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Genomic Insight Into the Host–Endosymbiont Relationship of Endozoicomonas Montiporae CL-33T with Its Coral Host
ORIGINAL RESEARCH published: 08 March 2016 doi: 10.3389/fmicb.2016.00251 Genomic Insight into the Host–Endosymbiont Relationship of Endozoicomonas montiporae CL-33T with its Coral Host Jiun-Yan Ding 1, Jia-Ho Shiu 1, Wen-Ming Chen 2, Yin-Ru Chiang 1 and Sen-Lin Tang 1* 1 Biodiversity Research Center, Academia Sinica, Taipei, Taiwan, 2 Department of Seafood Science, Laboratory of Microbiology, National Kaohsiung Marine University, Kaohsiung, Taiwan The bacterial genus Endozoicomonas was commonly detected in healthy corals in many coral-associated bacteria studies in the past decade. Although, it is likely to be a core member of coral microbiota, little is known about its ecological roles. To decipher potential interactions between bacteria and their coral hosts, we sequenced and investigated the first culturable endozoicomonal bacterium from coral, the E. montiporae CL-33T. Its genome had potential sign of ongoing genome erosion and gene exchange with its Edited by: Rekha Seshadri, host. Testosterone degradation and type III secretion system are commonly present in Department of Energy Joint Genome Endozoicomonas and may have roles to recognize and deliver effectors to their hosts. Institute, USA Moreover, genes of eukaryotic ephrin ligand B2 are present in its genome; presumably, Reviewed by: this bacterium could move into coral cells via endocytosis after binding to coral’s Eph Kathleen M. Morrow, University of New Hampshire, USA receptors. In addition, 7,8-dihydro-8-oxoguanine triphosphatase and isocitrate lyase Jean-Baptiste Raina, are possible type III secretion effectors that might help coral to prevent mitochondrial University of Technology Sydney, Australia dysfunction and promote gluconeogenesis, especially under stress conditions. -
Fungia Fungites
University of Groningen Fungia fungites (Linnaeus, 1758) (Scleractinia, Fungiidae) is a species complex that conceals large phenotypic variation and a previously unrecognized genus Oku, Yutaro ; Iwao, Kenji ; Hoeksema, Bert W.; Dewa, Naoko ; Tachikawa, Hiroyuki ; Koido, Tatsuki ; Fukami, Hironobu Published in: Contributions to Zoology DOI: 10.1163/18759866-20191421 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): Oku, Y., Iwao, K., Hoeksema, B. W., Dewa, N., Tachikawa, H., Koido, T., & Fukami, H. (2020). Fungia fungites (Linnaeus, 1758) (Scleractinia, Fungiidae) is a species complex that conceals large phenotypic variation and a previously unrecognized genus. Contributions to Zoology, 89(2), 188-209. https://doi.org/10.1163/18759866-20191421 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. -
Microbiomes of Gall-Inducing Copepod Crustaceans from the Corals Stylophora Pistillata (Scleractinia) and Gorgonia Ventalina
www.nature.com/scientificreports OPEN Microbiomes of gall-inducing copepod crustaceans from the corals Stylophora pistillata Received: 26 February 2018 Accepted: 18 July 2018 (Scleractinia) and Gorgonia Published: xx xx xxxx ventalina (Alcyonacea) Pavel V. Shelyakin1,2, Sofya K. Garushyants1,3, Mikhail A. Nikitin4, Sofya V. Mudrova5, Michael Berumen 5, Arjen G. C. L. Speksnijder6, Bert W. Hoeksema6, Diego Fontaneto7, Mikhail S. Gelfand1,3,4,8 & Viatcheslav N. Ivanenko 6,9 Corals harbor complex and diverse microbial communities that strongly impact host ftness and resistance to diseases, but these microbes themselves can be infuenced by stresses, like those caused by the presence of macroscopic symbionts. In addition to directly infuencing the host, symbionts may transmit pathogenic microbial communities. We analyzed two coral gall-forming copepod systems by using 16S rRNA gene metagenomic sequencing: (1) the sea fan Gorgonia ventalina with copepods of the genus Sphaerippe from the Caribbean and (2) the scleractinian coral Stylophora pistillata with copepods of the genus Spaniomolgus from the Saudi Arabian part of the Red Sea. We show that bacterial communities in these two systems were substantially diferent with Actinobacteria, Alphaproteobacteria, and Betaproteobacteria more prevalent in samples from Gorgonia ventalina, and Gammaproteobacteria in Stylophora pistillata. In Stylophora pistillata, normal coral microbiomes were enriched with the common coral symbiont Endozoicomonas and some unclassifed bacteria, while copepod and gall-tissue microbiomes were highly enriched with the family ME2 (Oceanospirillales) or Rhodobacteraceae. In Gorgonia ventalina, no bacterial group had signifcantly diferent prevalence in the normal coral tissues, copepods, and injured tissues. The total microbiome composition of polyps injured by copepods was diferent. -
