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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 The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity.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. -
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 -
Plant Life MagillS Encyclopedia of Science
MAGILLS ENCYCLOPEDIA OF SCIENCE PLANT LIFE MAGILLS ENCYCLOPEDIA OF SCIENCE PLANT LIFE Volume 4 Sustainable Forestry–Zygomycetes Indexes Editor Bryan D. Ness, Ph.D. Pacific Union College, Department of Biology Project Editor Christina J. Moose Salem Press, Inc. Pasadena, California Hackensack, New Jersey Editor in Chief: Dawn P. Dawson Managing Editor: Christina J. Moose Photograph Editor: Philip Bader Manuscript Editor: Elizabeth Ferry Slocum Production Editor: Joyce I. Buchea Assistant Editor: Andrea E. Miller Page Design and Graphics: James Hutson Research Supervisor: Jeffry Jensen Layout: William Zimmerman Acquisitions Editor: Mark Rehn Illustrator: Kimberly L. Dawson Kurnizki Copyright © 2003, by Salem Press, Inc. All rights in this book are reserved. No part of this work may be used or reproduced in any manner what- soever or transmitted in any form or by any means, electronic or mechanical, including photocopy,recording, or any information storage and retrieval system, without written permission from the copyright owner except in the case of brief quotations embodied in critical articles and reviews. For information address the publisher, Salem Press, Inc., P.O. Box 50062, Pasadena, California 91115. Some of the updated and revised essays in this work originally appeared in Magill’s Survey of Science: Life Science (1991), Magill’s Survey of Science: Life Science, Supplement (1998), Natural Resources (1998), Encyclopedia of Genetics (1999), Encyclopedia of Environmental Issues (2000), World Geography (2001), and Earth Science (2001). ∞ The paper used in these volumes conforms to the American National Standard for Permanence of Paper for Printed Library Materials, Z39.48-1992 (R1997). Library of Congress Cataloging-in-Publication Data Magill’s encyclopedia of science : plant life / edited by Bryan D. -
Diversity and Dynamics of Relevant Nanoplanktonic Diatoms in The
Diversity and dynamics of relevant nanoplanktonic diatoms in the Western English Channel Laure Arsenieff, Florence Le Gall, Fabienne Rigaut-Jalabert, Frédéric Mahé, Diana Sarno, Léna Gouhier, Anne-Claire Baudoux, Nathalie Simon To cite this version: Laure Arsenieff, Florence Le Gall, Fabienne Rigaut-Jalabert, Frédéric Mahé, Diana Sarno, etal.. Diversity and dynamics of relevant nanoplanktonic diatoms in the Western English Channel. ISME Journal, Nature Publishing Group, 2020, 14 (8), pp.1966-1981. 10.1038/s41396-020-0659-6. hal- 02888711 HAL Id: hal-02888711 https://hal.sorbonne-universite.fr/hal-02888711 Submitted on 3 Jul 2020 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. 5 9 / w b [ ! ! " C [ D ! " C % w &W % (" C) ) a ) +" 5 , -" [) D ." ! &/ . 0 " b , ,% 1 )" /bw," 1aw 2 -- & 9 a t " , .4 w" (5678 w" C (,% 1 )" /bw," C) ) w Cw(-(-" , .4 w" (5768 w" C +/9w!5" 1aw .Dt9" +-+56 a " C -, : ; ! 5 " < / " 68 ( b " 9 .,% 1 )" /bw," Cw(-(-" w / / " , .4 w" (5768 w" C ! = % 4 / [ ! , .4 w 1aw 2 -- /bw,&,% 1 ) t D = (5768 w C >%&? @++ ( 56 (5 (+ (+ ! b , , .4 w 1aw 2 -- /bw,&,% 1 ) t D = (5768 w C >%&? @++ ( 56 (5 (. -
PHYCOLOGICAL REVIEWS 18 the Species Concept in Diatoms
Phycologia (1999) Volume 38 (6), 437-495 Published 10 December 1999 PHYCOLOGICAL REVIEWS 18 The species concept in diatoms DAVID G. MANN* Royal Botanic Garden, Edinburgh EH3 5LR, Scotland, UK D.G. MANN. 1999. Phycological reviews 18. The species concept in diatoms. Phycologia 38: 437-495. Diatoms are the most species-rich group of algae. They are ecologically widespread and have global significance in the carbon and silicon cycles, and are used increasingly in ecological monitoring, paleoecological reconstruction, and stratigraphic corre lation. Despite this, the species taxonomy of diatoms is messy and lacks a satisfactory practical or conceptual basis, hindering further advances in all aspects of diatom biology. Several