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Article Evolutionary Dynamics of the OR Gene Repertoire in Teleost Fishes
bioRxiv preprint doi: https://doi.org/10.1101/2021.03.09.434524; this version posted March 10, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Article Evolutionary dynamics of the OR gene repertoire in teleost fishes: evidence of an association with changes in olfactory epithelium shape Maxime Policarpo1, Katherine E Bemis2, James C Tyler3, Cushla J Metcalfe4, Patrick Laurenti5, Jean-Christophe Sandoz1, Sylvie Rétaux6 and Didier Casane*,1,7 1 Université Paris-Saclay, CNRS, IRD, UMR Évolution, Génomes, Comportement et Écologie, 91198, Gif-sur-Yvette, France. 2 NOAA National Systematics Laboratory, National Museum of Natural History, Smithsonian Institution, Washington, D.C. 20560, U.S.A. 3Department of Paleobiology, National Museum of Natural History, Smithsonian Institution, Washington, D.C., 20560, U.S.A. 4 Independent Researcher, PO Box 21, Nambour QLD 4560, Australia. 5 Université de Paris, Laboratoire Interdisciplinaire des Energies de Demain, Paris, France 6 Université Paris-Saclay, CNRS, Institut des Neurosciences Paris-Saclay, 91190, Gif-sur- Yvette, France. 7 Université de Paris, UFR Sciences du Vivant, F-75013 Paris, France. * Corresponding author: e-mail: [email protected]. !1 bioRxiv preprint doi: https://doi.org/10.1101/2021.03.09.434524; this version posted March 10, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Abstract Teleost fishes perceive their environment through a range of sensory modalities, among which olfaction often plays an important role. -
Zootaxa 3266: 41–52 (2012) ISSN 1175-5326 (Print Edition) Article ZOOTAXA Copyright © 2012 · Magnolia Press ISSN 1175-5334 (Online Edition)
Zootaxa 3266: 41–52 (2012) ISSN 1175-5326 (print edition) www.mapress.com/zootaxa/ Article ZOOTAXA Copyright © 2012 · Magnolia Press ISSN 1175-5334 (online edition) Thalasseleotrididae, new family of marine gobioid fishes from New Zealand and temperate Australia, with a revised definition of its sister taxon, the Gobiidae (Teleostei: Acanthomorpha) ANTHONY C. GILL1,2 & RANDALL D. MOOI3,4 1Macleay Museum and School of Biological Sciences, A12 – Macleay Building, The University of Sydney, New South Wales 2006, Australia. E-mail: [email protected] 2Ichthyology, Australian Museum, 6 College Street, Sydney, New South Wales 2010, Australia 3The Manitoba Museum, 190 Rupert Ave., Winnipeg MB, R3B 0N2 Canada. E-mail: [email protected] 4Department of Biological Sciences, 212B Biological Sciences Bldg., University of Manitoba, Winnipeg MB, R3T 2N2 Canada Abstract Thalasseleotrididae n. fam. is erected to include two marine genera, Thalasseleotris Hoese & Larson from temperate Aus- tralia and New Zealand, and Grahamichthys Whitley from New Zealand. Both had been previously classified in the family Eleotrididae. The Thalasseleotrididae is demonstrably monophyletic on the basis of a single synapomorphy: membrane connecting the hyoid arch to ceratobranchial 1 broad, extending most of the length of ceratobranchial 1 (= first gill slit restricted or closed). The family represents the sister group of a newly diagnosed Gobiidae on the basis of five synapo- morphies: interhyal with cup-shaped lateral structure for articulation with preopercle; laterally directed posterior process on the posterior ceratohyal supporting the interhyal; pharyngobranchial 4 absent; dorsal postcleithrum absent; urohyal without ventral shelf. The Gobiidae is defined by three synapomorphies: five branchiostegal rays; expanded and medially- placed ventral process on ceratobranchial 5; dorsal hemitrich of pelvic-fin rays with complex proximal head. -
(Sea of Okhotsk, Sakhalin Island): 2. Cyclopteridae−Molidae Families
