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Bristol Bay, Alaska
EPA 910-R-14-001C | January 2014 An Assessment of Potential Mining Impacts on Salmon Ecosystems of Bristol Bay, Alaska Volume 3 – Appendices E-J Region 10, Seattle, WA www.epa.gov/bristolbay EPA 910-R-14-001C January 2014 AN ASSESSMENT OF POTENTIAL MINING IMPACTS ON SALMON ECOSYSTEMS OF BRISTOL BAY, ALASKA VOLUME 3—APPENDICES E-J U.S. Environmental Protection Agency Region 10 Seattle, WA CONTENTS VOLUME 1 An Assessment of Potential Mining Impacts on Salmon Ecosystems of Bristol Bay, Alaska VOLUME 2 APPENDIX A: Fishery Resources of the Bristol Bay Region APPENDIX B: Non-Salmon Freshwater Fishes of the Nushagak and Kvichak River Drainages APPENDIX C: Wildlife Resources of the Nushagak and Kvichak River Watersheds, Alaska APPENDIX D: Traditional Ecological Knowledge and Characterization of the Indigenous Cultures of the Nushagak and Kvichak Watersheds, Alaska VOLUME 3 APPENDIX E: Bristol Bay Wild Salmon Ecosystem: Baseline Levels of Economic Activity and Values APPENDIX F: Biological Characterization: Bristol Bay Marine Estuarine Processes, Fish, and Marine Mammal Assemblages APPENDIX G: Foreseeable Environmental Impact of Potential Road and Pipeline Development on Water Quality and Freshwater Fishery Resources of Bristol Bay, Alaska APPENDIX H: Geologic and Environmental Characteristics of Porphyry Copper Deposits with Emphasis on Potential Future Development in the Bristol Bay Watershed, Alaska APPENDIX I: Conventional Water Quality Mitigation Practices for Mine Design, Construction, Operation, and Closure APPENDIX J: Compensatory Mitigation and Large-Scale Hardrock Mining in the Bristol Bay Watershed AN ASSESSMENT OF POTENTIAL MINING IMPACTS ON SALMON ECOSYSTEMS OF BRISTOL BAY, ALASKA VOLUME 3—APPENDICES E-J Appendix E: Bristol Bay Wild Salmon Ecosystem: Baseline Levels of Economic Activity and Values Bristol Bay Wild Salmon Ecosystem Baseline Levels of Economic Activity and Values John Duffield Chris Neher David Patterson Bioeconomics, Inc. -
Morphological Investigation and Analysis of Ribosomal DNA Phylogeny of Two Scale-Worms (Polychaeta, Polynoidae) from the Gulf of Thailand
Songklanakarin J. Sci. Technol. 40 (5), 1158-1166, Sep. - Oct. 2018 Original Article Morphological investigation and analysis of ribosomal DNA phylogeny of two scale-worms (Polychaeta, Polynoidae) from the Gulf of Thailand Arin Ngamniyom1*, Rakchanok Koto2, Weerawich Wongroj3, Thayat Sriyapai1, Pichapack Sriyapai4, and Busaba Panyarachun5 1 Faculty of Environmental Culture and Eco-tourism, Srinakharinwirot University, Watthana, Bangkok, 10110 Thailand 2 Department of Biology, Faculty of Sciences, Srinakharinwirot University, Watthana, Bangkok, 10110 Thailand 3 Prasarnmit Elementary Demonstration School, Srinakharinwirot University, Watthana, Bangkok, 10110 Thailand 4 Department of Microbiology, Faculty of Sciences, Srinakharinwirot University, Watthana, Bangkok, 10110 Thailand 5 Department of Anatomy, Faculty of Medicine, Srinakharinwirot University, Watthana, Bangkok, 10110 Thailand Received: 14 December 2016; Revised: 7 June 2017; Accepted: 5 July 2017 Abstract Scale-worms are polychaetes of the family Polynoidae that are commonly distribute in marine environments. This study aims identify and introduce two scale-worms as Capitulatinoe cf. cupisetis and Eunoe cf. oerstedi from the western coast of the Gulf of Thailand. Using scanning electron microscopy of adult worms, the antennae, palps, prostomium, cirri, setigers, parapodia, saetae and elytra are described. In addition, the phylogenetic relationships of our specimens with other polychaete species were analyzed based on partial sequences of 28S, 18S and 16S ribosomal DNA (rDNA) genes. The rDNA sequences identified C. cf. cupisetis and E. cf. oerstedi were respectively recovered within Arctonoinae and Polynoinae in a monophyletic Polynoidae. The congruence or incongruence of the morphological and molecular data is discussed in the text. These findings increase the knowledge of polynoid polychaete worms in Thailand, although two scale-worms remain to be identified of the precise species. -