model systems have provided valuable insights into the nature of diatom species. A consilience of evidence (the 'Waltonian species concept') from morphology, genetic data, mating systems, physiology, ecology, and crossing behavior suggests that species boundaries have traditionally been drawn too broadly; many species probably contain several reproductively isolated entities that are worth taxonomic recognition at species level. Pheno typic plasticity, although present, is not a serious problem for diatom taxonomy. However, although good data are now available for demes living in sympatry, we have barely begun to extend studies to take into account variation between allopatric demes, which is necessary if a global taxonomy is to be built. Endemism has been seriously underestimated among diatoms, but biogeographical and stratigraphic patterns are difficult to discern, because of a lack of trustwOlthy data and because the taxonomic concepts of many authors are undocumented. Morphological diversity may often be a largely accidental consequence of physiological differentiation, as a result of the peculiarities of diatom cell division and the life cycle. -
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. -
The Evolution of Silicon Transporters in Diatoms1
CORE Metadata, citation and similar papers at core.ac.uk Provided by Woods Hole Open Access Server J. Phycol. 52, 716–731 (2016) © 2016 The Authors. Journal of Phycology published by Wiley Periodicals, Inc. on behalf of Phycological Society of America. This is an open access article under the terms of the Creative Commons Attribution-NonCommercial-NoDerivs License, which permits use and distribution in any medium, provided the original work is properly cited, the use is non-commercial and no modifications or adaptations are made. DOI: 10.1111/jpy.12441 THE EVOLUTION OF SILICON TRANSPORTERS IN DIATOMS1 Colleen A. Durkin3 Moss Landing Marine Laboratories, 8272 Moss Landing Road, Moss Landing California 95039, USA Julie A. Koester Department of Biology and Marine Biology, University of North Carolina Wilmington, Wilmington North Carolina 28403, USA Sara J. Bender2 Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution, Woods Hole Massachusetts 02543, USA and E. Virginia Armbrust School of Oceanography, University of Washington, Seattle Washington 98195, USA Diatoms are highly productive single-celled algae perhaps their dominant ability to take up silicic acid that form an intricately patterned silica cell wall after from seawater in diverse environmental conditions. every cell division. They take up and utilize silicic Key index words: diatoms; gene family; molecular acid from seawater via silicon transporter (SIT) evolution; nutrients; silicon; transporter proteins. This study examined the evolution of the SIT gene family -
Full-Length Transcriptome of Thalassiosira Weissflogii As
marine drugs Communication Full-Length Transcriptome of Thalassiosira weissflogii as a Reference Resource and Mining of Chitin-Related Genes Haomiao Cheng 1,2,3, Chris Bowler 4, Xiaohui Xing 5,6,7, Vincent Bulone 5,6,7, Zhanru Shao 1,2,* and Delin Duan 1,2,8,* 1 CAS and Shandong Province Key Laboratory of Experimental Marine Biology, Center for Ocean Mega-Science, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China; [email protected] 2 Laboratory for Marine Biology and Biotechnology, Pilot Qingdao National Laboratory for Marine Science and Technology, Qingdao 266237, China 3 University of Chinese Academy of Sciences, Beijing 100049, China 4 Institut de Biologie de l’ENS (IBENS), Département de Biologie, École Normale Supérieure, CNRS, INSERM, Université PSL, 75005 Paris, France; [email protected] 5 Division of Glycoscience, Department of Chemistry, School of Engineering Sciences in Chemistry, Biotechnology and Health, Royal Institute of Technology (KTH), AlbaNova University Centre, 10691 Stockholm, Sweden; [email protected] (X.X.); [email protected] (V.B.) 6 Australian Research Council Centre of Excellence in Plant Cell Walls, School of Agriculture, Food and Wine, University of Adelaide, Waite Campus, Urrbrae 5064, Australia 7 Adelaide