Additions to and Revisions of the Amphipod (Crustacea: Amphipoda) Fauna of South Africa, with a List of Currently Known Species from the Region
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Complete Transcriptome Assembly and Annotation of a Critically Important
Environment International 137 (2020) 105319 Contents lists available at ScienceDirect Environment International journal homepage: www.elsevier.com/locate/envint Complete transcriptome assembly and annotation of a critically important amphipod species in freshwater ecotoxicological risk assessment: Gammarus T fossarum ⁎ Domenico R. Caputoa,1, Samuel C. Robsonb,1, Inge Wernerc, Alex T. Forda, a Institute of Marine Sciences, School of Biological Sciences, University of Portsmouth, Ferry Road, Portsmouth PO4 9LY, UK b Centre for Enzyme Innovation, St. Michael's Building, University of Portsmouth, White Swan Road, Portsmouth PO1 2DT, UK c Swiss Centre for Applied Ecotoxicology, Eawag - EPFL, Überlandstrasse 133, 8600 Dübendorf, Switzerland ARTICLE INFO ABSTRACT Handling Editor: Hefa Cheng Because of their crucial role in ecotoxicological risk assessment, amphipods (Crustacea) are commonly employed Keywords: as model species in a wide range of studies. However, despite their ecological importance, their genome has not Gammarus fossarum yet been completely annotated and molecular mechanisms underlying key pathways, such as the serotonin RNA sequencing pathway, in development of ecotoxicological biomarkers of exposure to neuroactive pharmaceuticals are still De novo assembly poorly understood. Furthermore, genetic similarities and discrepancies with other model arthropods (e.g., Serotonin pathway Drosophila melanogaster) have not been completely clarified. In this report, we present a new transcriptome assembly of Gammarus fossarum, an important amphipod species, widespread in Central Europe. RNA-Seq with Illumina HiSeq technology was used to analyse samples extracted from total internal tissues. We used the Trinity and Trinotate software suites for transcriptome assembly and annotation, respectively. The quality of this as- sembly and the affiliated targeted homology searches greatly enrich the molecular knowledge on this species. -
Crustacea: Amphipoda: Cyphocarididae) from Japan
Bull. Natl. Mus. Nat. Sci., Ser. A, Suppl. 3, pp. 37–46, March 22, 2009 A New Species of the Genus Cyphocaris (Crustacea: Amphipoda: Cyphocarididae) from Japan Ko Tomikawa Department of Science Education, Graduate School of Education, Hiroshima University, Higashi-Hiroshima 739–8524, Japan E-mail: [email protected] Abstract Cyphocaris ohtsukai, a new amphipod species belonging to the family Cyphocarididae from Japan, is described and illustrated. The new species is similar to C. anonyx, C. cornuta, and C. geyserensis in having a serrate ventral margin of the spur on the posterior margin of the basis of the pereopod 5. However, the new species is distinguished from them by the combination of the following characters: the eyes are incomplete; the ventral margin of the spur on the posterior mar- gin of the basis of the pereopod 5 is multi-dentate; the spur of the basis of the pereopod 5 is long; and the telson almost reaches the posterior end of the uropod 3. A key to species of the family Cyphocarididae is provided. Key words : Amphipoda, Cyphocarididae, Cyphocaris ohtsukai, new species, Japan, key to species. The amphipod family Cyphocarididae com- Materials and Methods prises two genera, Cyphocaris Boeck, 1871 and Amphipods were captured using a sledge net Procyphocaris Barnard, 1961. Members of the (mouth opening 145 cmϫ15 cm, mesh opening major genus, Cyphocaris, are pelagic or demersal 328 mm) at one station in the Nansei Islands, micropredators with cosmopolitan distributions southwestern Japan. The gear was towed along (Lowry and Stoddart, 2003). To date, 12 species the bottom at a speed of 2 knots for 20 minutes of the genus are known from the world oceans by the T/S Toyoshio-Maru. -
Phylogeny and Phylogeography of the Family Hyalidae (Crustacea: Amphipoda) Along the Northeast Atlantic Coasts