Supplementary Tales
Metabarcoding reveals different zooplankton communities in northern and southern areas of the North Sea Jan Niklas Macher, Berry B. van der Hoorn, Katja T. C. A. Peijnenburg, Lodewijk van Walraven, Willem Renema Supplementary tables 1-5 Table S1: Sampling stations and recorded abiotic variables recorded during the NICO 10 expedition from the Dutch Coast to the Shetland Islands Sampling site name Coordinates (°N, °E) Mean remperature (°C) Mean salinity (PSU) Depth (m) S74 59.416510, 0.499900 8.2 35.1 134 S37 58.1855556, 0.5016667 8.7 35.1 89 S93 57.36046, 0.57784 7.8 34.8 84 S22 56.5866667, 0.6905556 8.3 34.9 220 S109 56.06489, 1.59652 8.7 35 79 S130 55.62157, 2.38651 7.8 34.8 73 S156 54.88581, 3.69192 8.3 34.6 41 S176 54.41489, 4.04154 9.6 34.6 43 S203 53.76851, 4.76715 11.8 34.5 34 Table S2: Species list and read number per sampling site Class Order Family Genus Species S22 S37 S74 S93 S109 S130 S156 S176 S203 Copepoda Calanoida Acartiidae Acartia Acartia clausi 0 0 0 72 0 170 15 630 3995 Copepoda Calanoida Acartiidae Acartia Acartia tonsa 0 0 0 0 0 0 0 0 23 Hydrozoa Trachymedusae Rhopalonematidae Aglantha Aglantha digitale 0 0 0 0 1870 117 420 629 0 Actinopterygii Trachiniformes Ammodytidae Ammodytes Ammodytes marinus 0 0 0 0 0 263 0 35 0 Copepoda Harpacticoida Miraciidae Amphiascopsis Amphiascopsis cinctus 344 0 0 992 2477 2500 9574 8947 0 Ophiuroidea Amphilepidida Amphiuridae Amphiura Amphiura filiformis 0 0 0 0 219 0 0 1470 63233 Copepoda Calanoida Pontellidae Anomalocera Anomalocera patersoni 0 0 586 0 0 0 0 0 0 Bivalvia Venerida -
A Phylogenetic Analysis of the Genus Eunice (Eunicidae, Polychaete, Annelida)
Blackwell Publishing LtdOxford, UKZOJZoological Journal of the Linnean Society0024-4082© 2007 The Linnean Society of London? 2007 1502 413434 Original Article PHYLOGENY OF EUNICEJ. ZANOL ET AL. Zoological Journal of the Linnean Society, 2007, 150, 413–434. With 12 figures A phylogenetic analysis of the genus Eunice (Eunicidae, polychaete, Annelida) JOANA ZANOL1*, KRISTIAN FAUCHALD2 and PAULO C. PAIVA3 1Pós-Graduação em Zoologia, Museu Nacional/UFRJ, Quinta da Boa Vista s/n°, São Cristovão, Rio de Janeiro, RJ 20940–040, Brazil 2Department of Invertebrate Zoology, NMNH, Smithsonian Institution, PO Box 37012, NHB MRC 0163, Washington, DC 20013–7012, USA 3Departamento de Zoologia, Insituto de Biologia, Universidade Federal do Rio de Janeiro, CCS, Bloco A, Sala A0-104, Ilha do Fundão, Rio de Janeiro, RJ 2240–590, Brazil Received April 2006; accepted for publication December 2006 Species of Eunice are distributed worldwide, inhabiting soft and hard marine bottoms. Some of these species play sig- nificant roles in coral reef communities and others are commercially important. Eunice is the largest and most poorly defined genus in Eunicidae. It has traditionally been subdivided in taxonomically informal groups based on the colour and dentition of subacicular hooks, and branchial distribution. The monophyly of Eunice and of its informal subgroups is tested here using cladistic analyses of 24 ingroup species based on morphological data. In the phylo- genetic hypothesis resulting from the present analyses Eunice and its subgroups are paraphyletic; the genus may be divided in at least two monophyletic groups, Eunice s.s. and Leodice, but several species do not fall inside these two groups. -
Chaetal Type Diversity Increases During Evolution of Eunicida (Annelida)