ISSN 0032-9452, Journal of Ichthyology, 2018, Vol. 58, No. 5, pp. 633–661. © Pleiades Publishing, Ltd., 2018. An Annotated List of the Marine and Brackish-Water Ichthyofauna of Aniva Bay (Sea of Okhotsk, Sakhalin Island): 2. Cyclopteridae−Molidae Families Yu. V. Dyldina, *, A. M. Orlova, b, c, d, A. Ya. Velikanove, S. S. Makeevf, V. I. Romanova, and L. Hanel’g aTomsk State University (TSU), Tomsk, Russia bRussian Federal Research Institute of Fishery and Oceanography (VNIRO), Moscow, Russia cInstitute of Ecology and Evolution, Russian Academy of Sciences (IPEE), Moscow, Russia d Dagestan State University (DSU), Makhachkala, Russia eSakhalin Research Institute of Fisheries and Oceanography (SakhNIRO), Yuzhno-Sakhalinsk, Russia fSakhalin Basin Administration for Fisheries and Conservation of Aquatic Biological Resources—Sakhalinrybvod, Aniva, Yuzhno-Sakhalinsk, Russia gCharles University in Prague, Prague, Czech Republic *e-mail: [email protected] Received March 1, 2018 Abstract—The second, final part of the work contains a continuation of the annotated list of fish species found in the marine and brackish waters of Aniva Bay (southern part of the Sea of Okhotsk, southern part of Sakhalin Island): 137 species belonging to three orders (Perciformes, Pleuronectiformes, Tetraodon- tiformes), 31 family, and 124 genera. The general characteristics of ichthyofauna and a review of the commer- cial fishery of the bay fish, as well as the final systematic essay, are presented. Keywords: ichthyofauna, annotated list, conservation status, commercial importance, marine and brackish waters, Aniva Bay, southern part of the Sea of Okhotsk, Sakhalin Island DOI: 10.1134/S0032945218050053 INTRODUCTION ANNOTATED LIST OF FISHES OF ANIVA BAY The second part concludes the publication on the 19. -
Pacific Plate Biogeography, with Special Reference to Shorefishes
Pacific Plate Biogeography, with Special Reference to Shorefishes VICTOR G. SPRINGER m SMITHSONIAN CONTRIBUTIONS TO ZOOLOGY • NUMBER 367 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 Zoo/ogy 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 cf 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. -
Ecology, Biology and Taxonomy. Mudskippers
Chapter of the edited collection: Mangroves: Ecology, Biology and Taxonomy. Mudskippers: human use, ecotoxicology and biomonitoring of mangrove and other soft bottom intertidal ecosystems. Gianluca Polgar 1 and Richard Lim 2 1Institute of Biological Sciences, Institute of Ocean and Earth Sciences, Faculty of Science, University of Malaya, 50603 Kuala Lumpur, Malaysia. Tel. +603-7967-4609 / 4182; e-mail: [email protected] / [email protected]. Web site: www.themudskipper.org 2Centre for Environmental Sustainability, School of the Environment, Faculty of Science, University of Technology Sydney, Broadway, New South Wales 2007, Australia. e-mail: [email protected] Abstract (269) Mudskippers (Gobiidae: Oxudercinae) are air-breathing gobies, which are widely distributed throughout the West African coast and the Indo-Pacific region. They are closely linked to mangrove and adjacent soft bottom peri-tidal ecosystems. Some species are amongst the best adapted fishes to an amphibious lifestyle. All mudskippers are benthic burrowers in anoxic sediments, and since tidal mudflats are efficient sediment traps, and sinks for nutrients and other chemical compounds, they are constantly in contact with several types of pollutants produced by industrial, agricultural and domestic activities. Due to their natural abundance, considerable resistance to highly polluted conditions, and their benthic habits, mudskippers are frequently used in aquatic ecotoxicological studies. For the same reasons, mudskippers also frequently occur in urbanised or semi-natural coastal areas. Since several species are widely consumed throughout their whole geographical range, these same characteristics also facilitate their aquaculture in several countries, such as Bangladesh, Thailand, Philippines, China, Taiwan and Japan. Even when not directly used, mudskippers are often abundant and are important prey items for many intertidal transient species (marine visitors), and several species of shorebirds. -
Rhinogobius Mizunoi, a New Species of Freshwater Goby (Teleostei: Gobiidae) from Japan
