First Molecular Data and Morphological Re-Description of Two
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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. -
Evolutionary History of Inversions in the Direction of Architecture-Driven
bioRxiv preprint doi: https://doi.org/10.1101/2020.05.09.085712; this version posted May 10, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity.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-NC 4.0 International license. Evolutionary history of inversions in the direction of architecture- driven mutational pressures in crustacean mitochondrial genomes Dong Zhang1,2, Hong Zou1, Jin Zhang3, Gui-Tang Wang1,2*, Ivan Jakovlić3* 1 Key Laboratory of Aquaculture Disease Control, Ministry of Agriculture, and State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China. 2 University of Chinese Academy of Sciences, Beijing 100049, China 3 Bio-Transduction Lab, Wuhan 430075, China * Corresponding authors Short title: Evolutionary history of ORI events in crustaceans Abbreviations: CR: control region, RO: replication of origin, ROI: inversion of the replication of origin, D-I skew: double-inverted skew, LBA: long-branch attraction bioRxiv preprint doi: https://doi.org/10.1101/2020.05.09.085712; this version posted May 10, 2020. 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-NC 4.0 International license. Abstract Inversions of the origin of replication (ORI) of mitochondrial genomes produce asymmetrical mutational pressures that can cause artefactual clustering in phylogenetic analyses. It is therefore an absolute prerequisite for all molecular evolution studies that use mitochondrial data to account for ORI events in the evolutionary history of their dataset. -
A Systematic and Experimental Analysis of Their Genes, Genomes, Mrnas and Proteins; and Perspective to Next Generation Sequencing
Crustaceana 92 (10) 1169-1205 CRUSTACEAN VITELLOGENIN: A SYSTEMATIC AND EXPERIMENTAL ANALYSIS OF THEIR GENES, GENOMES, MRNAS AND PROTEINS; AND PERSPECTIVE TO NEXT GENERATION SEQUENCING BY STEPHANIE JIMENEZ-GUTIERREZ1), CRISTIAN E. CADENA-CABALLERO2), CARLOS BARRIOS-HERNANDEZ3), RAUL PEREZ-GONZALEZ1), FRANCISCO MARTINEZ-PEREZ2,3) and LAURA R. JIMENEZ-GUTIERREZ1,5) 1) Sea Science Faculty, Sinaloa Autonomous University, Mazatlan, Sinaloa, 82000, Mexico 2) Coelomate Genomic Laboratory, Microbiology and Genetics Group, Industrial University of Santander, Bucaramanga, 680007, Colombia 3) Advanced Computing and a Large Scale Group, Industrial University of Santander, Bucaramanga, 680007, Colombia 4) Catedra-CONACYT, National Council for Science and Technology, CDMX, 03940, Mexico ABSTRACT Crustacean vitellogenesis is a process that involves Vitellin, produced via endoproteolysis of its precursor, which is designated as Vitellogenin (Vtg). The Vtg gene, mRNA and protein regulation involve several environmental factors and physiological processes, including gonadal maturation and moult stages, among others. Once the Vtg gene, mRNAs and protein are obtained, it is possible to establish the relationship between the elements that participate in their regulation, which could either be species-specific, or tissue-specific. This work is a systematic analysis that compares the similarities and differences of Vtg genes, mRNA and Vtg between the crustacean species reported in databases with respect to that obtained from the transcriptome of Callinectes arcuatus, C. toxotes, Penaeus stylirostris and P. vannamei obtained with MiSeq sequencing technology from Illumina. Those analyses confirm that the Vtg obtained from selected species will serve to understand the process of vitellogenesis in crustaceans that is important for fisheries and aquaculture. RESUMEN La vitelogénesis de los crustáceos es un proceso que involucra la vitelina, producida a través de la endoproteólisis de su precursor llamado Vitelogenina (Vtg). -