Checklist of Fish and Invertebrates Listed in the CITES Appendices
JOINTS NATURE \=^ CONSERVATION COMMITTEE Checklist of fish and mvertebrates Usted in the CITES appendices JNCC REPORT (SSN0963-«OStl JOINT NATURE CONSERVATION COMMITTEE Report distribution Report Number: No. 238 Contract Number/JNCC project number: F7 1-12-332 Date received: 9 June 1995 Report tide: Checklist of fish and invertebrates listed in the CITES appendices Contract tide: Revised Checklists of CITES species database Contractor: World Conservation Monitoring Centre 219 Huntingdon Road, Cambridge, CB3 ODL Comments: A further fish and invertebrate edition in the Checklist series begun by NCC in 1979, revised and brought up to date with current CITES listings Restrictions: Distribution: JNCC report collection 2 copies Nature Conservancy Council for England, HQ, Library 1 copy Scottish Natural Heritage, HQ, Library 1 copy Countryside Council for Wales, HQ, Library 1 copy A T Smail, Copyright Libraries Agent, 100 Euston Road, London, NWl 2HQ 5 copies British Library, Legal Deposit Office, Boston Spa, Wetherby, West Yorkshire, LS23 7BQ 1 copy Chadwick-Healey Ltd, Cambridge Place, Cambridge, CB2 INR 1 copy BIOSIS UK, Garforth House, 54 Michlegate, York, YOl ILF 1 copy CITES Management and Scientific Authorities of EC Member States total 30 copies CITES Authorities, UK Dependencies total 13 copies CITES Secretariat 5 copies CITES Animals Committee chairman 1 copy European Commission DG Xl/D/2 1 copy World Conservation Monitoring Centre 20 copies TRAFFIC International 5 copies Animal Quarantine Station, Heathrow 1 copy Department of the Environment (GWD) 5 copies Foreign & Commonwealth Office (ESED) 1 copy HM Customs & Excise 3 copies M Bradley Taylor (ACPO) 1 copy ^\(\\ Joint Nature Conservation Committee Report No. -
Effects of Heat Stress and Local Human Disturbance on the Structure of Coral Reef Ecosystems at Multiple Scales of Biological Organization
Effects of heat stress and local human disturbance on the structure of coral reef ecosystems at multiple scales of biological organization by Jennifer Magel BSc, Carleton University, 2015 A Thesis Submitted in Partial Fulfillment of the Requirements for the Degree of MASTER OF SCIENCE in the Department of Biology Jennifer Magel, 2018 University of Victoria All rights reserved. This thesis may not be reproduced in whole or in part, by photocopy or other means, without the permission of the author. ii Supervisory Committee Effects of heat stress and local human disturbance on the structure of coral reef ecosystems at multiple scales of biological organization by Jennifer Magel BSc, Carleton University, 2015 Supervisory Committee Dr. Julia Baum, Supervisor Department of Biology Dr. Rana El-Sabaawi, Departmental Member Department of Biology Dr. Verena Tunnicliffe, Departmental Member Department of Biology iii Abstract The world’s coral reefs are being impacted by myriad disturbances, from localized overfishing and nutrient pollution to global climate change-induced temperature increases and ocean acidification. Conservation of coral reefs in the face of increasing variability and uncertainty requires an understanding of the interacting effects of multiple stressors on the diverse components of these vital ecosystems. In this thesis, I use data from reefs around Kiritimati atoll (Republic of Kiribati) in the central equatorial Pacific Ocean to examine the effects of a severe pulse heat stress event and local human disturbance on two important components of the coral reef ecosystem – three-dimensional (3D) structural complexity and reef fish assemblages. Using 3D reef models constructed through structure-from-motion photogrammetry, I examined changes in reef structural complexity in the year following the 2015-2016 El Niño and mass coral bleaching event. -
Periclimenes Macrorhynchia Sp. Nov., a New Hydrozoan-Associated Pontoniine Shrimp (Crustacea, Decapoda, Palaemonidae) from North East Kalimantan, Indonesia
