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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. -
Salmon Louse Lepeophtheirus Salmonis on Atlantic Salmon
DISEASES OF AQUATIC ORGANISMS Vol. 17: 101-105, 1993 Published November 18 Dis. aquat. Org. Efficacy of ivermectin for control of the salmon louse Lepeophtheirus salmonis on Atlantic salmon 'Department of Fisheries and Oceans, Biological Sciences Branch. Pacific Biological Station, Nanaimo, British Columbia, Canada V9R 5K6 '~epartmentof Zoology, University of British Columbia, Vancouver, British Columbia, Canada V6T 2A9 ABSTRACT The eff~cacyof orally administered lveimectin against the common salmon louse Lepeophthelrus salmonls on Atlant~csalmon Salmo salar was invest~gatedunder laboratory condl- tions Both 3 and 6 doses of ivermectln at a targeted dose of 0 05 mg kg-' f~shadmin~stered in the feed every third day airested the development and reduced the Intensity of lnfect~onby L salmon~sThis IS the first report of dn eff~cacioustreatment agd~nstthe chalimus stages of sea lice Ser~oushead dnd doi- sal body lesions, typical of L salmon~sfeed~ng act~vity, which developed on the control f~shwere ab- sent from the ~vermect~n-tredtedf~sh lvermectin fed at these dosage reglmes resulted in a darken~ng of the fish, but appealed not to reduce their feeding activity KEY WORDS Ivermectin Lepeophthe~russalmonis Parasite control Paras~tetreatment - Salmon louse . Salmo salar Sea lice INTRODUCTION dichlorvos into the marine environment, have made the development of alternative treatment methods fol The marine ectoparasitic copepod Lepeophtheirus sea lice a priority salmonis is one of several species of sea lice that Orally administered ivermectln (22,23-Dihydro- commonly infect, and can cause serious disease in, avermectin B,) has been reported to be effective for sea-farmed salmonids (Brandal & Egidius 1979, the control of sea lice and other parasitic copepods on Kabata 1979, 1988, Pike 1989, Wootten et al. -
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. -
Nucleotide Amino Acid Size (Nt) #Orfs Marnavirus Heterosigma Akashiwo Heterosigma Akashiwo RNA Heterosigma Lang Et Al
Supplementary Table 1: Summary of information for all viruses falling within the seven Marnaviridae genera in our analyses. Accession Genome Genus Species Virus name Strain Abbreviation Source Country Reference Nucleotide Amino acid Size (nt) #ORFs Marnavirus Heterosigma akashiwo Heterosigma akashiwo RNA Heterosigma Lang et al. , 2004; HaRNAV AY337486 AAP97137 8587 One Canada RNA virus 1 virus akashiwo Tai et al. , 2003 Marine single- ASG92540 Moniruzzaman et Classification pending Q sR OV 020 KY286100 9290 Two celled USA ASG92541 al ., 2017 eukaryotes Marine single- Moniruzzaman et Classification pending Q sR OV 041 KY286101 ASG92542 9328 One celled USA al ., 2017 eukaryotes APG78557 Classification pending Wenzhou picorna-like virus 13 WZSBei69459 KX884360 9458 One Bivalve China Shi et al ., 2016 APG78557 Classification pending Changjiang picorna-like virus 2 CJLX30436 KX884547 APG79001 7171 One Crayfish China Shi et al ., 2016 Beihai picorna-like virus 57 BHHQ57630 KX883356 APG76773 8518 One Tunicate China Shi et al ., 2016 Classification pending Beihai picorna-like virus 57 BHJP51916 KX883380 APG76812 8518 One Tunicate China Shi et al ., 2016 Marine single- ASG92530 Moniruzzaman et Classification pending N OV 137 KY130494 7746 Two celled USA ASG92531 al ., 2017 eukaryotes Hubei picorna-like virus 7 WHSF7327 KX884284 APG78434 9614 One Pill worm China Shi et al ., 2016 Classification pending Hubei picorna-like virus 7 WHCC111241 KX884268 APG78407 7945 One Insect China Shi et al ., 2016 Sanxia atyid shrimp virus 2 WHCCII13331 KX884278 APG78424 10445 One Insect China Shi et al ., 2016 Classification pending Freshwater atyid Sanxia atyid shrimp virus 2 SXXX37884 KX883708 APG77465 10400 One China Shi et al ., 2016 shrimp Labyrnavirus Aurantiochytrium single Aurantiochytrium single stranded BAE47143 Aurantiochytriu AuRNAV AB193726 9035 Three4 Japan Takao et al. -