Org Divers Evol (2016) 16:105–119 DOI 10.1007/s13127-015-0257-z ORIGINAL ARTICLE Chaetal type diversity increases during evolution of Eunicida (Annelida) Ekin Tilic1 & Thomas Bartolomaeus1 & Greg W. Rouse2 Received: 21 August 2015 /Accepted: 30 November 2015 /Published online: 15 December 2015 # Gesellschaft für Biologische Systematik 2015 Abstract Annelid chaetae are a superior diagnostic character Keywords Chaetae . Molecular phylogeny . Eunicida . on species and supraspecific levels, because of their structural Systematics variety and taxon specificity. A certain chaetal type, once evolved, must be passed on to descendants, to become char- acteristic for supraspecific taxa. Therefore, one would expect Introduction that chaetal diversity increases within a monophyletic group and that additional chaetae types largely result from transfor- Chaetae in annelids have attracted the interest of scientist for a mation of plesiomorphic chaetae. In order to test these hypoth- very long time, making them one of the most studied, if not the eses and to explain potential losses of diversity, we take up a most studied structures of annelids. This is partly due to the systematic approach in this paper and investigate chaetation in significance of chaetal features when identifying annelids, Eunicida. As a backbone for our analysis, we used a three- since chaetal structure and arrangement are highly constant gene (COI, 16S, 18S) molecular phylogeny of the studied in species and supraspecific taxa. Aside from being a valuable eunicidan species. This phylogeny largely corresponds to pre- source for taxonomists, chaetae have also been the focus of vious assessments of the phylogeny of Eunicida. Presence or many studies in functional ecology (Merz and Edwards 1998; absence of chaetal types was coded for each species included Merz and Woodin 2000; Merz 2015; Pernet 2000; Woodin into the molecular analysis and transformations for these char- and Merz 1987). -
Cold-Water Coral Reefs
Jl_ JOINTpk MILJ0VERNDEPARTEMENTET— — natiireW M^ iA/i*/r ONEP WCMC COMMITTEE Norwegian Ministry of the Environment TTTTr Cold-water coral reefs Out of sight - no longer out of mind Andre Freiwald. Jan Helge Fossa, Anthony Grehan, Tony KosLow and J. Murray Roberts Z4^Z4 Digitized by tine Internet Arciiive in 2010 witii funding from UNEP-WCIVIC, Cambridge http://www.arcliive.org/details/coldwatercoralre04frei i!i_«ajuiti'j! ii-D) 1.-I fLir: 111 till 1 J|_ JOINT^ MILJ0VERNDEPARTEMENTET UNEP WCMC COMMITTEE Norwegta» Ministry of the Environment T» TT F Cold-water coral reefs Out of sight - no longer out of mind Andre Freiwald, Jan HeLge Fossa, Anthony Grehan, Tony Koslow and J. Murray Roberts a) UNEP WCMCH UNEP World Conservation Supporting organizations Monitoring Centre 219 Huntingdon Road Department of the Environment, Heritage and Local Cambridge CBS DDL Government United Kingdom National Parks and Wildlife Service Tel: +44 101 1223 2773U 7 Ely Place Fax; +W 101 1223 277136 Dublin 2 Email: [email protected] Ireland Website: www.unep-wcmc.org http://www.environ.ie/DOEI/DOEIhome nsf Director: Mark Collins Norwegian Ministry of the Environment Department for Nature Management The UNEP World Conservation Monitoring Centre is the PO Box 8013 biodiversity assessment and policy implementation arm of the Dep. N-0030 Oslo United Nations Environment Programme (UNEPI. the world's Norway foremost intergovernmental environmental organization. UNEP- http://wwwmilio.no WCMC aims to help decision makers recognize the value ol biodiversity to people everywhere, and to apply this knowledge to Defra all that they do. The Centre's challenge is to transform complex Department for Environment. -
Mitochondrial Genomes of Two Polydora
