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The Coral Trait Database, a Curated Database of Trait Information for Coral Species from the Global Oceans
www.nature.com/scientificdata OPEN The Coral Trait Database, a curated SUBJECT CATEGORIES » Community ecology database of trait information for » Marine biology » Biodiversity coral species from the global oceans » Biogeography 1 2 3 2 4 Joshua S. Madin , Kristen D. Anderson , Magnus Heide Andreasen , Tom C.L. Bridge , , » Coral reefs 5 2 6 7 1 1 Stephen D. Cairns , Sean R. Connolly , , Emily S. Darling , Marcela Diaz , Daniel S. Falster , 8 8 2 6 9 3 Erik C. Franklin , Ruth D. Gates , Mia O. Hoogenboom , , Danwei Huang , Sally A. Keith , 1 2 2 4 10 Matthew A. Kosnik , Chao-Yang Kuo , Janice M. Lough , , Catherine E. Lovelock , 1 1 1 11 12 13 Osmar Luiz , Julieta Martinelli , Toni Mizerek , John M. Pandolfi , Xavier Pochon , , 2 8 2 14 Morgan S. Pratchett , Hollie M. Putnam , T. Edward Roberts , Michael Stat , 15 16 2 Carden C. Wallace , Elizabeth Widman & Andrew H. Baird Received: 06 October 2015 28 2016 Accepted: January Trait-based approaches advance ecological and evolutionary research because traits provide a strong link to Published: 29 March 2016 an organism’s function and fitness. Trait-based research might lead to a deeper understanding of the functions of, and services provided by, ecosystems, thereby improving management, which is vital in the current era of rapid environmental change. Coral reef scientists have long collected trait data for corals; however, these are difficult to access and often under-utilized in addressing large-scale questions. We present the Coral Trait Database initiative that aims to bring together physiological, morphological, ecological, phylogenetic and biogeographic trait information into a single repository. -
Guide to Some Harvested Aquarium Corals Version 1.3
Guide to some harvested aquarium corals Version 1.3 ( )1 Large septal Guide to some harvested aquarium teeth corals Version 1.3 Septa Authors Morgan Pratchett & Russell Kelley, May 2020 ARC Centre of Excellence for Coral Reef Studies Septa James Cook University Townsville, Queensland 4811 Australia Contents • Overview in life… p3 • Overview of skeletons… p4 • Cynarina lacrymalis p5 • Acanthophyllia deshayesiana p6 • Homophyllia australis p7 • Micromussa pacifica p8 • Unidentified Lobophylliid p9 • Lobophyllia vitiensis p10 • Catalaphyllia jardinei p11 • Trachyphyllia geoffroyi p12 Mouth • Heterocyathus aequicostatus & Heteropsammia cochlea p13 Small • Cycloseris spp. p14 septal • Diaseris spp. p15 teeth • Truncatoflabellum sp. p16 Oral disk Meandering valley Bibliography p17 Acknowledgements FRDC (Project 2014-029) Image support: Russell Kelley, Cairns Marine, Ultra Coral, JEN Veron, Jake Adams, Roberto Arrigioni ( )2 Small septal teeth Guide to some commonly harvested aquarium corals - Version 1.3 Overview in life… SOLID DISKS WITH FLESHY POLYPS AND PROMINENT SEPTAL TEETH Cynarina p5 Acanthophyllia p6 Homophyllia p7 Micromussa p8 Unidentified Lobophylliid p9 5cm disc, 1-2cm deep, large, thick, white 5-10cm disc at top of 10cm curved horn. Tissue 5cm disc, 1-2cm deep. Cycles of septa strongly <5cm disc, 1-2cm deep. Cycles of septa slightly septal teeth usually visible through tissue. In unequal. Large, tall teeth at inner marigns of primary unequal. Teeth of primary septa less large / tall at conceals septa. In Australia usually brown with inner margins. Australia usually translucent green or red. blue / green trim. septa. In Australia traded specimens are typically variegated green / red / orange. 2-3cm disc, 1-2cm deep. Undescribed species traded as Homophyllia australis in West Australia and Northern Territory but now recognised as distinct on genetic and morphological grounds. -
Taxonomy and Phylogenetic Relationships of the Coral Genera Australomussa and Parascolymia (Scleractinia, Lobophylliidae)
