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Anchialine Cave Biology in the Era of Speleogenomics Jorge L
International Journal of Speleology 45 (2) 149-170 Tampa, FL (USA) May 2016 Available online at scholarcommons.usf.edu/ijs International Journal of Speleology Off icial Journal of Union Internationale de Spéléologie Life in the Underworld: Anchialine cave biology in the era of speleogenomics Jorge L. Pérez-Moreno1*, Thomas M. Iliffe2, and Heather D. Bracken-Grissom1 1Department of Biological Sciences, Florida International University, Biscayne Bay Campus, North Miami FL 33181, USA 2Department of Marine Biology, Texas A&M University at Galveston, Galveston, TX 77553, USA Abstract: Anchialine caves contain haline bodies of water with underground connections to the ocean and limited exposure to open air. Despite being found on islands and peninsular coastlines around the world, the isolation of anchialine systems has facilitated the evolution of high levels of endemism among their inhabitants. The unique characteristics of anchialine caves and of their predominantly crustacean biodiversity nominate them as particularly interesting study subjects for evolutionary biology. However, there is presently a distinct scarcity of modern molecular methods being employed in the study of anchialine cave ecosystems. The use of current and emerging molecular techniques, e.g., next-generation sequencing (NGS), bestows an exceptional opportunity to answer a variety of long-standing questions pertaining to the realms of speciation, biogeography, population genetics, and evolution, as well as the emergence of extraordinary morphological and physiological adaptations to these unique environments. The integration of NGS methodologies with traditional taxonomic and ecological methods will help elucidate the unique characteristics and evolutionary history of anchialine cave fauna, and thus the significance of their conservation in face of current and future anthropogenic threats. -
Ostracoda an Introduction.Pdf
The Ostracoda (from Wikipedia, 5/5/2009: http://en.wikipedia.org/wiki/Ostracod) Ostracoda is a class of the Crustacea, sometimes known as the seed shrimp because of their appearance. Ostracods are small crustaceans, typically around one mm in size, but varying between 0.2 to 30 mm, laterally compressed and protected by a bivalve-like, chitinous or calcareous valve or "shell". The hinge of the two valves is in the upper, dorsal region of the body. Some 65,000 species (13,000 of which are extant taxa) have been identified, grouped into several orders. This group may not be monophyletic. Ostracod taxa are grouped into a Class based on gross morphology. Ecologically, marine ostracods can be part of the zooplankton or (most commonly) they are part of the benthos, living on or inside the upper layer of the sea floor. Many ostracods, especially the Podocopida, are also found in fresh water and some are known from humid continental forest soils. The body consists of a cephalon (head), separated from the thorax by a slight constriction. The segmentation is unclear. The abdomen is regressed or absent whereas the adult gonads are relatively large. There are 5–8 pairs of appendages. The branchial plates are responsible for oxygenation. The epidermal cells may also secrete calcium carbonate after the chitinous layer is formed, resulting in a chalk layer enveloped by chitin. This calcification is not equally pronounced in all orders. During every instar transition, the old carapace (chitinous and calcified) is rejected and a new, larger is formed and calcified. The outer lamella calcifies completely, while the inner lamella calcifies partially, with the rest remaining chitinous. -
Vertical Distribution and Population Structure of the Three Dominant Planktonic Ostracods (Discoconchoecia Pseudodiscophora
