Coral Injuries Caused by Spirobranchus Opercula with and Without Epibiotic Turf Algae at Curaçao
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1 Exon Probe Sets and Bioinformatics Pipelines for All Levels of Fish Phylogenomics
bioRxiv preprint doi: https://doi.org/10.1101/2020.02.18.949735; this version posted February 19, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder.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. 1 Exon probe sets and bioinformatics pipelines for all levels of fish phylogenomics 2 3 Lily C. Hughes1,2,3,*, Guillermo Ortí1,3, Hadeel Saad1, Chenhong Li4, William T. White5, Carole 4 C. Baldwin3, Keith A. Crandall1,2, Dahiana Arcila3,6,7, and Ricardo Betancur-R.7 5 6 1 Department of Biological Sciences, George Washington University, Washington, D.C., U.S.A. 7 2 Computational Biology Institute, Milken Institute of Public Health, George Washington 8 University, Washington, D.C., U.S.A. 9 3 Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian 10 Institution, Washington, D.C., U.S.A. 11 4 College of Fisheries and Life Sciences, Shanghai Ocean University, Shanghai, China 12 5 CSIRO Australian National Fish Collection, National Research Collections of Australia, 13 Hobart, TAS, Australia 14 6 Sam Noble Oklahoma Museum of Natural History, Norman, O.K., U.S.A. 15 7 Department of Biology, University of Oklahoma, Norman, O.K., U.S.A. 16 17 *Corresponding author: Lily C. Hughes, [email protected]. 18 Current address: Department of Organismal Biology and Anatomy, University of Chicago, 19 Chicago, IL. 20 21 Keywords: Actinopterygii, Protein coding, Systematics, Phylogenetics, Evolution, Target 22 capture 23 1 bioRxiv preprint doi: https://doi.org/10.1101/2020.02.18.949735; this version posted February 19, 2020. -
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. -
Reproduction and Population of Porites Divaricata at Rodriguez Key: the Lorf Ida Keys, USA John Mcdermond Nova Southeastern University, [email protected]
Nova Southeastern University NSUWorks HCNSO Student Theses and Dissertations HCNSO Student Work 1-1-2014 Reproduction and Population of Porites divaricata at Rodriguez Key: The lorF ida Keys, USA John McDermond Nova Southeastern University, [email protected] Follow this and additional works at: https://nsuworks.nova.edu/occ_stuetd Part of the Marine Biology Commons, and the Oceanography Commons Share Feedback About This Item NSUWorks Citation John McDermond. 2014. Reproduction and Population of Porites divaricata at Rodriguez Key: The Florida Keys, USA. Master's thesis. Nova Southeastern University. Retrieved from NSUWorks, Oceanographic Center. (17) https://nsuworks.nova.edu/occ_stuetd/17. This Thesis is brought to you by the HCNSO Student Work at NSUWorks. It has been accepted for inclusion in HCNSO Student Theses and Dissertations by an authorized administrator of NSUWorks. For more information, please contact [email protected]. NOVA SOUTHEASTERN UNIVERSITY OCEANOGRAPHIC CENTER Reproduction and Population of Porites divaricata at Rodriguez Key: The Florida Keys, USA By: John McDermond Submitted to the faculty of Nova Southeastern University Oceanographic Center in partial fulfillment of the requirements for the degree of Master of Science with a specialty in Marine Biology Nova Southeastern University i Thesis of John McDermond Submitted in Partial Fulfillment of the Requirements for the Degree of Masters of Science: Marine Biology Nova Southeastern University Oceanographic Center Major Professor: __________________________________ -
Hotspots, Extinction Risk and Conservation Priorities of Greater Caribbean and Gulf of Mexico Marine Bony Shorefishes