Contributions to Zoology, 83 (3) 195-215 (2014) Taxonomy and phylogenetic relationships of the coral genera Australomussa and Parascolymia (Scleractinia, Lobophylliidae) Roberto Arrigoni1, 7, Zoe T. Richards2, Chaolun Allen Chen3, 4, Andrew H. Baird5, Francesca Benzoni1, 6 1 Dept. of Biotechnology and Biosciences, University of Milano-Bicocca, 20126, Milan, Italy 2 Aquatic Zoology, Western Australian Museum, 49 Kew Street, Welshpool, WA 6106, Australia 3Biodiversity Research Centre, Academia Sinica, Nangang, Taipei 115, Taiwan 4 Institute of Oceanography, National Taiwan University, Taipei 106, Taiwan 5 ARC Centre of Excellence for Coral Reef Studies, James Cook University, Townsville, QLD 4811, Australia 6 Institut de Recherche pour le Développement, UMR227 Coreus2, 101 Promenade Roger Laroque, BP A5, 98848 Noumea Cedex, New Caledonia 7 E-mail: [email protected] Key words: COI, evolution, histone H3, Lobophyllia, Pacific Ocean, rDNA, Symphyllia, systematics, taxonomic revision Abstract Molecular phylogeny of P. rowleyensis and P. vitiensis . 209 Utility of the examined molecular markers ....................... 209 Novel micromorphological characters in combination with mo- Acknowledgements ...................................................................... 210 lecular studies have led to an extensive revision of the taxonomy References ...................................................................................... 210 and systematics of scleractinian corals. In the present work, we Appendix ....................................................................................... -
APPENDIX 1: Oligocene-Miocene Scleractinians from Malaysian Borneo and the Philippines – Speciment List
Oligocene-Miocene scleractinians from the Central Indo-Pacific: Malaysian Borneo and the Philippines Morana Mihaljević APPENDIX 1: Oligocene-Miocene scleractinians from Malaysian Borneo and the Philippines – speciment list. QMF# Family Genus Species Area Formation/Limestone Locality Age QMF58030 Acroporidae Acropora Acropora sp. A Argao, Cebu, Philippines Butong Formation BLF1 Chattian QMF58031 Acroporidae Acropora Acropora sp. A Argao, Cebu, Philippines Butong Formation BLF1 Chattian QMF58032 Acroporidae Acropora Acropora sp. A Argao, Cebu, Philippines Butong Formation BLF2 Chattian QMF58033 Acroporidae Acropora Acropora sp. A Argao, Cebu, Philippines Butong Formation BLF2 Chattian QMF58034 Acroporidae Acropora Acropora sp. A Argao, Cebu, Philippines Butong Formation BLF2 Chattian QMF58035 Acroporidae Acropora Acropora sp. A Argao, Cebu, Philippines Butong Formation BLF2 Chattian QMF58036 Acroporidae Acropora Acropora sp. A Argao, Cebu, Philippines Butong Formation BLF2 Chattian QMF58037 Acroporidae Acropora Acropora sp. A Argao, Cebu, Philippines Calagasan Formation CF1 Chattian QMF58200 Acroporidae Acropora Acropora sp. B Argao, Cebu, Philippines Butong Formation BLF2 Chattian QMF58038 Acroporidae Acropora Acropora sp. B Argao, Cebu, Philippines Butong Formation BLF2 Chattian QMF58039 Acroporidae Acropora Acropora sp. B Argao, Cebu, Philippines Butong Formation BLF4 Chattian QMF58040 Acroporidae Acropora Acropora sp. B Argao, Cebu, Philippines Butong Formation BLF4 Chattian QMF58041 Acroporidae Acropora Acropora sp. B Argao, Cebu, Philippines Butong Formation BLF4 Chattian QMF58042 Acroporidae Acropora Acropora sp. B Argao, Cebu, Philippines Calagasan Formation CF1 Chattian QMF58043 Acroporidae Acropora Acropora sp. B Argao, Cebu, Philippines Calagasan Formation CF4 Chattian QMF58044 Acroporidae Acropora Acropora sp. B Argao, Cebu, Philippines Calagasan Formation CF6 Chattian QMF58201 Acroporidae Acropora Acropora sp. B Argao, Cebu, Philippines Calagasan Formation CF6 Chattian QMF58202 Acroporidae Acropora Acropora sp. -
Coral-Associated Bacteria Demonstrate Phylosymbiosis and Cophylogeny
ARTICLE DOI: 10.1038/s41467-018-07275-x OPEN Coral-associated bacteria demonstrate phylosymbiosis and cophylogeny F. Joseph Pollock1, Ryan McMinds 2, Styles Smith1, David G. Bourne3,4, Bette L. Willis3,5, Mónica Medina 1,6, Rebecca Vega Thurber2 & Jesse R. Zaneveld7 Scleractinian corals’ microbial symbionts influence host health, yet how coral microbiomes assembled over evolution is not well understood. We survey bacterial and archaeal 1234567890():,; communities in phylogenetically diverse Australian corals representing more than 425 million years of diversification. We show that coral microbiomes are anatomically compartmenta- lized in both modern microbial ecology and evolutionary assembly. Coral mucus, tissue, and skeleton microbiomes differ in microbial community composition, richness, and response to host vs. environmental drivers. We also find evidence of coral-microbe phylosymbiosis, in which coral microbiome composition and richness reflect coral phylogeny. Surprisingly, the coral skeleton represents the most biodiverse coral microbiome, and also shows the stron- gest evidence of phylosymbiosis. Interactions between bacterial and coral phylogeny sig- nificantly influence the abundance of four groups of bacteria–including Endozoicomonas-like bacteria, which divide into host-generalist and host-specific subclades. Together these results trace microbial symbiosis across anatomy during the evolution of a basal animal lineage. 