Zootaxa 3994 (3): 377–395 ISSN 1175-5326 (print edition) www.mapress.com/zootaxa/ Article ZOOTAXA Copyright © 2015 Magnolia Press ISSN 1175-5334 (online edition) http://dx.doi.org/10.11646/zootaxa.3994.3.3 http://zoobank.org/urn:lsid:zoobank.org:pub:05695D78-0427-4B7B-95A2-E260BF3D1DE5 Periclimenes macrorhynchia sp. nov., a new hydrozoan-associated pontoniine shrimp (Crustacea, Decapoda, Palaemonidae) from North East Kalimantan, Indonesia JONI EILBRACHT & CHARLES H.J.M. FRANSEN Naturalis Biodiversity Center, P.O. Box 9517, 2300 RA Leiden, The Netherlands. E-mail: [email protected] Abstract A new species of pontoniine shrimp belonging to the ‘Periclimenes obscurus species group’ is described from the Berau Islands, North East Kalimantan, Indonesia. Specimens were obtained from aglaopheniid hydrozoans of the genus Macro- rhynchia. The new species is here described and figured. Its affinities with related species are discussed and a DNA-bar- code is provided. Key words: Crustacea, Decapoda, Palaemonidae, Pontoniinae, Periclimenes, new species, Hydrozoa, East Kalimantan, DNA-barcode, symbiont Introduction Within the large pontoniine genus Periclimenes Costa comprising over 150 species (De Grave & Fransen 2011), several species groups have been recognized. For some of these groups new genera were erected, e.g. Ancylomenes Okuno & Bruce, 2010 for the ‘Periclimenes aesopius species group’. For several of these species groups however, no solid morphological synapomorphies have been found to classify them in their own genus. Examples are the ‘Periclimenes iridescens species group’ known from the Atlantic and first distinguished by Heard & Spotte (1991), the ‘Periclimenes diversipes species group’ designated by Bruce (1989), the ‘Periclimenes granulimanus species group’ designated by Ďuriš (2010), and the ‘Periclimenes obscurus species group’ which was designated by Bruce (1987). -
Comprehensive Phylogenomic Analyses Resolve Cnidarian Relationships and the Origins of Key Organismal Traits
Comprehensive phylogenomic analyses resolve cnidarian relationships and the origins of key organismal traits Ehsan Kayal1,2, Bastian Bentlage1,3, M. Sabrina Pankey5, Aki H. Ohdera4, Monica Medina4, David C. Plachetzki5*, Allen G. Collins1,6, Joseph F. Ryan7,8* Authors Institutions: 1. Department of Invertebrate Zoology, National Museum of Natural History, Smithsonian Institution 2. UPMC, CNRS, FR2424, ABiMS, Station Biologique, 29680 Roscoff, France 3. Marine Laboratory, university of Guam, UOG Station, Mangilao, GU 96923, USA 4. Department of Biology, Pennsylvania State University, University Park, PA, USA 5. Department of Molecular, Cellular and Biomedical Sciences, University of New Hampshire, Durham, NH, USA 6. National Systematics Laboratory, NOAA Fisheries, National Museum of Natural History, Smithsonian Institution 7. Whitney Laboratory for Marine Bioscience, University of Florida, St Augustine, FL, USA 8. Department of Biology, University of Florida, Gainesville, FL, USA PeerJ Preprints | https://doi.org/10.7287/peerj.preprints.3172v1 | CC BY 4.0 Open Access | rec: 21 Aug 2017, publ: 21 Aug 20171 Abstract Background: The phylogeny of Cnidaria has been a source of debate for decades, during which nearly all-possible relationships among the major lineages have been proposed. The ecological success of Cnidaria is predicated on several fascinating organismal innovations including symbiosis, colonial body plans and elaborate life histories, however, understanding the origins and subsequent diversification of these traits remains difficult due to persistent uncertainty surrounding the evolutionary relationships within Cnidaria. While recent phylogenomic studies have advanced our knowledge of the cnidarian tree of life, no analysis to date has included genome scale data for each major cnidarian lineage. Results: Here we describe a well-supported hypothesis for cnidarian phylogeny based on phylogenomic analyses of new and existing genome scale data that includes representatives of all cnidarian classes. -
Periclimenes Vanellus Spec. Nov., a New Sponge-Associated Pontoniine Shrimp (Decapoda, Caridea, Palaemonidae) from Indonesia