Old Dominion University ODU Digital Commons Biological Sciences Theses & Dissertations Biological Sciences Summer 2016 Hotspots, Extinction Risk and Conservation Priorities of Greater Caribbean and Gulf of Mexico Marine Bony Shorefishes Christi Linardich Old Dominion University, [email protected] Follow this and additional works at: https://digitalcommons.odu.edu/biology_etds Part of the Biodiversity Commons, Biology Commons, Environmental Health and Protection Commons, and the Marine Biology Commons Recommended Citation Linardich, Christi. "Hotspots, Extinction Risk and Conservation Priorities of Greater Caribbean and Gulf of Mexico Marine Bony Shorefishes" (2016). Master of Science (MS), Thesis, Biological Sciences, Old Dominion University, DOI: 10.25777/hydh-jp82 https://digitalcommons.odu.edu/biology_etds/13 This Thesis is brought to you for free and open access by the Biological Sciences at ODU Digital Commons. It has been accepted for inclusion in Biological Sciences Theses & Dissertations by an authorized administrator of ODU Digital Commons. For more information, please contact [email protected]. HOTSPOTS, EXTINCTION RISK AND CONSERVATION PRIORITIES OF GREATER CARIBBEAN AND GULF OF MEXICO MARINE BONY SHOREFISHES by Christi Linardich B.A. December 2006, Florida Gulf Coast University A Thesis Submitted to the Faculty of Old Dominion University in Partial Fulfillment of the Requirements for the Degree of MASTER OF SCIENCE BIOLOGY OLD DOMINION UNIVERSITY August 2016 Approved by: Kent E. Carpenter (Advisor) Beth Polidoro (Member) Holly Gaff (Member) ABSTRACT HOTSPOTS, EXTINCTION RISK AND CONSERVATION PRIORITIES OF GREATER CARIBBEAN AND GULF OF MEXICO MARINE BONY SHOREFISHES Christi Linardich Old Dominion University, 2016 Advisor: Dr. Kent E. Carpenter Understanding the status of species is important for allocation of resources to redress biodiversity loss. -
What Is Coral Bleaching
Mote Marine Laboratory / Florida Keys National Marine Sanctuary Florida Keys BleachWatch Program CORAL BLEACHING FACT SHEET A single coral colony is made up of numerous individual coral polyps (see photo right). Corals depend on unicellular algae known as zooxanthellae located inside their tissue to provide them with carbohydrates and oxygen through photosynthesis. The zooxanthellae are usually golden brown in color and are found at various densities in individual species of corals. Some corals have additional pigments in their tissues which when combined with the zooxanthellae gives the normal “healthy” coloration of the coral. Stressed corals may lose or expel zooxanthellae. The Photo: MML transparent tissue remains with the underlying white skeleton Healthy Porites astreoides polyp showing giving the coral a bleached white appearance. This process is zooxanthellae. called coral bleaching. What Causes Coral Bleaching? Bleaching is a stress response that results when the coral-algae relationship Healthy Bleached breaks down. Coral bleaching can be caused by a wide range of environmental stressors such as pollution, oil spills, increased sedimentation, extremes in sea temperatures, Photo: MML extremes in salinity, low oxygen, disease, and Comparison of healthy (left) and paling (middle) and bleached (right) brain coral Colpophyllia natans. predation. The corals are still alive after bleaching and do not necessarily always die. If the environmental conditions return to normal rather quickly, the corals can regain or regrow their zooxanthellae and survive. If the stressors are prolonged, the corals are more susceptible to disease, predation, and death because they are without an important energy source. Past, Present …FUTURE? Localized or colony specific bleaching has been recorded for over 100 years but only in the last 20 years have we seen mass bleaching events. -
Rare Parthenogenic Reproduction in a Common Reef Coral, Porites Astreoides Alicia A