Two Species of Copepods, Lernanthropus Atrox and Hatschekia Pagrosomi, Parasitic on Crimson Seabream, Evynnis Tumifrons, in Hiroshima Bay, Western Japan
生物圏科学 Biosphere Sci. 56:13-21 (2017) Two species of copepods, Lernanthropus atrox and Hatschekia pagrosomi, parasitic on crimson seabream, Evynnis tumifrons, in Hiroshima Bay, western Japan Kazuya NAGASAWA Graduate School of Biosphere Science, Hiroshima University 1-4-4 Kagamiyama, Higashi-Hiroshima, Hiroshima 739-8528, Japan Published by The Graduate School of Biosphere Science Hiroshima University Higashi-Hiroshima 739-8528, Japan November 2017 生物圏科学 Biosphere Sci. 56:13-21 (2017) Two species of copepods, Lernanthropus atrox and Hatschekia pagrosomi, parasitic on crimson seabream, Evynnis tumifrons, in Hiroshima Bay, western Japan Kazuya NAGASAWA* Graduate School of Biosphere Science, Hiroshima University, 1-4-4 Kagamiyama, Higashi-Hiroshima, Hiroshima 739-8528, Japan Abstract Two species of copepods, Lernanthropus atrox Heller, 1865, and Hatschekia pagrosomi Yamaguti, 1939, were collected from the gills of crimson seabream, Evynnis tumifrons (Temminck and Schlegel, 1843), in Hiroshima Bay, the Seto Inland Sea, western Japan. This collection represents a new host record for L. atrox and the first record of H. pagrosomi from E. tumifrons in Japan. The hosts and geographical distribution of these copepods are also reviewed. Key words: Copepoda, Evynnis tumifrons, fish parasite, Hatschekia pagrosomi, Hiroshima Bay, Lernanthropus atrox INTRODUCTION Sparids are widely distributed and commercially caught in coastal temperate and subtropical waters of Japan, where they consist of 13 species in three subfamilies and four genera (Nakabo, 2013). Of these species, red seabream, Pagrus major (Temminck and Schlegel, 1843), is the most important species in fisheries and abundantly caught in various waters of Japan. The parasite fauna of this species has been well studied in Japan: for example, as many as 24 species of metazoan parasitic helminths (3 monogeneans, 13 digneans, 4 cestodes, 3 nametodes, and 1 acanthocephalan) were reported only by Dr. -
The Morphology of Lernanthropus Kroyeri Van Beneden, 1851 (Copepoda: Lernanthropidae) Parasitic on Sea Bass, Dicentrarchus Labra
Türkiye Parazitoloji Dergisi, 32 (4): 386 - 389, 2008 Türkiye Parazitol Derg. © Türkiye Parazitoloji Derneği © Turkish Society for Parasitology The Morphology of Lernanthropus kroyeri van Beneden, 1851 (Copepoda: Lernanthropidae) Parasitic on Sea Bass, Dicentrarchus labrax (L., 1758), from the Aegean Sea, Turkey Erol TOKŞEN, Egemen NEMLİ, Uğur DEĞİRMENCİ Ege Üniversitesi Su Ürünleri Fakültesi, Yetiştiricilik Bölümü, İzmir, Türkiye SUMMARY: A detailed redescription of Lernanthropus kroyeri van Beneden, 1851 is provided based on observations made with the aid of scanning electron microscopy. Specimens were obtained from the host, the sea bass Dicentrarchus labrax (L., 1758) obtained from a commercial aquaculture enterprise in Izmir (western Turkey). Key Words: Copepod parasite, Lernanthropus kroyeri, sea bass, Dicentrarchus labrax, SEM. Ege Denizinde Levrekde (Dicentrarchus labrax L., 1758) Görülen Parazitik, Lernanthropus kroyeri’nin van Beneden, 1851 (Copepoda: Lernanthropidae) Morfolojisi ÖZET: Bu çalışmada Lernanthropus kroyeri’in ayrıntılı tanımı verilmiştir. Örnekler Türkiye’nin batısında İzmir’de yetiştiricilik yapan ticari bir işletmeden temin edilen levreklerden (Dicentrarchus labrax L.) alınmıştır. Morfolojik ayrıntılar taramalı elektron mikroskobu kullanılarak görülmüştür. Anahtar Sözcükler: Kopepod parazit, Lernanthropus kroyeri, levrek, Dicentrarchus labrax, SEM. INTRODUCTION Lernanthropus De Blainville, 1822, with more than 100 nomi- been reported (8, 11, 20). The morphological terminology of nal species, is the most species and most widespread genus of the parasitic copepods has given rise to confusion in the past. the family Lernanthropidae and is considered to be a common The terminology of Kabata (6) as modified by Huys and genus of parasitic copepods on fishes (7). Some species of Boxshall (4) is adopted. Recently, Olivier and van Niekerk Lernanthropus are strictly host specific, but many are parasitic (13) and Olivier et al. -