Bull. Kanagawa prefect. Mus. (Nat. Sci.), no. 46, pp. 79-95, Feb. 2017 79 Original Article Rhinogobius mizunoi, A New Species of Freshwater Goby (Teleostei: Gobiidae) from Japan Toshiyuki Suzuki 1), Koichi Shibukawa 2) & Masahiro Aizawa 3) Abstract. A new freshwater goby, Rhinogobius mizunoi, is described based on six specimens from a freshwater stream in Shizuoka Prefecture, Japan. The species is distinguished from all congeneric species by the following combination of characters: I, 8 second dorsal-fin rays; 18–20 pectoral-fin rays; 13–18 predorsal scales; 33–35 longitudinal scales; 8 or 9 transverse scales; 10+16=26 vertebrae 26; first dorsal fin elongate in male, its distal tip reaching to base of fourth branched ray of second dorsal fin in males when adpressed; when alive or freshly-collected, cheek with several pale sky spots; caudal fin without distinct rows of dark dots; a pair of vertically- arranged dark brown blotches at caudal-fin base in young and females. Key words: amphidoromous, fish taxonomy, Rhinogobius sp. CO, valid species Introduction 6–11 segmented rays; anal fin with a single spine and 5–11 The freshwater gobies of the genus Rhinogobius Gill, segmented rays; pectoral fin with 14–23 segmented rays; 1859 are widely distributed in the East and Southeast pelvic fin with a single spine and five segmented rays; Asian regions, including the Russia Far East, Japan, 25–44 longitudinal scales; 7–16 transverse scales; P-V 3/ Korea, China, Taiwan, the Philippines, Vietnam, Laos, II II I I 0/9; 10–11+15–18= 25–29 vertebrae; body mostly Cambodia, and Thailand (Chen & Miller, 2014). -
A NEW GENUS of Hemigobius GENERIC GROUP GOBY BASED on MORPHOLOGICAL and MOLECULAR EVIDENCE, with DESCRIPTION of a NEW SPECIES
146 Journal of Marine Science and Technology, Vol. 21, Suppl., pp. 146-155 (2013) DOI: 10.6119/JMST-013-1219-13 A NEW GENUS OF Hemigobius GENERIC GROUP GOBY BASED ON MORPHOLOGICAL AND MOLECULAR EVIDENCE, WITH DESCRIPTION OF A NEW SPECIES Shih-Pin Huang1, Jaafar Zeehan2, and I-Shiung Chen1 Key words: new genus, new species, brackish water, mangrove. papillar petterns. Among the taxonomic studies of Hemigobius generic group, thought Larson consider that genus Weber- ogobius Koumans, 1953 [15] is synonym of genus Mugilogo- ABSTRACT bius Smitt, 1900 [28], however, Miller consider genus We- Wuhanlinigobius, a new genus of Hemigobius generic berogobius is valid [20], in this study, we also consider that group would been established and assigned from Mugilogo- genus Weberogobius is a valid genus, genus Weberogobius bius polylepis Wu and Ni, 1985. Mugilogobius polylepis has can be easy distinguished from genus Mugilogobius by they been regarded as belong to genus Eugnathogobius based on have different vertebral count (11+15-16 vs. 10+16) as well as lacking head pores and representing longitudinal sensory pa- other their own features. pillae in previous taxonomic study. However, we compared On the other hand, among the genus Eugnathogobius Smith, the osteological features of Mugilogobius polylepis Wu and 1931, the genus Eugnathogobius was established based on Ni, 1985 and Eugnathogobius microps Smith, 1931 as well as Eugnathogobius microps Smith, 1931. According to mentions the molecular phylogenetic analysis based on the mtDNA of Larson, genus Eugnathogobius consists of 9 nominal spe- ND5, Cyt-b genes and D-loop region. The molecular phy- cies [18], including E. -
Assessing Species Diversity of Coral Triangle Artisanal Fisheries: a DNA Barcode Reference Library for the Shore Fishes Retailed at Ambon Harbor (Indonesia)
Received: 19 September 2019 | Revised: 30 January 2020 | Accepted: 3 February 2020 DOI: 10.1002/ece3.6128 ORIGINAL RESEARCH Assessing species diversity of Coral Triangle artisanal fisheries: A DNA barcode reference library for the shore fishes retailed at Ambon harbor (Indonesia) Gino Limmon1 | Erwan Delrieu-Trottin2,3 | Jesaya Patikawa1 | Frederik Rijoly1 | Hadi Dahruddin4 | Frédéric Busson2,5 | Dirk Steinke6 | Nicolas Hubert2 1Pusat Kemaritiman dan Kelautan, Universitas Pattimura (Maritime and Marine Abstract Science Center of Excellence), Ambon, The Coral Triangle (CT), a region spanning across Indonesia and Philippines, is home Indonesia to about 4,350 marine fish species and is among the world's most emblematic re- 2Institut de Recherche pour le Développement, UMR 226 ISEM (UM- gions in terms of conservation. Threatened by overfishing