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by NSU Works Nova Southeastern University NSUWorks HCNSO Student Theses and Dissertations HCNSO Student Work 1-26-2018 Rare Parthenogenic Reproduction in a Common Reef Coral, Porites astreoides Alicia A. Vollmer [email protected] Follow this and additional works at: https://nsuworks.nova.edu/occ_stuetd Part of the Marine Biology Commons, and the Oceanography and Atmospheric Sciences and Meteorology Commons Share Feedback About This Item NSUWorks Citation Alicia A. Vollmer. 2018. Rare Parthenogenic Reproduction in a Common Reef Coral, Porites astreoides. Master's thesis. Nova Southeastern University. Retrieved from NSUWorks, . (464) https://nsuworks.nova.edu/occ_stuetd/464. This Thesis is brought to you by the HCNSO Student Work at NSUWorks. It has been accepted for inclusion in HCNSO Student Theses and Dissertations by an authorized administrator of NSUWorks. For more information, please contact [email protected]. Thesis of Alicia A. Vollmer Submitted in Partial Fulfillment of the Requirements for the Degree of Master of Science M.S. Marine Biology M.S. Coastal Zone Management Nova Southeastern University Halmos College of Natural Sciences and Oceanography January 2018 Approved: Thesis Committee Major Professor: Nicole Fogarty Committee Member: Joana Figueiredo Committee Member: Xaymara Serrano This thesis is available at NSUWorks: https://nsuworks.nova.edu/occ_stuetd/464 HALMOS COLLEGE OF NATURAL SCIENCES AND OCEANOGRAPHY RARE PARTHENOGENIC REPRODUCTION IN A COMMON REEF CORAL, PORITES ASTREOIDES By Alicia A. Vollmer Submitted to the Faculty of Halmos College of Natural Sciences and Oceanography in partial fulfillment of the requirements for the degree of Master of Science with a specialty in: Marine Biology and Coastal Zone Management Nova Southeastern University January 26, 2018 Thesis of Alicia A. -
Curaçao Knowledge Indirect Relationship Descriptions of the Co
STUDIES ON THE FAUNA OF CURACAO AND OTHER CARIBBEAN ISLANDS: No. 147. On the occurrence of fishes in relation to corals in Curaçao by W.P. Nagelkerken (Cara'ibisch Marien-Biologisch Instituut, Cura9ao) Knowledge about the direct and indirect relationship between corals and fishes is rather restricted. Reliable of the descriptions co- of corals and short. occurrence fishes are generally fairly In this study the author aimed at giving a preliminary and rather general description of relationships, by comparing the fish fauna occurring in two different types of coral fields in shallow water along the south coast of Curasao. the and dates The station numbers, names of the correspondinglocalities the of sampling are as follows (Fig. 105): no. Millepora-fields no. Acropora palmata-fields 208 Boca Pos Span6 10.IV. 1969 209 Boca Pos Span6 11.IV. 1969 210 Jan Thielbaai 21.V.1969 212 Cornelisbaai 17.VI.1969 211 Piscaderabaai 10.VI. 1969 213 Playa Kalki 11.VII.1969 214 Playa Kalki 14.VII.1969 216 BocaHulu 23.VII.1969 215 BocaHulu 17.VII.1969 217 Boca Pos Span6 18.IX.1969 220 Boca Santa Marta 25.IX.1969 219 Boca Santa Marta 22.IX.1969 222 Fuikbaai 27. X. 1969 221 Slangenbaai 21.X.1969 223 Portomaribaai 4.XI.1969 227 Fuikbaai 14.IV. 1970 224 SE of Playa Hundu 5.XII.1969 Acknowledgementsare made to dr. INGVAR KRISTENSEN, Director of the Carmabi work carried (Caribbean Marine Biological Institute, Cura?ao) at the time the was out, and to dr. F. CREUTZBERG, the former director; prof. dr. L. -
Concentración Y Tiempo Máximo De Exposición De Juveniles De Pargo
State of research of the Osteichthyes fish related to coral reefs in the Honduran Caribbean with catalogued records Estado del conocimiento de los peces osteíctios asociados a los arrecifes de coral en el Caribe de Honduras, con registros catalogados Anarda Isabel Salgado Ordoñez1, Julio Enrique Mérida Colindres1* & Gustavo Adolfo Cruz1 ABSTRACT Research on Honduran coral reef fish has been isolated and scattered. A list of fish species related to coral reefs was consolidated to establish a compiled database with updated taxonomy. The study was conducted between October 2017 and December 2018. Using primary and secondary sources, all potential species in the Western Atlantic were considered, and their actual presence was confirmed using catalogued records published in peer-reviewed journals that included Honduras. In addition, the specimens kept in the Museum of Natural History of Universidad Nacional Autónoma de Honduras were added. Once the list was consolidated, the taxonomic status of each species was updated based on recent literature. A total of 159 species and 76 genera were registered in 32 families. The family with the most species was Labrisomidae with 27 species (17%). Five families had more than five 5 genera registered, while four 4 were represented by more than 16 species, which is equivalent to 42% genera and 51% species. Gobiidae was represented by 10 genera (13%) and 21 species (13%), of which two 2 were endemic: Tigrigobius rubrigenis and Elacatinus lobeli. In turn, Grammatidae was represented by one endemic species Lipogramma idabeli (1.8%). The species Diodon holocanthus and Sphoeroides testudineus represent the first catalogued records for Honduras. -