www.nature.com/scientificreports OPEN Mitochondrial genomes of two Polydora (Spionidae) species provide further evidence that mitochondrial architecture in the Sedentaria (Annelida) is not conserved Lingtong Ye1*, Tuo Yao1, Jie Lu1, Jingzhe Jiang1 & Changming Bai2 Contrary to the early evidence, which indicated that the mitochondrial architecture in one of the two major annelida clades, Sedentaria, is relatively conserved, a handful of relatively recent studies found evidence that some species exhibit elevated rates of mitochondrial architecture evolution. We sequenced complete mitogenomes belonging to two congeneric shell-boring Spionidae species that cause considerable economic losses in the commercial marine mollusk aquaculture: Polydora brevipalpa and Polydora websteri. The two mitogenomes exhibited very similar architecture. In comparison to other sedentarians, they exhibited some standard features, including all genes encoded on the same strand, uncommon but not unique duplicated trnM gene, as well as a number of unique features. Their comparatively large size (17,673 bp) can be attributed to four non-coding regions larger than 500 bp. We identifed an unusually large (putative) overlap of 14 bases between nad2 and cox1 genes in both species. Importantly, the two species exhibited completely rearranged gene orders in comparison to all other available mitogenomes. Along with Serpulidae and Sabellidae, Polydora is the third identifed sedentarian lineage that exhibits disproportionally elevated rates of mitogenomic architecture rearrangements. Selection analyses indicate that these three lineages also exhibited relaxed purifying selection pressures. Abbreviations NCR Non-coding region PCG Protein-coding gene Metazoan mitochondrial genomes (mitogenomes) usually encode the set of 37 genes, comprising 2 rRNAs, 22 tRNAs, and 13 proteins, encoded on both genomic strands. -
A Bioturbation Classification of European Marine Infaunal
A bioturbation classification of European marine infaunal invertebrates Ana M. Queiros 1, Silvana N. R. Birchenough2, Julie Bremner2, Jasmin A. Godbold3, Ruth E. Parker2, Alicia Romero-Ramirez4, Henning Reiss5,6, Martin Solan3, Paul J. Somerfield1, Carl Van Colen7, Gert Van Hoey8 & Stephen Widdicombe1 1Plymouth Marine Laboratory, Prospect Place, The Hoe, Plymouth, PL1 3DH, U.K. 2The Centre for Environment, Fisheries and Aquaculture Science, Pakefield Road, Lowestoft, NR33 OHT, U.K. 3Department of Ocean and Earth Science, National Oceanography Centre, University of Southampton, Waterfront Campus, European Way, Southampton SO14 3ZH, U.K. 4EPOC – UMR5805, Universite Bordeaux 1- CNRS, Station Marine d’Arcachon, 2 Rue du Professeur Jolyet, Arcachon 33120, France 5Faculty of Biosciences and Aquaculture, University of Nordland, Postboks 1490, Bodø 8049, Norway 6Department for Marine Research, Senckenberg Gesellschaft fu¨ r Naturforschung, Su¨ dstrand 40, Wilhelmshaven 26382, Germany 7Marine Biology Research Group, Ghent University, Krijgslaan 281/S8, Ghent 9000, Belgium 8Bio-Environmental Research Group, Institute for Agriculture and Fisheries Research (ILVO-Fisheries), Ankerstraat 1, Ostend 8400, Belgium Keywords Abstract Biodiversity, biogeochemical, ecosystem function, functional group, good Bioturbation, the biogenic modification of sediments through particle rework- environmental status, Marine Strategy ing and burrow ventilation, is a key mediator of many important geochemical Framework Directive, process, trait. processes in marine systems. In situ quantification of bioturbation can be achieved in a myriad of ways, requiring expert knowledge, technology, and Correspondence resources not always available, and not feasible in some settings. Where dedi- Ana M. Queiros, Plymouth Marine cated research programmes do not exist, a practical alternative is the adoption Laboratory, Prospect Place, The Hoe, Plymouth PL1 3DH, U.K. -
In Worms Geoff Read NIWA New Zealand