PERICLIMENES VANELLUS SPEC. NOV., A NEW SPONGE-ASSOCIATED PONTONIINE SHRIMP (DECAPODA, CARIDEA, PALAEMONIDAE) FROM INDONESIA BY CHARLES H.J.M. FRANSEN1) NCB — Naturalis, P.O. Box 9517, 2300 RA Leiden, The Netherlands ABSTRACT A new sponge-associated species of the genus Periclimenes is described from Halmahera, Indonesia. The new species has some affinities with species from the Periclimenes iridescens and Periclimenes obscurus species complexes as well as with Phycomenes indicus (Kemp, 1915), but can easily be separated from these species by the very long upper antennular flagellum and antennal flagellum, and the distinctly spatulate second pereiopods. RÉSUMÉ Une nouvelle espèce du genre Periclimenes, vivant en association avec des éponges, est décrite à partir d’échantillons récoltés à Halmahera en Indonésie. Cette nouvelle espèce a des affinités avec les complexes d’espèces Periclimenes iridescens et Periclimenes obscurus ainsi qu’avec Phycomenes indicus (Kemp, 1915), mais peut facilement s’en distinguer par son très longue flagelle antennulaire supérieure son flagelle antennaire, et ses deuxièmes péréiopodes spatulés. INTRODUCTION The pontoniine genus Periclimenes Costa, 1844 at present contains 173 named species (De Grave et al., 2009) of which 152 are known from the Indo- Pacific. Except for a few free-living species, most members of the genus live in association with other invertebrates. Six sponge-associated Periclimenes species have thus far been recorded from the Indo-Pacific: P. burrup Bruce, 2007b, P. forcipulatus Bruce, 1991; P. incertus Borradaile, 1915; P. obscurus Kemp, 1922 (see Bruce, 2007a), P. rex Kemp, 1922, and P. ? zevinae Duris, 1990 (see Fransen, 1994). 1) e-mail: [email protected] © Koninklijke Brill NV, Leiden, 2010 Studies on Malacostraca: 241-253 242 CRM 014 – Fransen et al. -
Biomineralisation in Reef-Building Corals: from Molecular Mechanisms to Environmental Control
C. R. Palevol 3 (2004) 453–467 General Palaeontology (Palaeobiochemistry) Biomineralisation in reef-building corals: from molecular mechanisms to environmental control Denis Allemand a,b,*, Christine Ferrier-Pagès a, Paola Furla a,1, Fanny Houlbrèque a, Sandrine Puverel a,b, Stéphanie Reynaud a, Éric Tambutté a, Sylvie Tambutté a, Didier Zoccola a a Centre scientifique de Monaco, avenue Saint-Martin, 98000 Monaco, principauté de Monaco b UMR 1112 INRA–UNSA, faculté des sciences, université Nice–Sophia-Antipolis, parc Valrose, BP 71, 06108 Nice cedex 2, France Received 7 October 2003; accepted after revision 12 July 2004 Available online 30 September 2004 Written on invitation of the Editorial Board Abstract Coral reefs constitute real oasis sheltering for about one third of the identified fishes, representing a major advantage for the economy and tourism of many tropical countries. However it is paradoxical to notice that their formation at the cellular level or even at the scale of the organism is still poorly known. Effectively, biomineralisation, the process that is at the basis of their edification, is always the subject of numerous researches. Two combined mechanisms lead to the formation of a biomineral, the synthesis/secretion of macromolecules referred to as ‘organic matrix’, and the transport of ions (calcium, bicarbonates and protons in the case of calcification) to the mineralising site. This review shows a view of the works carried out on biominerali- sation in scleractinian corals, including some aspects on the control of calcification by environmental parameters. It also gives insights into the biological basis of the use of coral skeletons as environmental archives in palaeo-oceanography. -
Scleractinian Reef Corals: Identification Notes
SCLERACTINIAN REEF CORALS: IDENTIFICATION NOTES By JACKIE WOLSTENHOLME James Cook University AUGUST 2004 DOI: 10.13140/RG.2.2.24656.51205 http://dx.doi.org/10.13140/RG.2.2.24656.51205 Scleractinian Reef Corals: Identification Notes by Jackie Wolstenholme is licensed under a Creative Commons Attribution-NonCommercial-ShareAlike 3.0 Unported License. TABLE OF CONTENTS TABLE OF CONTENTS ........................................................................................................................................ i INTRODUCTION .................................................................................................................................................. 1 ABBREVIATIONS AND DEFINITIONS ............................................................................................................. 2 FAMILY ACROPORIDAE.................................................................................................................................... 3 Montipora ........................................................................................................................................................... 3 Massive/thick plates/encrusting & tuberculae/papillae ................................................................................... 3 Montipora monasteriata .............................................................................................................................. 3 Massive/thick plates/encrusting & papillae ................................................................................................... -