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 -
Global Ecology and Oceanography of Harmful Algal Blooms, Science Plan
GEOHAB Global Ecology and Oceanography of Harmful Algal Blooms Science Plan An International Programme Sponsored by the Scientific Committee on Oceanic Research (SCOR) and the Intergovernmental Oceanographic Commission (UNESCO) Edited by: Patricia M. Glibert and Grant Pitcher With the assistance of: Allan Cembella, John Cullen, and Yasuwo Fukuyo Based on contributions by the GEOHAB Scientific Steering Committee: Patrick Gentien, Yasuwo Fukuyo, Donald M. Anderson, Susan Blackburn, Allan Cembella, John Cullen, Malte Elbrächter, Henrik Enevoldsen, Marta Estrada, Wolfgang Fennel, Patricia M. Glibert, Elizabeth Gross, Kaisa Kononen, Nestor Lagos, Thomas Osborn, Grant Pitcher, Arturo P. Sierra-Beltrán, Steve Thorpe, Edward R. Urban, Jr., Jing Zhang, and Adriana Zingone April 2001 This report may be cited as: GEOHAB, 2001. Global Ecology and Oceanography of Harmful Algal Blooms, Science Plan. P. Glibert and G. Pitcher (eds). SCOR and IOC, Baltimore and Paris. 87 pp. Science Plan This document describes a Science Plan reviewed and approved by the Scientific Commission on Oceanic Research (SCOR) and the Intergovernmental Oceanographic Commission (IOC) of the U.N. Education, Scientific, and Cultural Organisation (UNESCO) This document is GEOHAB Report #1. Copies may be obtained from: Edward R. Urban, Jr. Henrik Enevoldsen Executive Director, SCOR Project Coordinator Department of Earth and Planetary Sciences IOC Science and Communication Centre on The Johns Hopkins University Harmful Algae Baltimore, MD 21218 U.S.A. Botanical Institute, University of Copenhagen Tel: +1-410-516-4070 Øster Farimagsgade 2D Fax: +1-410-516-4019 DK-1353 Copenhagen K, Denmark E-mail: [email protected] Tel: +45 33 13 44 46 Fax: +45 33 13 44 47 E-mail: [email protected] This report is also available on the web at: http://www.jhu.edu/~scor http://ioc.unesco.org/hab Cover photos. -
Catching the Complexity of Salmon-Louse Interactions
Fish and Shellfish Immunology 90 (2019) 199–209 Contents lists available at ScienceDirect Fish and Shellfish Immunology journal homepage: www.elsevier.com/locate/fsi Full length article Catching the complexity of salmon-louse interactions T ∗ Cristian Gallardo-Escáratea, , Valentina Valenzuela-Muñoza, Gustavo Núñez-Acuñaa, Crisleri Carreraa, Ana Teresa Gonçalvesa, Diego Valenzuela-Mirandaa, Bárbara P. Benaventea, Steven Robertsb a Interdisciplinary Center for Aquaculture Research, Laboratory of Biotechnology and Aquatic Genomics, Department of Oceanography, Universidad de Concepción, Concepción, Chile b School of Aquatic and Fishery Sciences (SAFS), University of Washington, Seattle, USA ABSTRACT The study of host-parasite relationships is an integral part of the immunology of aquatic species, where the complexity of both organisms has to be overlayed with the lifecycle stages of the parasite and immunological status of the host. A deep understanding of how the parasite survives in its host and how they display molecular mechanisms to face the immune system can be applied for novel parasite control strategies. This review highlights current knowledge about salmon and sea louse, two key aquatic animals for aquaculture research worldwide. With the aim to catch the complexity of the salmon-louse interactions, molecular information gleaned through genomic studies are presented. The host recognition system and the chemosensory receptors found in sea lice reveal complex molecular components, that in turn, can be disrupted through specific molecules such as non-coding RNAs. 1. Introduction worldwide the most studied sea lice species are Lepeophtheirus salmonis and Caligus rogercresseyi [8–10]. Annually the salmon industry presents Host-parasite interactions are a complex relationship where one estimated losses of US $ 480 million, representing between 4 and 10% organism benefits the other and often where there is a negative impact of production costs [10]. -