Plankton Biol. Ecol. 49 (2): 66-74, 2002 plankton biology & ecology K> The Plankton Society of Japan 2002 Vertical distribution and population structure of the three dominant planktonic ostracods (Discoconchoecia pseudodiscophora, Orthoconchoecia haddoni and Metaconchoecia skogsbergi) in the Oyashio region, western North Pacific Hideki Kaeriyama & Tsutomu Ikeda Marine Biodiversity Laboratory, Graduate School of Fisheries Sciences, Hokkaido University, 3-1-1, Minato-cho, Hakodate, Hokkaido 041-0821, Japan Received 19 November 2001; accepted 4 April 2002 Abstract: Diel and seasonal vertical distribution and population structure of Discoconchoecia pseu- dodiscophora (Rudjakov), Orthoconchoecia haddoni (Brady & Norman) and Metaconchoecia skogs bergi (lies) were investigated in the Oyashio region during September 1996 through October 1997. Monthly samples were collected with 0.1 mm mesh closing nets hauled vertically through five con tiguous discrete depths between the surface and ~2000 m. D. pseudodiscophora occurred predomi nantly from the base of the thermocline to a depth of 500 m. O. haddoni and M. skogsbergi occurred somewhat deeper at depths of 250 to 1000 m, but were also moderately abundant below 1000 m. Sampling was undertaken both by day and by night during December 1996, April and October 1997 to assess diel vertical migration activity, but revealed no appreciable day/night differences in the ver tical distributions of the ostracods. All the instars sampled [instars II through VIII (adults) of D. pseu dodiscophora and O. haddoni, and instars III through VIII (adults) of M. skogsbergi] were collected throughout the entire period of the study. All three species showed evidence of ontogenetic vertical migration—the ranges of these migrations being from 300-1000 m in D. -
From an Anchialine Lava Tube in Lanzarote, Canary Islands
Ostracoda (Halocypridina, Cladocopina) from an Anchialine Lava Tube in Lanzarote, Canary Islands LOUIS S. KORN1CKER and THOMAS M. ILIFFE SMITHSONIAN CONTRIBUTIONS TO ZOOLOGY • NUMBER 568 SERIES PUBLICATIONS OF THE SMITHSONIAN INSTITUTION Emphasis upon publication as a means of "diffusing knowledge" was expressed by the first Secretary of the Smithsonian. In his formal plan for the Institution, Joseph Henry outlined 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." This theme of basic research has been adhered to through the years by thousands of titles issued in series publications under the Smithsonian imprint, commencing with Smithsonian Contributions to Knowledge in 1848 and continuing with the following active series: Smithsonian Contributions to Anthropology Smithsonian Contributions to Astrophysics Smithsonian Contributions to Botany Smithsonian Contributions to the Earth Sciences Smithsonian Contributions to the Marine Sciences Smithsonian Contributions to Paleobiology Smithsonian Contributions to Zoology Smithsonian Folklife Studies Smithsonian Studies in Air and Space Smithsonian Studies in History and Technology In these series, the Institution publishes small papers and full-scale monographs that report the research and collections of its various museums and bureaux or of professional colleagues in the world of science and scholarship. The publications are distributed by mailing lists to libraries, universities, and similar institutions throughout the world. Papers or monographs submitted for series publication are received by the Smithsonian Institution Press, subject to its own review for format and style, only through departments of the various Smithsonian museums or bureaux, where the manuscripts are given substantive review. -
Proceedings Biological Society of Washington
Vol. 81, pp. 439-472 30 December 1968 PROCEEDINGS OF THE BIOLOGICAL SOCIETY OF WASHINGTON BATHYAL MYODOCOPID OSTRACODA FROM THE NORTHEASTERN GULF OF MEXICO BY LOUIS S. KORNJCKEB Smithsonian Institution, Washington, D. C. Myodocopid ostracods of the deeper waters of the Gulf of Mexico are virtually unknown . only 1 species, Cypridina fla- tus Tressler, 1949, having been previously reported from 1200 meters near Tortugas (Tressler, 1949, p. 336, p. 431). There- fore, I was quite pleased to receive from Dr. Willis E. Pequeg- nat and Mr. Thomas J. Bright a small collection containing myodocopid ostracods collected in a mid-water trawl that acci- dentally dragged along the bottom at a depth of 1000-1200 meters for 1.5 hours during the Texas A&M University cruise 66-A-9 of the R/V Alaminos on July 11, 1966. The Myodo- copida are described in the systematic part of this paper. Os- tracods in the sample are listed below: Order Myodocopida Suborder Myodocopina Superfamily Cypridinacea Tetragonodon rhamphodes new species 19 Paramekodon poidseni new species 19 Bathyvargula optilus new species 299,1 juv. Suborder Halocypridina Superfamily Halocypridacea Conchoecia atlantica (Lubbock) 2 9 9 Conchoecia valdimae Muller 2 9 9 Conchoecia macrocheira Muller 1 9 45—PROC. BIOL. SOC. WASH., VOL. 81, 1968 (439) 440 Proceedings of the Biological Society of Washington Order Poclocopida (ident. by Drs. R. H. Benson and R. F. Maddocks) Suborder Podocopina Bairdoppilata ?hirsuta (Brady) 19,4 MT shells Bairdia new species 29 9,9 MT shells. 2 single valves Echinocythereis echinata (Sars) 1 single valve Four specimens of bottom fish collected in the trawl con- tained ostracods in their stomachs or intestines: Nezumia hildebrandi (2 specimens), Dicrolene intronigra (1 specimen), and Dicromita agassizii (1 specimen). -