Recent Additions to the Pontoniine Shrimp Fauna of Australia
The Beagle, Records of the Northern Territory Museum of Arts and Sciences, 1990 7(2):9-20 0 tJ 0 RECENT ADDITIONS TO THE PONTONIINE SHRIMP FAUNA OF AUSTRALIA. A.J. BRUCE Northern Territory Museum of Arts and Sciences GPO Box 4646, Darwin NT 0801, Australia. ABSTRACT Recent additions to the pontoniine shrimp fauna of Australia are reviewed and data are provided on seven species not previously known from Australia: Onycocaris spinosa Fujino and Miyake, Periclimenes mahei Bruce, Platypontonia brevirostris (Miers), Pontonia stylirostris Holthuis, Tuleariocaris holthuisi Hipeau-Jacquotte, Vir orientalis (Dana) and V. philippinensis Bruce and Svoboda. Recent nomencla- tural amendments are included. The number of species presently known is increased from 136 to 168 and their distributions and zoogeography are discussed. KEYWORDS: Crustacea: Decapoda: Palaemonidae, Australian fauna, recent addi- tions, new records, zoogeography, Indo-West Pacific. CRUSTACEA LIBRARY SMITHSONIAN INSTITUTION RETURN TO W-119 INTRODUCTION Although detailed studies of the Indonesian fauna have been made through the activities of In 1983, Bruce (1983a) provided a review the Siboga and Snellius expeditions (1899- on the occurrence of 136 species of pontoniine 1900, 1929-1930), these were carried out shrimp in the seas around Australia, described before the common use of SCUBA equipment. up to 1980. Since that publication, three of the Undoubtedly many of the recently discovered species, of the genus Anchistioides, have been tropical Australian species will be found to transferred to the resurrected family Anchis- also occur in Indonesian waters in due course, tioididae Borradaile, and two species, of probably together with much that is com- Gnathophylloides, have been transferred from pletely new. -
Molecular Diversity, Phylogeny, and Biogeographic Patterns of Crustacean Copepods Associated with Scleractinian Corals of the Indo-Pacific
Molecular Diversity, Phylogeny, and Biogeographic Patterns of Crustacean Copepods Associated with Scleractinian Corals of the Indo-Pacific Dissertation by Sofya Mudrova In Partial Fulfillment of the Requirements For the Degree of Doctor of Philosophy of Science King Abdullah University of Science and Technology, Thuwal, Kingdom of Saudi Arabia November, 2018 2 EXAMINATION COMMITTEE PAGE The dissertation of Sofya Mudrova is approved by the examination committee. Committee Chairperson: Dr. Michael Lee Berumen Committee Co-Chair: Dr. Viatcheslav Ivanenko Committee Members: Dr. James Davis Reimer, Dr. Takashi Gojobori, Dr. Manuel Aranda Lastra 3 COPYRIGHT PAGE © November, 2018 Sofya Mudrova All rights reserved 4 ABSTRACT Molecular diversity, phylogeny and biogeographic patterns of crustacean copepods associated with scleractinian corals of the Indo-Pacific Sofya Mudrova Biodiversity of coral reefs is higher than in any other marine ecosystem, and significant research has focused on studying coral taxonomy, physiology, ecology, and coral-associated fauna. Yet little is known about symbiotic copepods, abundant and numerous microscopic crustaceans inhabiting almost every living coral colony. In this thesis, I investigate the genetic diversity of different groups of copepods associated with reef-building corals in distinct parts of the Indo-Pacific; determine species boundaries; and reveal patterns of biogeography, endemism, and host-specificity in these symbiotic systems. A non-destructive method of DNA extraction allowed me to use an integrated approach to conduct a diversity assessment of different groups of copepods and to determine species boundaries using molecular and taxonomical methods. Overall, for this thesis, I processed and analyzed 1850 copepod specimens, representing 269 MOTUs collected from 125 colonies of 43 species of scleractinian corals from 11 locations in the Indo-Pacific.