Brussels, 28-30 September Polychaeta (Annelida) in WoRMS Geoff Read NIWA New Zealand www.marinespecies.org/polychaeta/index.php Context interface Swimming — an unexpected skill of Polychaeta Acrocirridae Alciopidae Syllidae Nereididae Teuthidodr ilus = squidworm Acrocirridae Polynoidae Swima bombiviridis Syllidae Total WoRMS Polychaeta records, excluding fossils 91 valid families. Entries >98% editor checked, except Echiura (69%) Group in WoRMS all taxa all species valid species names names names Class Polychaeta 23,872 20,135 11,615 Subclass Echiura 296 234 197 Echiura were recently a Subclass Errantia 12,686 10,849 6,210 separate phylum Subclass Polychaeta incertae sedis 354 265 199 Subclass Sedentaria 10,528 8,787 5,009 Non-marine Polychaeta 28 16 (3 terrestrial) Class Clitellata* 1601 1086 (279 Hirudinea) *Total valid non-leech clitellates~5000 spp, 1700 aquatic. (Martin et al. 2008) Annelida diversity "It is now clear that annelids, in addition to including a large number of species, encompass a much greater disparity of body plans than previously anticipated, including animals that are segmented and unsegmented, with and without parapodia, with and without chaetae, coelomate and acoelomate, with straight guts and with U-shaped digestive tracts, from microscopic to gigantic." (Andrade et al. 2015) Andrade et al (2015) “Articulating “archiannelids”: Phylogenomics and annelid relationships, with emphasis on meiofaunal taxa.” Molecular Biology and Evolution, efirst Myzostomida (images Summers et al)EV Nautilus: Riftia Semenov: Terebellidae Annelida latest phylogeny “… it is now well accepted that Annelida includes many taxa formerly considered different phyla or with supposed affiliations with other animal groups, such as Sipuncula, Echiura, Pogonophora and Vestimentifera, Myzostomida, or Diurodrilida (Struck et al. -
Taxonomy and Distribution of Pectinariidae (Annelida) from Iceland with a Comparative Analysis of Uncinal Morphology
European Journal of Taxonomy 666: 1–32 ISSN 2118-9773 https://doi.org/10.5852/ejt.2020.666 www.europeanjournaloftaxonomy.eu 2020 · Parapar J. et al. This work is licensed under a Creative Commons Attribution License (CC BY 4.0). Research article urn:lsid:zoobank.org:pub:2E0FAA1D-DA9A-4486-805F-9DA3DF928539 Taxonomy and distribution of Pectinariidae (Annelida) from Iceland with a comparative analysis of uncinal morphology Julio PARAPAR 1,*, Verónica PALOMANES 2, Gudmundur V. HELGASON 3 & Juan MOREIRA 4 1,2 Departamento de Bioloxía, Universidade da Coruña, 15008 A Coruña, Spain. 3 Deceased 9 May 2020. Former addresss: RORUM ehf., Brynjólfsgötu 5, 107 Reykjavík, Iceland. 4 Departamento de Biología (Zoología), Universidad Autónoma de Madrid, Cantoblanco, 28049 Madrid, Spain. 4 Centro de Investigación en Biodiversidad y Cambio Global (CIBC-UAM), Universidad Autónoma de Madrid, 28049 Madrid, Spain. * Corresponding author: [email protected] 2 Email: [email protected] 4 Email: [email protected] 1 urn:lsid:zoobank.org:author:CE188F30-C9B0-44B1-8098-402D2A2F9BA5 2 urn:lsid:zoobank.org:author:6C644341-D35B-42B6-9857-5F119457A424 3 urn:lsid:zoobank.org:author:32B3520E-1D49-4B77-BF81-2AAE3FE76363 4 urn:lsid:zoobank.org:author:B1E38B9B-7751-46E0-BEFD-7C77F7BBBEF0 This paper is dedicated to Guðmundur Vidir Helgason who passed away on 9 May 2020, just before publication of this paper. Project Manager at RORUM, an environmental research and consulting company, he was previously a Project Coordinator for the BIOICE program (Benthic Invertebrates of Icelandic Waters) and Director of the Sandgerði Marine Centre from 1992 to 2013, being one of the organizers of the 7th International Polychaete Conference (Reykjavík, July 2001). -
Habitats Et Communautés Benthiques Du Bassin Oriental De La Manche