Glycomics, School of Agriculture Food and Wine, University of Adelaide, Waite Campus, Urrbrae 5064, Australia 8 State Key Laboratory of Bioactive Seaweed Substances, Qingdao Bright Moon Seaweed Group Co., Ltd., Qingdao 266400, China * Correspondence: [email protected] (Z.S.); [email protected] (D.D.) Citation: Cheng, H.; Bowler, C.; Xing, X.; Bulone, V.; Shao, Z.; Duan, D. Abstract: β-Chitin produced by diatoms is expected to have significant economic and ecological Full-Length Transcriptome of value due to its structure, which consists of parallel chains of chitin, its properties and the high Thalassiosira weissflogii as a Reference abundance of diatoms. -
BACHELOR THESIS Surveillance of Phytoplankton Key Species
BACHELOR THESIS Surveillance of Phytoplankton Key Species in the “AWI-HAUSGARTEN” (Fram Strait) 2010-2013 via Quantitative PCR by Sebastian Micheller Matriculation No.: 739820 in the Bachelor Degree Course Biotechnology – Dept. of Applied Natural Sciences – Hochschule Esslingen, Germany tendered at July 1st, 2014 First Examiner: Prof. Dr. Dirk Schwartz 1 Second Examiner: Dr. Katja Metfies 2 Spaced out till: August 1st, 2015 1 Hochschule Esslingen, 73728 Esslingen a. N., Germany 2 Alfred-Wegener-Institute for Polar & Marine Research, 27570 Bremerhaven, Germany STATEMENT OF AUTHORSHIP I declare that the thesis Surveillance of Phytoplankton Key Species in the „AWI-HAUSGARTEN“ (Fram Strait) 2010-2013 via Quantitative PCR has been composed by myself, and describes my own work, unless otherwise acknowledged in the text. It has not been accepted in any previous application for a degree. Esslingen a. N., July 1st, 2014 Place/date Sebastian Micheller I ACKNOWLEDGMENTS First and foremost, I would like to express my deep gratitude to Dr. Katja Metfies, my supervisor at the Alfred-Wegener-Institute, Bremerhaven. Her patient guidance, enthusiastic encouragement and useful critiques were the cornerstones, making this thesis possible. Beside her, my supervisor Prof. Dr. Dirk Schwartz (Hochschule Esslingen) deserves my special thanks. During my studies at the Hochschule Esslingen, he inspired me for the field of molecular biology, being always a great mentor and support - even across the great distance during this study (Bremerhaven – Esslingen). I feel very great appreciation for them, giving me chances to grow as a person and as a scientist. I would also like to thank Dr. Christian Wolf and Dr. -
The Model Marine Diatom Thalassiosira Pseudonana Likely
Alverson et al. BMC Evolutionary Biology 2011, 11:125 http://www.biomedcentral.com/1471-2148/11/125 RESEARCHARTICLE Open Access The model marine diatom Thalassiosira pseudonana likely descended from a freshwater ancestor in the genus Cyclotella Andrew J Alverson1*, Bánk Beszteri2, Matthew L Julius3 and Edward C Theriot4 Abstract Background: Publication of the first diatom genome, that of Thalassiosira pseudonana, established it as a model species for experimental and genomic studies of diatoms. Virtually every ensuing study has treated T. pseudonana as a marine diatom, with genomic and experimental data valued for their insights into the ecology and evolution of diatoms in the world’s oceans. Results: The natural distribution of T. pseudonana spans both marine and fresh waters, and phylogenetic analyses of morphological and molecular datasets show that, 1) T. pseudonana marks an early divergence in a major freshwater radiation by diatoms, and 2) as a species, T. pseudonana is likely ancestrally freshwater. Marine strains therefore represent recent recolonizations of higher salinity habitats. In addition, the combination of a relatively nondescript form and a convoluted taxonomic history has introduced some confusion about the identity of T. pseudonana and, by extension, its phylogeny and ecology. We resolve these issues and use phylogenetic criteria to show that T. pseudonana is more appropriately classified by its original name, Cyclotella nana. Cyclotella contains a mix of marine and freshwater species and so more accurately conveys the complexities of the phylogenetic and natural histories of T. pseudonana. Conclusions: The multitude of physical barriers that likely must be overcome for diatoms to successfully colonize freshwaters suggests that the physiological traits of T. -