Taxonomy of Quaternary Deep-Sea Ostracods from the Western North Atlantic Ocean
University of Nebraska - Lincoln DigitalCommons@University of Nebraska - Lincoln USGS Staff -- Published Research US Geological Survey 2009 Taxonomy Of Quaternary Deep-Sea Ostracods From The Western North Atlantic Ocean Moriaki Yasuhara National Museum of Natural History, Smithsonian Institution, [email protected] Hisayo Okahashi National Museum of Natural History, Smithsonian Institution, [email protected] Thomas M. Cronin U.S. Geological Survey, [email protected] Follow this and additional works at: https://digitalcommons.unl.edu/usgsstaffpub Part of the Earth Sciences Commons Yasuhara, Moriaki; Okahashi, Hisayo; and Cronin, Thomas M., "Taxonomy Of Quaternary Deep-Sea Ostracods From The Western North Atlantic Ocean" (2009). USGS Staff -- Published Research. 242. https://digitalcommons.unl.edu/usgsstaffpub/242 This Article is brought to you for free and open access by the US Geological Survey at DigitalCommons@University of Nebraska - Lincoln. It has been accepted for inclusion in USGS Staff -- Published Research by an authorized administrator of DigitalCommons@University of Nebraska - Lincoln. [Palaeontology, Vol. 52, Part 4, 2009, pp. 879–931] TAXONOMY OF QUATERNARY DEEP-SEA OSTRACODS FROM THE WESTERN NORTH ATLANTIC OCEAN by MORIAKI YASUHARA*, HISAYO OKAHASHI* and THOMAS M. CRONIN *Department of Paleobiology, National Museum of Natural History, Smithsonian Institution, MRC 121, PO Box 37012, Washington, DC 20013-7012, USA; e-mails: [email protected] or [email protected] (M.Y.), [email protected] (H.O.) U.S. Geological Survey, -
The Taxonomy and Biogeography of Macrofaunal Ostracod Crustaceans
The taxonomy and biogeography of macrofaunal ostracod crustaceans, with focus on the abyssal benthic Pacific fauna relevant to the CCFZ Ivana Karanovic Hanyang University, Department of Life Science, College of Natural Sciences, Seoul 133-791, Korea University of Tasmania, IMAS, Hobart, TAS, 7001, Australia e-mail: [email protected] Few words about myself Italy(Salerno, 2 years) Serbia (Novi Sad, born) Australia (Perth & Hobart, 10 years) Germany (Hamburg, 2 years) South Korea (Seoul, 3.5 years) • Started working on ostracods 15 years ago • Worked on faunas from all continents (including Antarctica) • and from all environments: from freshwater puddles to deep sea • I don’t particularly like ostracods • I like the fact that ostracods give insight into many aspects of biology General information on ostracods • Named in 1802 by Latreille • Name comes from the Greek óstrakon, meaning shell or tile • Common name in English: “mussel shrimp” or “seed shrimp” • In German it is “Muschelkrebse” • Live in all aquatic habitats on the planet Fossil record Systematics • Previously in the class Maxillopoda • Currently recognized as one of the 7 classes of the phylum Crustacea Currently divided into two subclasses 1. Myodocopa 2. Podocopa Systematics cont. 4a. 1. Subclass Myodocopa 1. Order Myodocopina 2. Order Halocyprida 4b. a) Suborder Halocypridina b) Suborder Cladocopina 2a. Subclass Podocopa 3. Order Platycopida 4. Order Podocopida 4c. a) Suborder Bairdiocopina b) Suborder Cytherocopina 2b. c) Suborder Darwinulocopina d) Suborder Cypridocopina 4d. e) Suborder Sigilliocopina 3. Photo credits: 4e. 1, 2: S.N. Brandao 3: Brandao & Yasuhara 4b, c: D. Keyser 4e: From Maddocks (1972) Morphology a. -
Mesozooplankton of the Arabian Sea and the Bay of Bengal with Special Reference to Planktonic Ostracods