Piscirickettsia Salmonis and the Sea Louse Caligus Rogercresseyi
Disease Resistance in Atlantic Salmon (Salmo salar): Coinfection of the Intracellular Bacterial Pathogen Piscirickettsia salmonis and the Sea Louse Caligus rogercresseyi Jean Paul Lhorente1, Jose´ A. Gallardo2*, Beatriz Villanueva3, Marı´a J. Caraban˜ o3, Roberto Neira1,4 1 Aquainnovo S.A, Puerto Montt, Chile, 2 Pontificia Universidad Cato´lica de Valparaı´so, Valparaı´so, Chile, 3 Departamento de Mejora Gene´tica Animal, INIA, Madrid, Spain, 4 Departamento de Produccio´n Animal, Facultad de Ciencias Agrono´micas, Universidad de Chile, Santiago, Chile Abstract Background: Naturally occurring coinfections of pathogens have been reported in salmonids, but their consequences on disease resistance are unclear. We hypothesized that 1) coinfection of Caligus rogercresseyi reduces the resistance of Atlantic salmon to Piscirickettsia salmonis; and 2) coinfection resistance is a heritable trait that does not correlate with resistance to a single infection. Methodology: In total, 1,634 pedigreed Atlantic salmon were exposed to a single infection (SI) of P. salmonis (primary pathogen) or coinfection with C. rogercresseyi (secondary pathogen). Low and high level of coinfection were evaluated (LC = 44 copepodites per fish; HC = 88 copepodites per fish). Survival and quantitative genetic analyses were performed to determine the resistance to the single infection and coinfections. Main Findings: C. rogercresseyi significantly increased the mortality in fish infected with P. salmonis (SI mortality = 251/545; LC mortality = 544/544 and HC mortality = 545/545). Heritability estimates for resistance to P. salmonis were similar and of 2 2 2 medium magnitude in all treatments (h SI = 0.2360.07; h LC = 0.1760.08; h HC = 0.2460.07). A large and significant genetic correlation with regard to resistance was observed between coinfection treatments (rg LC-HC = 0.9960.01) but not between the single and coinfection treatments (rg SI-LC = 20.1460.33; rg SI-HC = 0.3260.34). -
Host-Parasite Interaction of Atlantic Salmon (Salmo Salar) and the Ectoparasite Neoparamoeba Perurans in Amoebic Gill Disease
ORIGINAL RESEARCH published: 31 May 2021 doi: 10.3389/fimmu.2021.672700 Host-Parasite Interaction of Atlantic salmon (Salmo salar) and the Ectoparasite Neoparamoeba perurans in Amoebic Gill Disease † Natasha A. Botwright 1*, Amin R. Mohamed 1 , Joel Slinger 2, Paula C. Lima 1 and James W. Wynne 3 1 Livestock and Aquaculture, CSIRO Agriculture and Food, St Lucia, QLD, Australia, 2 Livestock and Aquaculture, CSIRO Agriculture and Food, Woorim, QLD, Australia, 3 Livestock and Aquaculture, CSIRO Agriculture and Food, Hobart, TAS, Australia Marine farmed Atlantic salmon (Salmo salar) are susceptible to recurrent amoebic gill disease Edited by: (AGD) caused by the ectoparasite Neoparamoeba perurans over the growout production Samuel A. M. Martin, University of Aberdeen, cycle. The parasite elicits a highly localized response within the gill epithelium resulting in United Kingdom multifocal mucoid patches at the site of parasite attachment. This host-parasite response Reviewed by: drives a complex immune reaction, which remains poorly understood. To generate a model Diego Robledo, for host-parasite interaction during pathogenesis of AGD in Atlantic salmon the local (gill) and University of Edinburgh, United Kingdom systemic transcriptomic response in the host, and the parasite during AGD pathogenesis was Maria K. Dahle, explored. A dual RNA-seq approach together with differential gene expression and system- Norwegian Veterinary Institute (NVI), Norway wide statistical analyses of gene and transcription factor networks was employed. A multi- *Correspondence: tissue transcriptomic data set was generated from the gill (including both lesioned and non- Natasha A. Botwright lesioned tissue), head kidney and spleen tissues naïve and AGD-affected Atlantic salmon [email protected] sourced from an in vivo AGD challenge trial. -