Edward Claiborne Theriot
E DWARD C LAIBORNE T HERIOT CURRICULUM VITAE J ANUARY 19, 2021 [email protected] Professor, Department of Integrative Biology Director, Texas Memorial Museum University of Texas at Austin I. Education University of Michigan, Ann Arbor, MI, 1978-1983, School of Natural Resources, Ph.D. Louisiana State University, Baton Rouge, LA, 1975-1978, Fisheries Biology, Botany minor, Phi Kappa Phi Honor Society, M.S. Louisiana State University, Baton Rouge, LA, 1972-1975, Zoology, B.S. University of Miami, Coral Gables, FL, 1971-1972, Biology, no degree. II. Professional Experience II A. Formal positions 2020 - . Harold C. and Mary D. Bold Professor of Cryptogamic Botany, Department of Integrative Biology, UT Austin. 1997 - . Director, Texas Natural Science Center/Texas Memorial Museum, University of Texas at Austin (UT Austin). 1997 - 2020. Jane and Roland Blumberg Centennial Professor of Molecular Evolution, Department of Integrative Biology, UT Austin. 1994-1996. Vice-President, Systematics and Evolutionary Biology, Academy of Natural Sciences of Philadelphia (ANSP) 1993-1997. Associate Curator, Diatom Herbarium, ANSP. 1989-1993. Assistant Curator, Diatom Herbarium, ANSP. 1988-1989. Research Assistant Professor, Graduate Faculty, Department of Botany, Louisiana State University (LSU). 1986-1988. Assistant Research Scientist, Great Lakes Research Division (GLRD), University of Michigan (UM). 1984-1986. Research Investigator, GLRD, UM. 1984. Jessup-McHenry Fellowship. Academy of Natural Sciences of Philadelphia. 1983-1984. Research Associate, Department of Oceanography, Texas A&M University. 1978-1982. Research Assistant, GLRD, UM. 1978. Research Associate, Center for Wetland Resources, LSU. 1974-1977. Research Assistant, Louisiana Cooperative Fisheries Unit, LSU. II B. Teaching Experience BIO 301M Ecology, Evolution and Society (UT Austin) BIO 370 Evolution (UT Austin) UGS 302 Texas and Water: History, Biology and the Future (UT Austin) BIO 337 Natural History of the Protists (UT Austin). -
Book of Abstracts Keynote 1
GEO BON OPEN SCIENCE CONFERENCE & ALL HANDS MEETING 2020 06–10 July 2020, 100 % VIRTUAL Book of Abstracts Keynote 1 IPBES: Science and evidence for biodiversity policy and action Anne Larigauderie Executive Secretary of IPBES This talk will start by a presentation of the achievements of the Intergovernmental Science-Policy Platform for Biodiversity (IPBES) during its first work programme, starting with the release of its first assessment, on Pollinators, Pollination and Food Production in 2016, and culminating with the release of the first IPBES Global Assessment of Biodiversity and Ecosystem Services in 2019. The talk will highlights some of the findings of the IPBES Global Assessment, including trends in the contributions of nature to people over the past 50 years, direct and indirect causes of biodiversity loss, and progress against the Aichi Biodiversity Targets, and some of the Sustainable Development Goals, ending with options for action. The talk will then briefly present the new IPBES work programme up to 2030, and its three new topics, and end with considerations regarding GEO BON, and the need to establish an operational global observing system for biodiversity to support the implementation of the post 2020 Global Biodiversity Framework. 1 Keynote 2 Securing Critical Natural Capital: Science and Policy Frontiers for Essential Ecosystem Service Variables Rebecca Chaplin-Kramer Stanford University, USA As governments, business, and lending institutions are increasingly considering investments in natural capital as one strategy to meet their operational and development goals sustainably, the importance of accurate, accessible information on ecosystem services has never been greater. However, many ecosystem services are highly localized, requiring high-resolution and contextually specific information—which has hindered the delivery of this information at the pace and scale at which it is needed.