Pilgrim 1985.Pdf (1.219Mb)
MAURI ORA, 1985, 12: 13-53 13 PARASITIC COPEPODA FROM MARINE COASTAL FISHES IN THE KAIKOURA-BANKS PENINSULA REGION, SOUTH ISLAND, NEW ZEALAND. WITH A KEY FOR THEIR IDENTIFICATION R.L.C. PILGRIM Department of Zoology, University of Canterbury, Christchurch 1, New Zealand. ABSTRACT An introductory account of parasitic Copepoda in New Zealand waters is given, together with suggestions for collecting, examining, preserving and disposal of specimens. A key is presented for identifying all known forms from the fishes which are known to occur in the Kaikoura-Banks Peninsula region. Nine species/ subspecies ( + 2 spp.indet.) have been taken from elasmobranch fishes, 13 ( + 7 spp.indet.) from teleost fishes in the region; a further 6 from elasmobranchs and 27 ( + 1 indet.) from teleosts are known in New Zealand waters but so far not taken from these hosts in the region. A host-parasite list is given of known records'from the region. KEYWORDS: New Zealand, marine, fish, parasitic Copepoda, keys. INTRODUCTION Fishes represent a very significant proportion of the macrofauna of the coastal waters from Kaikoura to Banks Peninsula, and as such are commonly studiecl by staff and students from the Department of Zoology, University of Canterbury. Even a cursory examination of most specimens will reveal the presence of sometimes numerous parasites clinging to the outer surface or, more frequently, to the linings of the several cavities exposed to the outside sea water. The mouth and gill chambers are 14 particularly liable to contain numbers of large or small, but generally macroscopic, animals attached to these surfaces. Many are readily identified as segmented, articulated, chitinised animals and are clearly Arthropoda. -
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]. -
Order HARPACTICOIDA Manual Versión Española
Revista IDE@ - SEA, nº 91B (30-06-2015): 1–12. ISSN 2386-7183 1 Ibero Diversidad Entomológica @ccesible www.sea-entomologia.org/IDE@ Class: Maxillopoda: Copepoda Order HARPACTICOIDA Manual Versión española CLASS MAXILLOPODA: SUBCLASS COPEPODA: Order Harpacticoida Maria José Caramujo CE3C – Centre for Ecology, Evolution and Environmental Changes, Faculdade de Ciências, Universidade de Lisboa, 1749-016 Lisboa, Portugal. [email protected] 1. Brief definition of the group and main diagnosing characters The Harpacticoida is one of the orders of the subclass Copepoda, and includes mainly free-living epibenthic aquatic organisms, although many species have successfully exploited other habitats, including semi-terrestial habitats and have established symbiotic relationships with other metazoans. Harpacticoids have a size range between 0.2 and 2.5 mm and have a podoplean morphology. This morphology is char- acterized by a body formed by several articulated segments, metameres or somites that form two separate regions; the anterior prosome and the posterior urosome. The division between the urosome and prosome may be present as a constriction in the more cylindric shaped harpacticoid families (e.g. Ectinosomatidae) or may be very pronounced in other familes (e.g. Tisbidae). The adults retain the central eye of the larval stages, with the exception of some underground species that lack visual organs. The harpacticoids have shorter first antennae, and relatively wider urosome than the copepods from other orders. The basic body plan of harpacticoids is more adapted to life in the benthic environment than in the pelagic environment i.e. they are more vermiform in shape than other copepods. Harpacticoida is a very diverse group of copepods both in terms of morphological diversity and in the species-richness of some of the families. -