UNIVERSITE LILLE NORD DE FRANCE ECOLE DOCTORALE Sciences de la Matière, du Rayonnement et de l’Environnement Thèse pour obtenir le grade de DOCTEUR DE L’UNIVERSITE LILLE 1 Discipline : Géosciences, Ecologie, Paléontologie, Océanographie Par Aurélie FOVEAU HABITATS ET COMMUNAUTES BENTHIQUES DU BASSIN ORIENTAL DE LA MANCHE : ETAT DES LIEUX AU DEBUT DU XXIème SIECLE Soutenue le 14 décembre 2009 devant un jury composé de : Roger COGGAN, CEFAS Examinateur Jean‐Claude DAUVIN, professeur, Université Lille 1 Co‐directeur de thèse Steven DEGRAER, Royal Belgian Institute of Natural Sciences Rapporteur Nicolas DESROY, cadre de recherche, IFREMER Co‐directeur de thèse Jean‐Marie DEWARUMEZ, ingénieur de recherche, CNRS Co‐directeur de thèse Christian HILY, chargé de recherche, CNRS Rapporteur François SCHMITT, directeur de recherche, CNRS Examinateur Alain TRENTESAUX, professeur, Université Lille 1 Président du Jury 1 RESUME Cette étude est consacrée à la réactualisation de la distribution spatiale des communautés macrobenthiques du bassin oriental de la Manche au début des années 2000, avec une comparaison avec celles identifiées par L. Cabioch et ses collaborateurs pour la période 1971-1976. La distribution des communautés macrobenthiques étant régie pro parte par la couverture sédimentaire, la nature des fonds du bassin oriental de la Manche a été caractérisée et cartographiée à partir de la classification de Folk pour les deux périodes étudiées. Une relative stabilité de la couverture sédimentaire a été mise en évidence : 69 % de la zone étudiée présentant peu ou pas de changements. Ces observations ont été mises en relation avec l’hydrodynamisme, facteur structurant dominant de la couverture sédimentaire en Manche. Les zones où un changement est observable se situent dans les baies, à la sortie des estuaires et à proximité des zones connues de bancs de sable. -
Soil-Dwelling Polychaetes: Enigmatic As Ever? Some Hints on Their
Contributions to Zoology, 70 (3) 127-138 (2001) SPB Academic Publishing bv, The Hague Soil-dwelling polychaetes: enigmatic as ever? Some hints on their phylogenetic relationships as suggested by a maximum parsimony analysis of 18S rRNA gene sequences ³ Emilia Rota Patrick Martin² & Christer Erséus ¹, 1 di Dipartimento Biologia Evolutivei. Universitd di Siena, via P. A. Mattioli 4. IT-53100 Siena, Italy, e-mail: 2 Institut des Sciences naturelles de des [email protected]; royal Belgique, Biologic Eaux donees, 29 rue Vautier, B-1000 e-mail: 3 Bruxelles, Belgium, [email protected]; Department of Invertebrate Zoology, Swedish Museum of Natural History, Box 50007, SE-104 05 Stockholm, Sweden, e-mail: [email protected] Keywords: Terrestrial Polychaeta, Parergodrilus heideri, Stygocapitella subterranea, Hrabeiella I8S rRNA periglandulata, gene, molecular phylogeny, rapid radiation Abstract Collectionof new specimens 130 DNA extraction, amplification and sequencing 130 Alignment To re-evaluate 130 the various hypotheses on the systematic position of Phylogenetic analyses 130 Parergodrilus heideri Reisinger, 1925 and Hrabeiella Results 132 periglandulata Pizl & Chalupský, 1984,the sole truly terrestrial Discussion 132 non-clitellateannelidsknown to date, their phylogenetic relation- ships Acknowledgements 136 were investigated using a data set of new 18S rDNA References 136 of sequences these and other five relevant annelid taxa, including an unknown of species Ctenodrilidae, as well as homologous sequences available for 18 already polychaetes, one aphano- neuran, 11 clitellates, two pogonophorans, one echiuran, one Introduction sipunculan, three molluscs and two arthropods. Two different alignments were constructed, according to analgorithmic method terrestrial forms constitute (Clustal Truly a tiny minority W) and on the basis of a secondary structure model non-clitellate annelids, (DCSE), A maximum parsimony analysis was performed with among only represented by arthropods asan unambiguous outgroup.