and oceans warming, the CNRS-IRD-EPHE), Montpellier, France CT fisheries have faced drastic declines over the last decades. Usually monitored 3Museum für Naturkunde, Leibniz-Institut für Evolutions-und Biodiversitätsforschung through a biomass-based approach, fisheries trends have rarely been characterized an der Humboldt-Universität zu Berlin, at the species level due to the high number of taxa involved and the difficulty to Berlin, Germany accurately and routinely identify individuals to the species level. Biomass, however, 4Division of Zoology, Research Center for Biology, Indonesian Institute of Sciences is a poor proxy of species richness, and automated methods of species identifica- (LIPI), Cibinong, Indonesia tion are required to move beyond biomass-based approaches. Recent meta-analyses 5UMR 7208 BOREA (MNHN-CNRS-UPMC- have demonstrated that species richness peaks at intermediary levels of biomass. IRD-UCBN), Muséum National d’Histoire Naturelle, Paris, France Consequently, preserving biomass is not equal to preserving biodiversity. -
A Dissertation Entitled Evolution, Systematics
A Dissertation Entitled Evolution, systematics, and phylogeography of Ponto-Caspian gobies (Benthophilinae: Gobiidae: Teleostei) By Matthew E. Neilson Submitted as partial fulfillment of the requirements for The Doctor of Philosophy Degree in Biology (Ecology) ____________________________________ Adviser: Dr. Carol A. Stepien ____________________________________ Committee Member: Dr. Christine M. Mayer ____________________________________ Committee Member: Dr. Elliot J. Tramer ____________________________________ Committee Member: Dr. David J. Jude ____________________________________ Committee Member: Dr. Juan L. Bouzat ____________________________________ College of Graduate Studies The University of Toledo December 2009 Copyright © 2009 This document is copyrighted material. Under copyright law, no parts of this document may be reproduced without the expressed permission of the author. _______________________________________________________________________ An Abstract of Evolution, systematics, and phylogeography of Ponto-Caspian gobies (Benthophilinae: Gobiidae: Teleostei) Matthew E. Neilson Submitted as partial fulfillment of the requirements for The Doctor of Philosophy Degree in Biology (Ecology) The University of Toledo December 2009 The study of biodiversity, at multiple hierarchical levels, provides insight into the evolutionary history of taxa and provides a framework for understanding patterns in ecology. This is especially poignant in invasion biology, where the prevalence of invasiveness in certain taxonomic groups could -
Reef Fishes of the Bird's Head Peninsula, West
Check List 5(3): 587–628, 2009. ISSN: 1809-127X LISTS OF SPECIES Reef fishes of the Bird’s Head Peninsula, West Papua, Indonesia Gerald R. Allen 1 Mark V. Erdmann 2 1 Department of Aquatic Zoology, Western Australian Museum. Locked Bag 49, Welshpool DC, Perth, Western Australia 6986. E-mail: [email protected] 2 Conservation International Indonesia Marine Program. Jl. Dr. Muwardi No. 17, Renon, Denpasar 80235 Indonesia. Abstract A checklist of shallow (to 60 m depth) reef fishes is provided for the Bird’s Head Peninsula region of West Papua, Indonesia. The area, which occupies the extreme western end of New Guinea, contains the world’s most diverse assemblage of coral reef fishes. The current checklist, which includes both historical records and recent survey results, includes 1,511 species in 451 genera and 111 families. Respective species totals for the three main coral reef areas – Raja Ampat Islands, Fakfak-Kaimana coast, and Cenderawasih Bay – are 1320, 995, and 877. In addition to its extraordinary species diversity, the region exhibits a remarkable level of endemism considering its relatively small area. A total of 26 species in 14 families are currently considered to be confined to the region. Introduction and finally a complex geologic past highlighted The region consisting of eastern Indonesia, East by shifting island arcs, oceanic plate collisions, Timor, Sabah, Philippines, Papua New Guinea, and widely fluctuating sea levels (Polhemus and the Solomon Islands is the global centre of 2007). reef fish diversity (Allen 2008). Approximately 2,460 species or 60 percent of the entire reef fish The Bird’s Head Peninsula and surrounding fauna of the Indo-West Pacific inhabits this waters has attracted the attention of naturalists and region, which is commonly referred to as the scientists ever since it was first visited by Coral Triangle (CT). -