Traditional and Confocal Descriptions of a New Genus and Two New
A peer-reviewed open-access journal ZooKeys 766:Traditional 1–38 (2018) and confocal descriptions of a new genus and two new species of deep water... 1 doi: 10.3897/zookeys.766.23899 RESEARCH ARTICLE http://zookeys.pensoft.net Launched to accelerate biodiversity research Traditional and confocal descriptions of a new genus and two new species of deep water Cerviniinae Sars, 1903 from the Southern Atlantic and the Norwegian Sea: with a discussion on the use of digital media in taxonomy (Copepoda, Harpacticoida, Aegisthidae) Paulo H. C. Corgosinho1, Terue C. Kihara2, Nikolaos V. Schizas3, Alexandra Ostmann2, Pedro Martínez Arbizu2, Viatcheslav N. Ivanenko4 1 Department of General Biology, State University of Montes Claros (UNIMONTES), Campus Universitário Professor Darcy Ribeiro, 39401-089 Montes Claros (MG), Brazil 2 Senckenberg am Meer, Department of German Center for Marine Biodiversity Research, Südstrand 44, 26382 Wilhelmshaven, Germany 3 Department of Marine Sciences, University of Puerto Rico at Mayagüez, Call Box 9000, Mayagüez, PR 00681, USA 4 Department of Invertebrate Zoology, Biological Faculty, Lomonosov Moscow State University, 119899 Moscow, Russia Corresponding author: Paulo H. C. Corgosinho ([email protected]) Academic editor: D. Defaye | Received 26 January 2018 | Accepted 24 April 2018 | Published 13 June 2018 http://zoobank.org/75C9A0E9-5A26-4CC3-97C7-1771B6A943D1 Citation: Corgosinho PHC, Kihara TC, Schizas NV, Ostmann A, Arbizu PM, Ivanenko VN (2018) Traditional and confocal descriptions of a new genus and two new species of deep water Cerviniinae Sars, 1903 from the Southern Atlantic and the Norwegian Sea: with a discussion on the use of digital media in taxonomy (Copepoda, Harpacticoida, Aegisthidae). -
Taxonomy, Biology and Phylogeny of Miraciidae (Copepoda: Harpacticoida)
TAXONOMY, BIOLOGY AND PHYLOGENY OF MIRACIIDAE (COPEPODA: HARPACTICOIDA) Rony Huys & Ruth Böttger-Schnack SARSIA Huys, Rony & Ruth Böttger-Schnack 1994 12 30. Taxonomy, biology and phytogeny of Miraciidae (Copepoda: Harpacticoida). - Sarsia 79:207-283. Bergen. ISSN 0036-4827. The holoplanktonic family Miraciidae (Copepoda, Harpacticoida) is revised and a key to the four monotypic genera presented. Amended diagnoses are given for Miracia Dana, Oculosetella Dahl and Macrosetella A. Scott, based on complete redescriptions of their respective type species M. efferata Dana, 1849, O. gracilis (Dana, 1849) and M. gracilis (Dana, 1847). A fourth genus Distioculus gen. nov. is proposed to accommodate Miracia minor T. Scott, 1894. The occurrence of two size-morphs of M. gracilis in the Red Sea is discussed, and reliable distribution records of the problematic O. gracilis are compiled. The first nauplius of M. gracilis is described in detail and changes in the structure of the antennule, P2 endopod and caudal ramus during copepodid development are illustrated. Phylogenetic analysis revealed that Miracia is closest to the miraciid ancestor and placed Oculosetella-Macrosetella at the terminal branch of the cladogram. Various aspects of miraciid biology are reviewed, including reproduction, postembryonic development, verti cal and geographical distribution, bioluminescence, photoreception and their association with filamentous Cyanobacteria {Trichodesmium). Rony Huys, Department of Zoology, The Natural History Museum, Cromwell Road, Lon don SW7 5BD, England. - Ruth Böttger-Schnack, Institut für Meereskunde, Düsternbroo- ker Weg 20, D-24105 Kiel, Germany. CONTENTS Introduction.............. .. 207 Genus Distioculus pacticoids can be carried into the open ocean by Material and methods ... .. 208 gen. nov.................. 243 algal rafting. Truly planktonic species which perma Systematics and Distioculus minor nently reside in the water column, however, form morphology .......... -