ALMA MATER STUDIORUM UNIVERSITÀ DI BOLOGNA SCUOLA DI SCIENZE - CAMPUS DI RAVENNA CORSO DI LAUREA MAGISTRALE IN BIOLOGIA MARINA Phylogeny and phylogeography of the family Hyalidae (Crustacea: Amphipoda) along the northeast Atlantic coasts Tesi di laurea in Alterazione e Conservazione degli Habitat Marini Relatore Presentata da Prof. Marco Abbiati Andrea Desiderato Correlatore Prof. Henrique Queiroga II sessione Anno accademico 2014/2015 “...Nothing at first can appear more difficult to believe than that the more complex organs and instincts should have been perfected, not by means superior to, though analogous with, human reason, but by the accumulation of innumerable slight variations, each good for the individual possessor…” (Darwin 1859) 1 1) Index 1) Index ------------------------------------------------------------------------------------------------ 2 2) Abstract ------------------------------------------------------------------------------------------- 3 3) Introduction ------------------------------------------------------------------------------------- 4 a) Hyalidae Bulycheva, 1957 ----------------------------------------------------------------- 4 b) Phylogeny -------------------------------------------------------------------------------------- 6 i) Phylogeny of Hyalidae -------------------------------------------------------------------- 7 c) The DNA barcode --------------------------------------------------------------------------- 8 d) Apohyale prevostii (Milne Edwars, 1830) --------------------------------------------- 9 -
Keys to the Hawaiian Marine Gammaridea, 0-30 Meters
J. LAURENS BARNt Keys to the Hawaiian Marine Gammaridea, 0-30 Meters SMITHSONIAN CONTRIBUTIONS TO ZOOLOGY NUMBER 58 SERIAL PUBLICATIONS OF THE SMITHSONIAN INSTITUTION The emphasis upon publications as a means of diffusing knowledge was expressed by the first Secretary of the Smithsonian Institution. In his formal plan for the Insti- tution, Joseph Henry articulated a program that included the following statement: "It is proposed to publish a series of reports, giving an account of the new discoveries in science, and of the changes made from year to year in all branches of knowledge not strictly professional." This keynote of basic research has been adhered to over the years in the issuance of thousands of titles in serial publications under the Smithsonian imprint, commencing with Smithsonian Contributions to Knowledge in 1848 and continuing with the following active series: Smithsonian Annals of Flight Smithsonian Contributions to Anthropology Smithsonian Contributions to Astrophysics Smithsonian Contributions to Botany Smithsonian Contributions to the Earth Sciences Smithsonian Contributions to Paleobiology Smithsonian Contributions to Z0°l°iy Smithsonian Studies in History and Technology In these series, the Institution publishes original articles and monographs dealing with the research and collections of its several museums and offices and of professional colleagues at other institutions of learning. These papers report newly acquired facts, synoptic interpretations of data, or original theory in specialized fields. Each publica- tion is distributed by mailing lists to libraries, laboratories, institutes, and interested specialists throughout the world. Individual copies may be obtained from the Smith- sonian Institution Press as long as stocks are available. S. DILLON RIPLEY Secretary Smithsonian Institution SMITHSONIAN CONTRIBUTIONS TO ZOOLOGY NUMBER 58 j. -
Boletín En Versión
64 2015 CHILE ISSN - 0027 - 3910 64BOLETIN MUSEO NACIONAL DE HISTORIA NATURAL CHILE MUSEO NACIONAL DE HISTORIA NATURAL DE HISTORIA MUSEO NACIONAL Boletín del Museo Nacional de Historia Natural, Chile - Nº 64 - 284 p. - 2015 BOLETIN 64ISSN - 0027 - 3910 BOLETIN MUSEO NACIONAL DE HISTORIA NATURAL CHILE Boletín del Museo Nacional de Historia Natural, Chile - Nº 64 - 284 p. - 2015 MINISTERIO DE EDUCACIÓN PÚBLICA Ministra de Educación Adriana Delpiano Puelma Subsecretaria de Educación Valentina Quiroga Canahuate Dirección de Bibliotecas, Ángel Cabeza Monteira Archivos y Museos Diagramación Herman Núñez Ajustes de diagramación Milka Marinov BOLETÍN DEL MUSEO NACIONAL DE HISTORIA NATURAL DE CHILE Director Claudio Gómez P. Editor Herman Núñez C. Coeditores Jhoann Canto H. David Rubilar R. Francisco Urra L. Comité Editorial Mario Elgueta D. Gloria Rojas V. David Rubilar R. Rubén Stehberg L. José Yáñez V. (c) Dirección de Bibliotecas, Archivos y Museos Inscripción Nº Edición de 100 ejemplares Museo Nacional de Historia Natural Casilla 787 Santiago de Chile www.mnhn.cl Este volumen se encuentra disponible en soporte electrónico como disco compacto Contribución del Museo Nacional de Historia Natural al Programa del Conocimiento y Preservación de la Diversidad Biológica Las opiniones vertidad en cada uno de los artículos publicados son de exclusiva responsabilidad del (de los) autor (es) respectivo (s) BOLETÍN DEL MUSEO NACIONAL DE HISTORIA NATURAL CHILE 2015 64 SUMARIO ÁNGEL CABEZA MONTEIRA Prólogo ..........................................................................................................................................................7 -
University of Groningen Marine Benthic Metabarcoding
University of Groningen Marine benthic metabarcoding Klunder, Lise Margriet DOI: 10.33612/diss.135301602 IMPORTANT NOTE: You are advised to consult the publisher's version (publisher's PDF) if you wish to cite from it. Please check the document version below. Document Version Publisher's PDF, also known as Version of record Publication date: 2020 Link to publication in University of Groningen/UMCG research database Citation for published version (APA): Klunder, L. M. (2020). Marine benthic metabarcoding: Anthropogenic effects on benthic diversity from shore to deep sea; assessed by metabarcoding and traditional taxonomy. University of Groningen. https://doi.org/10.33612/diss.135301602 Copyright Other than for strictly personal use, it is not permitted to download or to forward/distribute the text or part of it without the consent of the author(s) and/or copyright holder(s), unless the work is under an open content license (like Creative Commons). Take-down policy If you believe that this document breaches copyright please contact us providing details, and we will remove access to the work immediately and investigate your claim. Downloaded from the University of Groningen/UMCG research database (Pure): http://www.rug.nl/research/portal. For technical reasons the number of authors shown on this cover page is limited to 10 maximum. Download date: 26-12-2020 CHAPTER 2 Diversity of Wadden Sea macrofauna and meiofauna communities highest in DNA from extractions preceded by cell lysis Lise Klunder Gerard C.A. Duineveld Marc S.S. Lavaleye Henk W. van der Veer Per J. Palsbøll Judith D.L. van Bleijswijk Manuscript published in Journal of Sea Research 152 (2019) Chapter 2 ABSTRACT Metabarcoding of genetic material in environmental samples has increasingly been employed as a means to assess biodiversity, also of marine benthic communities. -
Facts and Arguments for Darwin
22102077550 Med K3642 #• Digitized by the Internet Archive in 2017 with funding from Wellcome Library https://archive.org/details/b29338426 FACTS AND ARGUMENTS FOR DARWIN. BY FRITZ MÜLLER. WITH ADDITIONS BY THE AUTHOR TRANSLATED FROM THE GERMAN By W. S. DALLAS, F.L.S., ASSISTANT SECRETARY TO THE GEOLOGICAL SOCIETY OF LONDON. WITH ILLUSTRATIONS. LONDON: JOHN MURRAY, ALBEMARLE STREET. 1869. EI'/fL.U TT Cblj T« til ! 1a^: MB. DARWIN’S WORKS. A NATURALIST’S VOYAGE ROUND THE WORLD ; being a Journal of Researches into the Natural History and Geology of Couktries Visited. Post 8vo. 9s. THE ORIGIN of SPECIES, by MEANS of NATURAL SELECTION"; or, The Preservation of Favoured Races in the Struggle for Life. Woodcuts. Post 8vo. 15s. THE VARIOUS CONTRIVANCES by wbicb BRITISH and FOREIGN ORCHIDS are FERTILIZED by INSECTS, and on the GOOD EFFECTS of INTERCROSSING. Woodcuts. Post 8vo. 9s. THE VARIATION OF ANIMALS AND PLANTS UNDER DOMESTICATION. Illustrations. 2 vols., 8vo. 28s. TRANSLATOR’S PREFACE. My principal reason for undertaking the translation of Dr. Fritz Muller’s admirable work on the Crustacea, entitled ‘Für Darwin,’ was that it was still, although published as long ago as 1864, and highly esteemed by the author’s scientific countrymen, absolutely unknown to a great number of English naturalists, including some who have occupied themselves more or less specially with the subjects of which it treats. It possesses a value quite independent of its reference to Darwinism, due to the number of highly interesting and important facts in the natural history and par¬ ticularly the developmental history of the Crustacea, which its distinguished author, himself an unwearied and original investigator of these matters, has brought together in it. -
The 17Th International Colloquium on Amphipoda
Biodiversity Journal, 2017, 8 (2): 391–394 MONOGRAPH The 17th International Colloquium on Amphipoda Sabrina Lo Brutto1,2,*, Eugenia Schimmenti1 & Davide Iaciofano1 1Dept. STEBICEF, Section of Animal Biology, via Archirafi 18, Palermo, University of Palermo, Italy 2Museum of Zoology “Doderlein”, SIMUA, via Archirafi 16, University of Palermo, Italy *Corresponding author, email: [email protected] th th ABSTRACT The 17 International Colloquium on Amphipoda (17 ICA) has been organized by the University of Palermo (Sicily, Italy), and took place in Trapani, 4-7 September 2017. All the contributions have been published in the present monograph and include a wide range of topics. KEY WORDS International Colloquium on Amphipoda; ICA; Amphipoda. Received 30.04.2017; accepted 31.05.2017; printed 30.06.2017 Proceedings of the 17th International Colloquium on Amphipoda (17th ICA), September 4th-7th 2017, Trapani (Italy) The first International Colloquium on Amphi- Poland, Turkey, Norway, Brazil and Canada within poda was held in Verona in 1969, as a simple meet- the Scientific Committee: ing of specialists interested in the Systematics of Sabrina Lo Brutto (Coordinator) - University of Gammarus and Niphargus. Palermo, Italy Now, after 48 years, the Colloquium reached the Elvira De Matthaeis - University La Sapienza, 17th edition, held at the “Polo Territoriale della Italy Provincia di Trapani”, a site of the University of Felicita Scapini - University of Firenze, Italy Palermo, in Italy; and for the second time in Sicily Alberto Ugolini - University of Firenze, Italy (Lo Brutto et al., 2013). Maria Beatrice Scipione - Stazione Zoologica The Organizing and Scientific Committees were Anton Dohrn, Italy composed by people from different countries. -
The National Marine Biological Analytical Quality Control Scheme
The National Marine Biological Analytical Quality Control Scheme Macrobenthic Exercise Results – MB19 Jessica Taylor & David Hall [email protected] June 2012 Thomson Unicomarine Ltd. 7 Diamond Centre Works Road Letchworth Hertfordshire SG6 1LW www.unicomarine.com EXERCISE DETAILS Macrobenthos #19 Type/Contents – Natural marine sample from southern North Sea; approx. 0.5 litres of shell debris; 1 mm sieve mesh processing. Circulated – 05/09/2011 Completion Date – 02/12/2011 Number of Participating Laboratories – 9 Number of Results Received – 7 ______________________________________________________________________________ Contents Results Sheets 1 - 7. NMBAQC Scheme Interim Results – Macrobenthic exercise (MB19). Tables Table 1. Results from the analysis of Macrobenthic sample MB19 by the participating laboratories. Table 2. Comparison of the efficiency of extraction of fauna by the participating laboratories for the major taxonomic groups present in sample MB19. Table 3. Comparison of the estimates of biomass made by the participating laboratories with those made by Thomson Unicomarine Ltd. for the major taxonomic groups present in sample MB19. Table 5. Variation in faunal content reported for the artificial replicate samples distributed as MB19. Figures Figure 1. MB19 data from participating laboratories (raw - untransformed). Cluster dendrogram showing plotted data from participating laboratories as supplied. Figure 2. MB19 data reanalysed by Thomson Unicomarine Ltd. Cluster dendrogram showing plotted data from participating laboratories following reanalysis by Thomson Unicomarine Ltd. (untransformed). All residues and fauna have been reanalysed. No data truncation – all faunal groups included. Appendices Appendix 1 MB19 Instructions for participation. NMBAQC Scheme Interim Results LabCode LB1802 Summary Data SampleCode MB19 Diff. In No. Taxa -6 Sample Received 16/01/2012 Diff. -
Greater Amphipod Diversity Associated with Environmental Heterogeneity in Deep-Sea Habitats……………………………………………………………
http://researchcommons.waikato.ac.nz/ Research Commons at the University of Waikato Copyright Statement: The digital copy of this thesis is protected by the Copyright Act 1994 (New Zealand). The thesis may be consulted by you, provided you comply with the provisions of the Act and the following conditions of use: Any use you make of these documents or images must be for research or private study purposes only, and you may not make them available to any other person. Authors control the copyright of their thesis. You will recognise the author’s right to be identified as the author of the thesis, and due acknowledgement will be made to the author where appropriate. You will obtain the author’s permission before publishing any material from the thesis. Diversity of New Zealand Deep-sea Amphipoda A thesis