Quantitative Species-Level Ecology of Reef Fish Larvae Via Metabarcoding
ARTICLES https://doi.org/10.1038/s41559-017-0413-2 Quantitative species-level ecology of reef fish larvae via metabarcoding Naama Kimmerling1,2, Omer Zuqert3, Gil Amitai3, Tamara Gurevich2, Rachel Armoza-Zvuloni2,8, Irina Kolesnikov2, Igal Berenshtein1,2, Sarah Melamed3, Shlomit Gilad4, Sima Benjamin4, Asaph Rivlin2, Moti Ohavia2, Claire B. Paris 5, Roi Holzman 2,6*, Moshe Kiflawi 2,7* and Rotem Sorek 3* The larval pool of coral reef fish has a crucial role in the dynamics of adult fish populations. However, large-scale species-level monitoring of species-rich larval pools has been technically impractical. Here, we use high-throughput metabarcoding to study larval ecology in the Gulf of Aqaba, a region that is inhabited by >500 reef fish species. We analysed 9,933 larvae from 383 samples that were stratified over sites, depth and time. Metagenomic DNA extracted from pooled larvae was matched to a mitochondrial cytochrome c oxidase subunit I barcode database compiled for 77% of known fish species within this region. This yielded species-level reconstruction of the larval community, allowing robust estimation of larval spatio-temporal distribu- tions. We found significant correlations between species abundance in the larval pool and in local adult assemblages, suggest- ing a major role for larval supply in determining local adult densities. We documented larval flux of species whose adults were never documented in the region, suggesting environmental filtering as the reason for the absence of these species. Larvae of several deep-sea fishes were found in shallow waters, supporting their dispersal over shallow bathymetries, potentially allow- ing Lessepsian migration into the Mediterranean Sea. -
Review of the Western Atlantic Species of Bollmannia (Teleostei: Gobiidae: Gobiosomatini) with the Description of a New Allied Genus and Species
aqua, International Journal of Ichthyology Review of the western Atlantic species of Bollmannia (Teleostei: Gobiidae: Gobiosomatini) with the description of a new allied genus and species James L. Van Tassell1*, Luke Tornabene2, Patrick L. Colin3 1) American Museum of Natural History, Central Park West at 79th Street, New York, NY 10024-5192, U.S.A. *Corresponding author: [email protected] 2) Texas A&M University – Corpus Christi, 6300 Ocean Drive, Corpus Christi, TX 78412, U.S.A. 3) Coral Reef Research Foundation P.O. Box 1765 Koror, Palau 96940 Received: 20 May 2011 – Accepted: 30 September 2011 Abstract Résumé Bollmannia Jordan is a poorly studied group of American Bollmannia Jordan est un groupe peu étudié de gobies seven-spined gobies with representatives in the tropical américains à sept épines avec des représentants dans l’Atlan- and subtropical western Atlantic and tropical eastern Pa - tique ouest tropical et subtropical et dans le Pacifique est cific oceans. We review the taxonomy of the western tropical. Nous faisons une révision de espèces de l’Atlantique Atlantic species and provide redescriptions for the four ouest et donnons la redescription des quatre espèces recon- valid species: B. boqueronensis, B. communis, B. eigenmanni nues : B. boqueronensis, B. communis, B. eigenmanni et B. and B. litura. Bollmannia jeannae is considered to be a litura. Bollmannia jeannae est considéré comme un syn- junior synonym of B. boqueronensis. We also describe a onyme plus récent de B. boqueronensis. Nous décrivons aussi new genus and species of deep-water goby and discuss its un nouveau genre et une nouvelle espèce de gobie des eaux affinities to Bollmannia and other genera of the Micro - profondes et en discutons les affinités avec Bollmannia et gobius group of the Gobiosomatini.