Aquatic Microbial Ecology 80:193
This authors' personal copy may not be publicly or systematically copied or distributed, or posted on the Open Web, except with written permission of the copyright holder(s). It may be distributed to interested individuals on request. Vol. 80: 193–207, 2017 AQUATIC MICROBIAL ECOLOGY Published online October 5 https://doi.org/10.3354/ame01849 Aquat Microb Ecol Grazing of the heterotrophic dinoflagellate Noctiluca scintillans on dinoflagellate and raphidophyte prey Beth A. Stauffer1,*, Alyssa G. Gellene2, Diane Rico3, Christine Sur4, David A. Caron2 1Department of Biology, University of Louisiana at Lafayette, Lafayette, LA 70403, USA 2Department of Biological Sciences, University of Southern California, Los Angeles, CA 90089, USA 3School of Oceanography, University of Washington, Seattle, WA 98105, USA 4Graduate Group in Ecology, University of California, Davis, Davis, CA 95616, USA ABSTRACT: Noctiluca scintillans is a bloom-forming heterotrophic dinoflagellate that can ingest (and grow on) a number of phytoplankton prey, including several potentially toxic phytoplankton species. The current study documented (1) a range of N. scintillans growth rates (μ = −0.09 to 0.83 d−1) on several species of harmful dinoflagellates and raphidophytes, including Heterosigma akashiwo and Akashiwo sanguinea, and (2) the first published growth rates on Lingulodinium polyedrum, Chattonella marina, and Alexandrium catenella. N. scintillans attained maximum growth rates (μ = 0.83 d−1) on the raphidophyte H. akashiwo and negative growth rates (i.e. signif- icant mortality) on the dinoflagellates A. catenella (μ = −0.03 d−1) and A. sanguinea (μ = −0.08 d−1) and the raphidophyte C. marina (μ = −0.09 d−1). Toxin production by A. -
The Salmon Louse Genome: Copepod Features and Parasitic Adaptations
bioRxiv preprint doi: https://doi.org/10.1101/2021.03.15.435234; this version posted March 16, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. The salmon louse genome: copepod features and parasitic adaptations. Supplementary files are available here: DOI: 10.5281/zenodo.4600850 Rasmus Skern-Mauritzen§a,1, Ketil Malde*1,2, Christiane Eichner*2, Michael Dondrup*3, Tomasz Furmanek1, Francois Besnier1, Anna Zofia Komisarczuk2, Michael Nuhn4, Sussie Dalvin1, Rolf B. Edvardsen1, Sindre Grotmol2, Egil Karlsbakk2, Paul Kersey4,5, Jong S. Leong6, Kevin A. Glover1, Sigbjørn Lien7, Inge Jonassen3, Ben F. Koop6, and Frank Nilsen§b,1,2. §Corresponding authors: [email protected]§a, [email protected]§b *Equally contributing authors 1Institute of Marine Research, Postboks 1870 Nordnes, 5817 Bergen, Norway 2University of Bergen, Thormøhlens Gate 53, 5006 Bergen, Norway 3Computational Biology Unit, Department of Informatics, University of Bergen 4EMBL-The European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, CB10 1SD, UK 5 Royal Botanic Gardens, Kew, Richmond, Surrey TW9 3AE, UK 6 Department of Biology, University of Victoria, Victoria, British Columbia, V8W 3N5, Canada 7 Centre for Integrative Genetics (CIGENE), Department of Animal and Aquacultural Sciences, Norwegian University of Life Sciences, Oluf Thesens vei 6, 1433, Ås, Norway 1 bioRxiv preprint doi: https://doi.org/10.1101/2021.03.15.435234; this version posted March 16, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission.