Cladistic Revision of Talitroidean Amphipods (Crustacea, Gammaridea), with a Proposal of a New Classification
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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. -
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 -
A New Species of the Genus Hyalella (Crustacea, Amphipoda) from Northern Mexico
ZooKeys 942: 1–19 (2020) A peer-reviewed open-access journal doi: 10.3897/zookeys.942.50399 RESEARCH ARTicLE https://zookeys.pensoft.net Launched to accelerate biodiversity research A new species of the genus Hyalella (Crustacea, Amphipoda) from northern Mexico Aurora Marrón-Becerra1, Margarita Hermoso-Salazar2, Gerardo Rivas2 1 Posgrado en Ciencias del Mar y Limnología, Universidad Nacional Autónoma de México; Av. Ciudad Univer- sitaria 3000, C.P. 04510, Coyoacán, Ciudad de México, México 2 Facultad de Ciencias, Universidad Nacional Autónoma de México; Av. Ciudad Universitaria 3000, C.P. 04510, Coyoacán, Ciudad de México, México Corresponding author: Aurora Marrón-Becerra ([email protected]) Academic editor: T. Horton | Received 22 January 2020 | Accepted 4 May 2020 | Published 18 June 2020 http://zoobank.org/85822F2E-D873-4CE3-AFFB-A10E85D7539F Citation: Marrón-Becerra A, Hermoso-Salazar M, Rivas G (2020) A new species of the genus Hyalella (Crustacea, Amphipoda) from northern Mexico. ZooKeys 942: 1–19. https://doi.org/10.3897/zookeys.942.50399 Abstract A new species, Hyalella tepehuana sp. nov., is described from Durango state, Mexico, a region where stud- ies on Hyalella have been few. This species differs from most species of the North and South American genus Hyalella in the number of setae on the inner plate of maxilla 1 and maxilla 2, characters it shares with Hyalella faxoni Stebbing, 1903. Nevertheless, H. faxoni, from the Volcan Barva in Costa Rica, lacks a dorsal process on pereionites 1 and 2. Also, this new species differs from other described Hyalella species in Mex- ico by the shape of the palp on maxilla 1, the number of setae on the uropods, and the shape of the telson. -
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. -
The Endemic Gastropod Fauna of Lake Titicaca: Correlation Between
The endemic gastropod fauna of Lake Titicaca: correlation between molecular evolution and hydrographic history Oliver Kroll1, Robert Hershler2, Christian Albrecht1, Edmundo M. Terrazas3, Roberto Apaza4, Carmen Fuentealba5, Christian Wolff1 & Thomas Wilke1 1Department of Animal Ecology and Systematics, Justus Liebig University Giessen, Germany 2National Museum of Natural History, Smithsonian Institution, Washington, D.C. 3Facultad de Ciencias Biologicas, Universidad Nacional del Altiplano, Puno, Peru 4Instituto de Ecologıa,´ Universidad Mayor de San Andres, La Paz, Bolivia 5Departamento de Zoologia, Universidad de Concepcion, Chile Keywords Abstract Altiplano, Heleobia, molecular clock, phylogeography, species flock. Lake Titicaca, situated in the Altiplano high plateau, is the only ancient lake in South America. This 2- to 3-My-old (where My is million years) water body has had Correspondence a complex history that included at least five major hydrological phases during the Thomas Wilke, Department of Animal Ecology Pleistocene. It is generally assumed that these physical events helped shape the evo- and Systematics, Justus Liebig University lutionary history of the lake’s biota. Herein, we study an endemic species assemblage Giessen, Heinrich Buff Ring 26–32 (IFZ), 35392 in Lake Titicaca, composed of members of the microgastropod genus Heleobia,to Giessen, Germany. Tel: +49-641-99-35720; determine whether the lake has functioned as a reservoir of relic species or the site Fax: +49-641-99-35709; of local diversification, to evaluate congruence of the regional paleohydrology and E-mail: [email protected] the evolutionary history of this assemblage, and to assess whether the geographic distributions of endemic lineages are hierarchical. Our phylogenetic analyses in- Received: 17 February 2012; Revised: 19 April dicate that the Titicaca/Altiplano Heleobia fauna (together with few extralimital 2012; Accepted: 23 April 2012 taxa) forms a species flock. -
Pu'u Wa'awa'a Biological Assessment
PU‘U WA‘AWA‘A BIOLOGICAL ASSESSMENT PU‘U WA‘AWA‘A, NORTH KONA, HAWAII Prepared by: Jon G. Giffin Forestry & Wildlife Manager August 2003 STATE OF HAWAII DEPARTMENT OF LAND AND NATURAL RESOURCES DIVISION OF FORESTRY AND WILDLIFE TABLE OF CONTENTS TITLE PAGE ................................................................................................................................. i TABLE OF CONTENTS ............................................................................................................. ii GENERAL SETTING...................................................................................................................1 Introduction..........................................................................................................................1 Land Use Practices...............................................................................................................1 Geology..................................................................................................................................3 Lava Flows............................................................................................................................5 Lava Tubes ...........................................................................................................................5 Cinder Cones ........................................................................................................................7 Soils .......................................................................................................................................9 -
Additions to and Revisions of the Amphipod (Crustacea: Amphipoda) Fauna of South Africa, with a List of Currently Known Species from the Region
Additions to and revisions of the amphipod (Crustacea: Amphipoda) fauna of South Africa, with a list of currently known species from the region Rebecca Milne Department of Biological Sciences & Marine Research Institute, University of CapeTown, Rondebosch, 7700 South Africa & Charles L. Griffiths* Department of Biological Sciences & Marine Research Institute, University of CapeTown, Rondebosch, 7700 South Africa E-mail: [email protected] (with 13 figures) Received 25 June 2013. Accepted 23 August 2013 Three species of marine Amphipoda, Peramphithoe africana, Varohios serratus and Ceradocus isimangaliso, are described as new to science and an additional 13 species are recorded from South Africa for the first time. Twelve of these new records originate from collecting expeditions to Sodwana Bay in northern KwaZulu-Natal, while one is an introduced species newly recorded from Simon’s Town Harbour. In addition, we collate all additions and revisions to the regional amphipod fauna that have taken place since the last major monographs of each group and produce a comprehensive, updated faunal list for the region. A total of 483 amphipod species are currently recognized from continental South Africa and its Exclusive Economic Zone . Of these, 35 are restricted to freshwater habitats, seven are terrestrial forms, and the remainder either marine or estuarine. The fauna includes 117 members of the suborder Corophiidea, 260 of the suborder Gammaridea, 105 of the suborder Hyperiidea and a single described representative of the suborder Ingolfiellidea. -
Crustacea: Amphipoda: Dogielinotidae) from the Nipa Palm in Thailand, with an Updated Key to the Genera
RESEARCH ARTICLE Discovery of a new genus and species of dogielinotid amphipod (Crustacea: Amphipoda: Dogielinotidae) from the Nipa palm in Thailand, with an updated key to the genera 1,2 3 4 Koraon WongkamhaengID *, Pongrat Dumrongrojwattana , Myung-Hwa Shin a1111111111 a1111111111 1 Department of Zoology, Faculty of Science, Kasetsart University, Bangkok, Thailand, 2 Coastal Oceanography and Climate Change Research Center, Prince of Songkla University, Hatyai, Songkhla, a1111111111 Thailand, 3 Department of Biology, Faculty of Science, Burapha University, Bangsaen, Chonburi, Thailand, a1111111111 4 National Marine Biodiversity Institute of Korea, Seocheon, South Korea a1111111111 * [email protected] Abstract OPEN ACCESS Citation: Wongkamhaeng K, Dumrongrojwattana During a scientific survey, a new genus of the dogielinotid amphipoda was found in the Nipa P, Shin M (2018) Discovery of a new genus and palm (Nypa fruticans) in Bang Krachao Urban Oasis, Samut Prakan Province, Thailand. We species of dogielinotid amphipod (Crustacea: placed this new genus, Allorchestoides gen. nov., within the family Dogielinotidae. The new Amphipoda: Dogielinotidae) from the Nipa palm in Thailand, with an updated key to the genera. PLoS taxa can be easily distinguished from the remaining genera by differences in the incisor of ONE 13(10): e0204299. https://doi.org/10.1371/ the left and right mandibles, apical robust setae of the maxilla 1, and the large coxa and journal.pone.0204299 strong obtuse palm in the female gnathopod 1. The type species of Allorchestoides gen. Editor: Feng Zhang, Nanjing Agricultural University, nov., Allorchestoides rosea n. sp., is described here in, with an updated key to the genera of CHINA the family Dogielinotidae. -
Zootaxa, Ceinidae
Zootaxa 2260: 328–332 (2009) ISSN 1175-5326 (print edition) www.mapress.com/zootaxa/ Article ZOOTAXA Copyright © 2009 · Magnolia Press ISSN 1175-5334 (online edition) Ceinidae* CHARLES OLIVER COLEMAN Humboldt-University, Museum für Naturkunde Berlin, Abteilung Sammlungen, D-10099 Berlin, Germany. ([email protected]) * In: Lowry, J.K. & Myers, A.A. (Eds) (2009) Benthic Amphipoda (Crustacea: Peracarida) of the Great Barrier Reef, Australia. Zootaxa, 2260, 1–930. Abstract Ceina gerlachae sp. nov. is described. It differs in the habitus from the closely related Ceina carinata (Pirlot) in the rounded anterior process of pereonite 1, an upright carina on pleonite 1, a short process on pleonite 3 and a few characters on the maxillipeds. Key words: Crustacea, Amphipoda, Ceinidae, Great Barrier Reef, Australia, taxonomy, new species, Ceina gerlachae Introduction The genus Ceina previously comprised only four species, which were classified until 1972 as Phliantidae. From these they differ by laterally compressed rather than dorsoventrally depressed bodies and an unflexed urosome. J.L. Barnard 1972 erected the family Ceinidae. Only one species of Ceina has been previously recorded from Australia: Ceina wannape Barnard, 1972. Materials and methods The descriptions were generated from a DELTA database (Dallwitz 2005). All material is lodged in the Australian Museum, Sydney (AM). A set of colour plates, a list of standard abbreviations and detailed station data is available in Lowry & Myers (2009). Illustrations were made using the methods described in Coleman (2003, 2006). A CD (Benthic Amphipoda (Crustacea: Peracarida) of the Great Barrier Reef: Interactive Keys) is available with the book or the keys can be accessed at the crustacea.net website. -
Effects of Fungicides on Australian Amphipods and Organic Matter Breakdown in Aquatic Environments
EFFECTS OF FUNGICIDES ON AUSTRALIAN AMPHIPODS AND ORGANIC MATTER BREAKDOWN IN AQUATIC ENVIRONMENTS Submitted by Hung Thi Hong Vu Submitted in fulfillment of the degree of Doctor of Philosophy February 2017 School of BioSciences Faculty of Science The University of Melbourne ABSTRACT Fungicides are used widely in agriculture to control fungal diseases and increase crop yield. After application, fungicides may be transported off site via air, soil and water to ground and surface waters therefore have the potential to contaminate freshwater and marine/estuarine environments. However, relatively little is known about their potential effects on aquatic ecosystems. Amphipods are important in ecosystem service as they help with nutrient recycling through the decomposition of organic matter. The aim of this thesis is to investigate the effects of common fungicides on biological responses in two Australian amphipod species, Allorchestes compressa and Austrochiltonia subtenuis, through a combination of single and mixture laboratory experiments. In addition a field experiment investigated the effects of fungicides on organic matter breakdown. In laboratory studies, juveniles of the marine amphipod A. compressa and the freshwater amphipod A.subtenuis were chronically exposed to two commonly used fungicides, Filan® (active ingredient boscalid) and Systhane™ (active ingredient myclobutanil) at environmentally relevant concentrations. A wide range of endpoints that encompass different levels of biological organization were measured including survival, growth, reproduction, and energy reserves (lipid, glycogen, and protein content). Long term interaction effects of fungicides Filan® and Systhane™ on mature amphipod A. subtenuis was also investigated to evaluate how the results of mixture studies vary between endpoints and to determine suitable endpoints for mixture toxicity studies. -
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. -
Phylogenomics of the Hyalella Amphipod Species-Flock of The
www.nature.com/scientificreports OPEN Phylogenomics of the Hyalella amphipod species‑fock of the Andean Altiplano Francesco Zapelloni1,3, Joan Pons2,3, José A. Jurado‑Rivera1, Damià Jaume2 & Carlos Juan1,2* Species diversifcation in ancient lakes has enabled essential insights into evolutionary theory as they embody an evolutionary microcosm compared to continental terrestrial habitats. We have studied the high‑altitude amphipods of the Andes Altiplano using mitogenomic, nuclear ribosomal and single‑ copy nuclear gene sequences obtained from 36 Hyalella genomic libraries, focusing on species of the Lake Titicaca and other water bodies of the Altiplano northern plateau. Results show that early Miocene South American lineages have recently (late Pliocene or early Pleistocene) diversifed in the Andes with a striking morphological convergence among lineages. This pattern is consistent with the ecological opportunities (access to unoccupied resources, initial relaxed selection on ecologically‑ signifcant traits and low competition) ofered by the lacustrine habitats established after the Andean uplift. Lakes with an uninterrupted history of more than 100,000 years (ancient lakes) may be considered as natural laboratories for evolutionary research as they constitute hotspots of aquatic animal speciation and phenotypic diversity1. Changes in lake size and episodes of desiccation are considered to be critical factors in the speciation and extinction of lake faunas, with the creation of new habitats afer lake expansions as the primary driver of intra-lake diversifcation2–4. For instance, cichlid radiations in the East African Lakes seem to have been trig- gered by lake expansions afer periods of intense desiccation, with the surviving species flling up empty niches afer lake reflling2.