Differential Regeneration of Artificial Lesions Among Sympatric Morphs of the Caribbean Corals Porites Astreoides and Stephanocoenia Michelinii
MARINE ECOLOGY PROGRESS SERIES Vol. 163: 279-283.1998 Published March 12 Mar Ecol Prog Ser ' NOTE Differential regeneration of artificial lesions among sympatric morphs of the Caribbean corals Porites astreoides and Stephanocoenia michelinii 'Institute for Systematics and Population Biology, University of Amsterdam, Mauritskade 61, PO Box 94766,1090 GT Amsterdam, The Netherlands 'Carmabi Foundation. PO Box 2090, Piscaderabaai zln. Curaqao, Netherlands Antilles 3Netherlands Institute for Sea Research. PO Box 59, 1790 AB Den Burg.Texe1, The Netherlands ABSTRACT: Regeneration of artificial lesions was studied as tion, external and internal morphology, behavior, ecol- an ecophysiological character in 2 morphs of Porites astre- ogy (e.g. non-scleractinian associates, distribution), oides and Stephanocoenia michelinii to contribute to a better and physiology (environmental tolerance limits), to understanding of their presently unclear taxonomic status. As a reference, regeneration was also studied In 3 species1 distinguish closely related species when skeletal fea- morphs of h4adracis. P. astreoides consists of a green and a tures fail to reveal differences. A multi-character brown morph, while S. michelinii consists of an encrusting approach is even more favored, because when a con- morph with widely spaced corallites and a massive morph sistent pattern is found in several characters, debate with compacted polyps. Regeneration was significantly faster in the green P. astreoides and in the encrusting S. michelinii. over the adequacy of a particular characteristic as a No sigmficant differences were found among the Madracis taxonomic tool becomes less important (Wed&Knowl- species/morphs. The energy required for faster regeneration ton 1994). This approach is now being used more often in the 2 morphs was apparently not generated as a result of than before, and is frequently based on a combination elevated densities of zooxanthellae or chlorophyll a. -
Photographic Identification Guide to Some Common Marine Invertebrates of Bocas Del Toro, Panama
Caribbean Journal of Science, Vol. 41, No. 3, 638-707, 2005 Copyright 2005 College of Arts and Sciences University of Puerto Rico, Mayagu¨ez Photographic Identification Guide to Some Common Marine Invertebrates of Bocas Del Toro, Panama R. COLLIN1,M.C.DÍAZ2,3,J.NORENBURG3,R.M.ROCHA4,J.A.SÁNCHEZ5,A.SCHULZE6, M. SCHWARTZ3, AND A. VALDÉS7 1Smithsonian Tropical Research Institute, Apartado Postal 0843-03092, Balboa, Ancon, Republic of Panama. 2Museo Marino de Margarita, Boulevard El Paseo, Boca del Rio, Peninsula de Macanao, Nueva Esparta, Venezuela. 3Smithsonian Institution, National Museum of Natural History, Invertebrate Zoology, Washington, DC 20560-0163, USA. 4Universidade Federal do Paraná, Departamento de Zoologia, CP 19020, 81.531-980, Curitiba, Paraná, Brazil. 5Departamento de Ciencias Biológicas, Universidad de los Andes, Carrera 1E No 18A – 10, Bogotá, Colombia. 6Smithsonian Marine Station, 701 Seaway Drive, Fort Pierce, FL 34949, USA. 7Natural History Museum of Los Angeles County, 900 Exposition Boulevard, Los Angeles, California 90007, USA. This identification guide is the result of intensive sampling of shallow-water habitats in Bocas del Toro during 2003 and 2004. The guide is designed to aid in identification of a selection of common macroscopic marine invertebrates in the field and includes 95 species of sponges, 43 corals, 35 gorgonians, 16 nem- erteans, 12 sipunculeans, 19 opisthobranchs, 23 echinoderms, and 32 tunicates. Species are included here on the basis on local abundance and the availability of adequate photographs. Taxonomic coverage of some groups such as tunicates and sponges is greater than 70% of species reported from the area, while coverage for some other groups is significantly less and many microscopic phyla are not included. -