Mesozooplankton of the Arabian Sea and the Bay of Bengal with special reference to planktonic ostracods fflwéa aaflrzzlledla [fie Cocfiin University qf Science and"1”eclino[ogy ®or:tor qffliilbsopfiy in flvtarine Science ?&za’e2z life Taculiy of Mafine Sciences 54; P. JASMINE, M.Sc., B.Ed. NATIONAL INSTITUTE OF OCEANOGRAPHY REGIONAL CENTRE, KOCHI-682018 January 2009 Qeclaraiion I hereby declare that the thesis entitled “Mesozooplankton of the Arabian Sea and the Bay of Bengal with special reference to planktonic ostracods” is an authentic record of the research carried out by me, under the supervision of Dr. Saramma U Panampunnayil, Scientist F, National Institute of Oceanography, Regional Centre, Kochi- 18, in partial fulfillment of the requirement for the Ph.D Degree of the Cochin University of Science and Technology under the faculty of Marine Sciences and that no part of this has been presented before for any other degree, diploma or associateship in any university. / Koch_i-1816-01-2009 4 @er1ifin:ate I herby certify that the thesis entitled “Mesozooplankt0n of the Arabian Sea and the Bay of Bengal with special reference to planktonic ostracods” submitted by P. Jasmine, Research scholar (Reg. No. 2731), National Institute of Oceanography, Regional centre, Kochi-18, is an authentic record of research carried out by her under my supervision, in partial fulfillment of the requirement for the Ph.D Degree of the Cochin University of Science and Technology in the faculty of Marine Sciences and that no part thereof has been previously formed the basis for the award of any degree, diploma or associateship in any university. -
Crustacea: Ostracoda) De Pozas Temporales
Heterocypris bosniaca (Petkowski et al., 2000): Ecología y ontogenia de un ostrácodo (Crustacea: Ostracoda) de pozas temporales. ESIS OCTORAL T D Josep Antoni Aguilar Alberola Departament de Microbiologia i Ecologia Universitat de València Programa de doctorat en Biodiversitat i Biologia Evolutiva Heterocypris bosniaca (Petkowski et al., 2000): Ecología y ontogenia de un ostrácodo (Crustacea: Ostracoda) de pozas temporales. Tesis doctoral presentada por Josep Antoni Aguilar Alberola 2013 Dirigida por Francesc Mesquita Joanes Imagen de cubierta: Vista lateral de la fase eclosionadora de Heterocypris bosniaca. Más detalles en el capítulo V. Tesis titulada "Heterocypris bosniaca (Petkowski et al., 2000): Ecología y ontogenia de un ostrácodo (Crustacea: Ostracoda) de pozas temporales" presentada por JOSEP ANTONI AGUILAR ALBEROLA para optar al grado de Doctor en Ciencias Biológicas por la Universitat de València. Firmado: Josep Antoni Aguilar Alberola Tesis dirigida por el Doctor en Ciencias Biológicas por la Universitat de València, FRANCESC MESQUITA JOANES. Firmado: F. Mesquita i Joanes Profesor Titular de Ecología Universitat de València A Laura, Paco, i la meua família Resumen Los ostrácodos son un grupo de pequeños crustáceos con amplia distribución mundial, cuyo cuerpo está protegido por dos valvas laterales que suelen preservarse con facilidad en el sedimento. En el presente trabajo se muestra la primera cita del ostrácodo Heterocypris bosniaca Petkowski, Scharf y Keyser, 2000 para la Península Ibérica. Se trata de una especie de cipridoideo muy poco conocida que habita pozas de aguas temporales. Se descubrió el año 2000 en Bosnia y desde entonces solo se ha reportado su presencia en Israel (2004) y en Valencia (presente trabajo). -
Fossil Calibrations for the Arthropod Tree of Life
bioRxiv preprint doi: https://doi.org/10.1101/044859; this version posted June 10, 2016. 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 4.0 International license. FOSSIL CALIBRATIONS FOR THE ARTHROPOD TREE OF LIFE AUTHORS Joanna M. Wolfe1*, Allison C. Daley2,3, David A. Legg3, Gregory D. Edgecombe4 1 Department of Earth, Atmospheric & Planetary Sciences, Massachusetts Institute of Technology, Cambridge, MA 02139, USA 2 Department of Zoology, University of Oxford, South Parks Road, Oxford OX1 3PS, UK 3 Oxford University Museum of Natural History, Parks Road, Oxford OX1 3PZ, UK 4 Department of Earth Sciences, The Natural History Museum, Cromwell Road, London SW7 5BD, UK *Corresponding author: [email protected] ABSTRACT Fossil age data and molecular sequences are increasingly combined to establish a timescale for the Tree of Life. Arthropods, as the most species-rich and morphologically disparate animal phylum, have received substantial attention, particularly with regard to questions such as the timing of habitat shifts (e.g. terrestrialisation), genome evolution (e.g. gene family duplication and functional evolution), origins of novel characters and behaviours (e.g. wings and flight, venom, silk), biogeography, rate of diversification (e.g. Cambrian explosion, insect coevolution with angiosperms, evolution of crab body plans), and the evolution of arthropod microbiomes. We present herein a series of rigorously vetted calibration fossils for arthropod evolutionary history, taking into account recently published guidelines for best practice in fossil calibration. -