Taxonomic Resolutions Based on 18S Rrna Genes: a Case Study of Subclass Copepoda
RESEARCH ARTICLE Taxonomic Resolutions Based on 18S rRNA Genes: A Case Study of Subclass Copepoda Shu Wu1,2, Jie Xiong1, Yuhe Yu1* 1 Key Laboratory of Aquatic Biodiversity and Conservation of Chinese Academy of Sciences, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, China, 2 University of Chinese Academy of Sciences, Beijing, China * [email protected] Abstract Biodiversity studies are commonly conducted using 18S rRNA genes. In this study, we com- pared the inter-species divergence of variable regions (V1–9) within the copepod 18S rRNA gene, and tested their taxonomic resolutions at different taxonomic levels. Our results indi- cate that the 18S rRNA gene is a good molecular marker for the study of copepod biodiver- sity, and our conclusions are as follows: 1) 18S rRNA genes are highly conserved intra- species (intra-species similarities are close to 100%); and could aid in species-level analy- ses, but with some limitations; 2) nearly-whole-length sequences and some partial regions OPEN ACCESS (around V2, V4, and V9) of the 18S rRNA gene can be used to discriminate between sam- Citation: Wu S, Xiong J, Yu Y (2015) Taxonomic ples at both the family and order levels (with a success rate of about 80%); 3) compared Resolutions Based on 18S rRNA Genes: A Case with other regions, V9 has a higher resolution at the genus level (with an identification suc- Study of Subclass Copepoda. PLoS ONE 10(6): e0131498. doi:10.1371/journal.pone.0131498 cess rate of about 80%); and 4) V7 is most divergent in length, and would be a good candi- date marker for the phylogenetic study of Acartia species. -
Chemotherapeutants Against Salmon Lice Lepeophtheirus Salmonis – Screening of Efficacy
Chemotherapeutants against salmon lice Lepeophtheirus salmonis – screening of efficacy Stian Mørch Aaen Thesis for the degree of Philosophiae Doctor Department of Food Safety and Infection Biology Faculty of Veterinary Medicine and Biosciences Norwegian University of Life Sciences Adamstuen 2016 1 2 TABLE OF CONTENTS Acknowledgments 5 Acronyms/terminology 7 List of papers 8 Summary 9 Sammendrag 9 1 Introduction 11 1.1 Salmon farming in an international perspective; industrial challenges 11 1.2 Salmon lice 12 1.2.1 History and geographic distribution 12 1.2.2 Salmon lice life cycle 14 1.2.3 Pathology caused by salmon lice 16 1.2.4 Salmon lice cultivation in the lab 16 1.3 Approaches to combat sea lice 17 1.3.1 Medicinal interference: antiparasitic chemotherapeutants 17 1.3.2 Resistance in sea lice against chemotherapeutants 19 1.3.3 Non-medicinal intervention: examples 22 1.3.3.1 Physical barriers 23 1.3.3.2 Optical and acoustic control measures 23 1.3.3.3 Functional feeds, vaccine, breeding 24 1.3.3.4 Biological de-lousing: cleaner fish and freshwater 24 1.3.3.5 Physical removal 24 1.3.3.6 Fallowing and geographical zones 25 1.4 Rationale 25 2 Aims 26 3 Materials and methods 26 3.1 Materials 26 3.1.1 Salmon lice 26 3.1.2 Fish – Atlantic salmon 26 3.1.3 Water 27 3.1.3 Medicinal compounds 27 3.1.4 Dissolvents 29 3.2 Methods 29 3.2.1 Hatching assays with egg strings 29 3.2.2 Survival assays with nauplii 29 3.2.3 Bioassays with preadults 30 3.2.4 Statistical analysis 31 4 Summary of papers, I-IV 32 5 Discussion 35 5.1 Novel methods for medicine screening 35 5.2 Industrial innovation in aquaculture and pharmaceutical companies 35 5.3 Administration routes of medicinal compounds to fish 36 5.4 Mixing and bioavailability of medicinal products in seawater 37 5.5 Biochemical targets in L.