassb,c , Christopher E. Laned, Julius Lukese,f , Conrad L. Schochg, Alexey Smirnovh, Sabine Agathai, Cedric Berneyj , Matthew W. Brownk,l, Fabien Burkim,PacoCardenas n , Ivan Cepi cka o, Lyudmila Chistyakovap, Javier del Campoq, Micah Dunthornr,s , Bente Edvardsent , Yana Eglitu, Laure Guillouv, Vladimır Hamplw, Aaron A. Heissx, Mona Hoppenrathy, Timothy Y. Jamesz, Anna Karn- kowskaaa, Sergey Karpovh,ab, Eunsoo Kimx, Martin Koliskoe, Alexander Kudryavtsevh,ab, Daniel J.G. Lahrac, Enrique Laraad,ae , Line Le Gallaf , Denis H. Lynnag,ah , David G. Mannai,aj, Ramon Massanaq, Edward A.D. Mitchellad,ak , Christine Morrowal, Jong Soo Parkam , Jan W. Pawlowskian, Martha J. Powellao, Daniel J. Richterap, Sonja Rueckertaq, Lora Shadwickar, Satoshi Shimanoas, Frederick W. Spiegelar, Guifre Torruellaat , Noha Youssefau, Vasily Zlatogurskyh,av & Qianqian Zhangaw a Department of Soil Sciences, College of Agriculture and Bioresources, University of Saskatchewan, Saskatoon, S7N 5A8, SK, Canada b Department of Life Sciences, The Natural History Museum, Cromwell Road, London, SW7 5BD, United Kingdom