Secretion of Embryonic Envelopes and Embryonic Molting Cycles In
Homology of Holocene ostracode biramous appendages with those of other crustaceans: the protopod, epipod, exopod and endopod ANNE C. COHEN, JOEL W. MARTIN AND LOUIS S. KORNICKER Cohen, A.C., Martin, J.W. & Kornicker, L.S. 1998 09 15: Homology of Holocene ostracode LETHAIA biramous appendages with those of other crustaceans: the protopod, epipod, exopod and endopod. Lethaia, Vol. 31, pp. 251-265. Oslo. ISSN 0024-1164. Unambiguously biramous appendages with a proximal precoxa, well-defined coxa and basis, setose plate-like epipod originating on the precoxa, and both an endopod and exopod attached to the terminal end of the basis are described from several living Ostracoda of the order Halo- cyprida (Myodocopa). These limbs are proposed as the best choice for comparison of ostracode limbs with those of other crustaceans and fossil arthropods with preserved limbs, such as the Cambrian superficially ostracode-like Kunmingella and Hesslandona. The 2nd maxilla of Metapolycope (Cladocopina) and 1st trunk limb oi Spelaeoecia, Deeveya and Thaumatoconcha (all Halocypridina) are illustrated, and clear homologies are shown between the parts of these limbs and those of some general crustacean models as well as some of the remarkable crusta cean 5.5. Orsten fossils. No living ostracodes exhibit only primitive morphology; all have at least some (usually many) derived characters. Few have the probably primitive attribute of trunk segmentation (two genera of halocyprid Myodocopa, one order plus one genus of Podocopa, and the problematic Manawa); unambiguously biramous limbs are limited to a few halo- cyprids. Homologies between podocopid limbs and those of the illustrated primitive myodo- copid limbs are tentatively suggested. -
Multi-Level Convergence of Complex Traits and the Evolution of Bioluminescence Emily S
Preprints (www.preprints.org) | NOT PEER-REVIEWED | Posted: 15 December 2020 Multi-level convergence of complex traits and the evolution of bioluminescence Emily S. Lau* and Todd H. Oakley* Department of Ecology, Evolution, and Marine Biology, University of California Santa Barbara, Santa Barbara CA 93106 Corresponding authors information: Emily S. Lau: [email protected]; Todd H. Oakley: [email protected] Keywords multi‐level convergence | evolution | bioluminescence | biological organization | complex trait ABSTRACT Evolutionary convergence provides natural opportunities to investigate how, when, and why novel traits evolve. Many convergent traits are complex, highlighting the importance of explicitly considering convergence at different levels of biological organization, or ‘multi‐level convergent evolution’. To investigate multi‐level convergent evolution, we propose a holistic and hierarchical framework that emphasizes breaking down traits into several functional modules. We begin by identifying long‐standing questions on the origins of complexity and the diverse evolutionary processes underlying phenotypic convergence to discuss how they can be addressed by examining convergent systems. We argue that bioluminescence, a complex trait that evolved dozens of times through either novel mechanisms or conserved toolkits, is particularly well suited for these studies. We present an updated estimate of at least 94 independent origins of bioluminescence across the tree of life, which we calculated by reviewing and summarizing all estimates of independent origins. Then, we use our framework to review the biology, chemistry, and evolution of bioluminescence, and for each biological level identify questions that arise from our systematic review. We focus on luminous organisms that use the shared luciferin substrates coelenterazine or vargulin to produce light because these organisms convergently evolved bioluminescent proteins that use the same luciferins to produce bioluminescence.