submitted in fulfilment of the requirements for the degree of Doctor of Philosophy at The University of Waikato by MATTHEW ANDREW KNOX 2012 i ABSTRACT Biodiversity and the ecological and evolutionary processes which influence faunal distributions are poorly understood in deep-sea habitats. This thesis assesses diversity of deep-sea amphipod crustaceans at three taxonomic levels (family, species, genetic) on continental margins of New Zealand relative to environmental variables. Sampling was undertaken at 20 stations located on Chatham Rise and Challenger Plateau, two major geomorphic features with contrasting environmental conditions. In Chapter 1, total diversity of the >12,500 amphipods assessed at the family-level revealed high abundance (range: 44 – 2074 individuals 1000 m-2) and taxonomic richness (27 families). Amphipod assemblages at all stations were largely dominated by the same families. -
(Crustacea : Amphipoda) of the Lower Chesapeake Estuaries
W&M ScholarWorks Reports 1971 The distribution and ecology of the Gammaridea (Crustacea : Amphipoda) of the lower Chesapeake estuaries James Feely Virginia Institute of Marine Science Marvin L. Wass Virginia Institute of Marine Science Follow this and additional works at: https://scholarworks.wm.edu/reports Part of the Marine Biology Commons, Oceanography Commons, Terrestrial and Aquatic Ecology Commons, and the Zoology Commons Recommended Citation Feely, J., & Wass, M. L. (1971) The distribution and ecology of the Gammaridea (Crustacea : Amphipoda) of the lower Chesapeake estuaries. Special papers in marine science No.2. Virginia Institute of Marine Science, College of William and Mary. http://doi.org/10.21220/V5H01D This Report is brought to you for free and open access by W&M ScholarWorks. It has been accepted for inclusion in Reports by an authorized administrator of W&M ScholarWorks. For more information, please contact [email protected]. THE DISTRIBUTION AND ECOLOGY OF THE GAMMARIDEA (CRUSTACEA: AMPHIPODA) OF THE LOWER CHESAPEAKE ESTUARIES James B. Feeley and Marvin L. Wass SPECIAL PAPERS IN MARINE SCIENCE NO. 2 VIRGIN IA INSTITUTE OF MARINE SC IE NCE Gloucester Point, Virginia 23062 1971 THE DISTRIBUTION AND ECOLOGY OF THE GAMMARIDEA (CRUSTACEA: AMPHIPODA) OF THE LOWER 1 CHESAPEAKE ESTUARIES James B. Feeley and Marvin L. Wass SPECIAL PAPERS IN MARINE SCIENCE NO. 2 1971 VIRGINIA INSTITUTE OF MARINE SCIENCE Gloucester Point, Virginia 23062 This document is in part a thesis by James B. Feeley presented to the School of Marine Science of the College of William and Mary in Virginia in partial fulfillment of the requirements for the degree of Master of Arts. -
Annual Report 2010–2011
Australian Museum 2010–2011 Report Annual Australian Museum Annual Report 2010–2011 Australian Museum Annual Report 2010 – 2011 ii Australian Museum Annual Report 2010 –11 The Australian Museum Annual Report 2010 –11 Availability is published by the Australian Museum Trust, This annual report has been designed for accessible 6 College Street Sydney NSW 2010. online use and distribution. A limited number of copies have been printed for statutory purposes. © Australian Museum Trust 2011 This report is available at: ISSN 1039-4141 www.australianmuseum.net.au/Annual-Reports. Editorial Further information on the research and education Project management: Wendy Rapee programs and services of the Australian Museum Editing and typesetting: Brendan Atkins can be found at www.australianmuseum.net.au. Proofreading: Lindsay Taaffe Design and production: Australian Museum Environmental responsibility Design Studio Printed on Sovereign Offset, an FSC- certified paper from responsibly grown fibres, made under an All photographs © Australian Museum ISO 14001– accredited environmental management 2011, unless otherwise indicated. system and without the use of elemental chlorine. Contact Australian Museum 6 College Street Sydney NSW 2010 Open daily 9.30 am – 5.00 pm t 02 9320 6000 f 02 9320 6050 e [email protected] w www.australianmuseum.net.au www.facebook.com/australianmuseum www.twitter.com/austmus www.youtube.com/austmus front cover: The Museum's after-hours program, Jurassic Lounge, attracted a young adult audience to enjoy art, music and new ideas. Photo Stuart Humphreys. iii Minister The Hon. George Souris, MP and Minister for the Arts Governance The Museum is governed by a Trust established under the Australian Museum Trust Act 1975.