Protected Species Order 2015
Protected Species Order 2015 August 2015 GOVERNMENT OF BERMUDA MINISTRY OF HEALTH, SENIORS AND ENVIRONMENT Department of Conservation Services Protected Species Order 2015 – Protected Species Act 2003 2015 Bermuda and the surrounding reef platform, 1998 Bermuda and the surrounding reef platform, 1998 Protected Species Order 2015 – Protected Species Act 2003 Table of Contents 1.0. Introduction ................................................................................................................................................................................................ 1 Purpose of legislation ...................................................................................................................................................................................... 2 Goal ................................................................................................................................................................................................................. 2 Objectives ........................................................................................................................................................................................................ 2 How species are nominated ............................................................................................................................................................................. 2 Levels of protection for protected species ...................................................................................................................................................... -
Coral Recovery on Phase-Shifted Reefs Depend Upon the Type of Macroalgae Present
Nova Southeastern University NSUWorks HCNSO Student Theses and Dissertations HCNSO Student Work 12-7-2016 Coral recovery on phase-shifted reefs depend upon the type of macroalgae present Justin N. Voss Nova Southeastern University Follow this and additional works at: https://nsuworks.nova.edu/occ_stuetd Part of the Marine Biology Commons, and the Oceanography and Atmospheric Sciences and Meteorology Commons Share Feedback About This Item NSUWorks Citation Justin N. Voss. 2016. Coral recovery on phase-shifted reefs depend upon the type of macroalgae present. Master's thesis. Nova Southeastern University. Retrieved from NSUWorks, . (435) https://nsuworks.nova.edu/occ_stuetd/435. This Thesis is brought to you by the HCNSO Student Work at NSUWorks. It has been accepted for inclusion in HCNSO Student Theses and Dissertations by an authorized administrator of NSUWorks. For more information, please contact [email protected]. HALMOS COLLEGE OF NATURAL SCIENCES AND OCEANOGRAPHY Coral recovery on phase-shifted reefs depend upon the type of macroalgae present By Justin Nicholas Voss Submitted to the Faculty of Halmos College of Natural Sciences and Oceanography in partial fulfillment of the requirements for the degree of Master of Science with a specialty in: Marine Biology and Coastal Zone Management Nova Southeastern University December 2016 Acknowledgements I would like to thank my thesis advisor, Dr. Nicole Fogarty, for being an amazing educator and mentor during my graduate career. Under her guidance, I was successful in making a valuable contribution to the scientific literature that would not have come to fruition without her immense talent and skill. Dr. Fogarty’s vast knowledge and experience provided the tools to effectively manage issues and difficulties involved with larvae experiments.