1 Department of Biology, Pennsylvania State University, 208 Mueller Lab, University Park, State College, PA 16802, USA. 2 Department of Microbiology, Oregon State University, 226 Nash Hall, Corvallis, OR 97331, USA. 3 College of Science and Engineering, James Cook University, Townsville, QLD 4811, Australia. 4 Australian Institute of Marine Science, Townsville, QLD 4810, Australia. 5 ARC Centre of Excellence for Coral Reef Studies, James Cook University, Townsville, QLD 4811, Australia. -
Complete Mitochondrial Genome of Echinophyllia Aspera (Scleractinia
A peer-reviewed open-access journal ZooKeys 793: 1–14 (2018) Complete mitochondrial genome of Echinophyllia aspera... 1 doi: 10.3897/zookeys.793.28977 RESEARCH ARTICLE http://zookeys.pensoft.net Launched to accelerate biodiversity research Complete mitochondrial genome of Echinophyllia aspera (Scleractinia, Lobophylliidae): Mitogenome characterization and phylogenetic positioning Wentao Niu1, Shuangen Yu1, Peng Tian1, Jiaguang Xiao1 1 Laboratory of Marine Biology and Ecology, Third Institute of Oceanography, State Oceanic Administration, Xiamen, China Corresponding author: Wentao Niu ([email protected]) Academic editor: B.W. Hoeksema | Received 9 August 2018 | Accepted 20 September 2018 | Published 29 October 2018 http://zoobank.org/8CAEC589-89C7-4D1D-BD69-1DB2416E2371 Citation: Niu W, Yu S, Tian P, Xiao J (2018) Complete mitochondrial genome of Echinophyllia aspera (Scleractinia, Lobophylliidae): Mitogenome characterization and phylogenetic positioning. ZooKeys 793: 1–14. https://doi. org/10.3897/zookeys.793.28977 Abstract Lack of mitochondrial genome data of Scleractinia is hampering progress across genetic, systematic, phy- logenetic, and evolutionary studies concerning this taxon. Therefore, in this study, the complete mitog- enome sequence of the stony coral Echinophyllia aspera (Ellis & Solander, 1786), has been decoded for the first time by next generation sequencing and genome assembly. The assembled mitogenome is 17,697 bp in length, containing 13 protein coding genes (PCGs), two transfer RNAs and two ribosomal RNAs. It has the same gene content and gene arrangement as in other Scleractinia. All genes are encoded on the same strand. Most of the PCGs use ATG as the start codon except for ND2, which uses ATT as the start codon. The A+T content of the mitochondrial genome is 65.92% (25.35% A, 40.57% T, 20.65% G, and 13.43% for C). -
Notification to the Parties No. 2018/100
CONVENTION ON INTERNATIONAL TRADE IN ENDANGERED SPECIES OF WILD FAUNA AND FLORA NOTIFICATION TO THE PARTIES No. 2018/100 Geneva, 17 December 2018 CONCERNING: Standard nomenclature Standard references to be considered at CoP18 1. In Resolution Conf. 12.11 (Rev. CoP17) on Standard nomenclature, the Conference of the Parties RECOMMENDS, in paragraph 2 i), that: the Secretariat be provided with the citations (and ordering information) of checklists that will be nominated for standard references at least six months before the meeting of the Conference of the Parties at which such checklists will be considered. The Secretariat shall include such information in a Notification to the Parties so that Parties can obtain copies to review if they wish before the meeting. 2. In compliance with this recommendation, the nomenclature specialists for the Animals and Plants Committees have proposed the citations of checklists that will be nominated for taxonomic standard references at the 18th meeting of the Conference of the Parties (CoP18, Colombo, 2019). These are listed below, along with a link to where each reference can be accessed or ordered. FAUNA 3. The proposed standard references for fauna are as follows: Mammalia Kitchener A. C., Breitenmoser-Würsten CH., Eizirik E., Gentry A., Werdelin L., Wilting A., Yamaguchi N., Abramov A. V., Christiansen P., Driscoll C., Duckworth J. W., Johnson W., Luo S.-J., Meijaard E., O’Donoghue P., Sanderson J., Seymour K., Bruford M., Groves C., Hoffmann M., Nowell K., Timmons Z. and Tobe S. (2017). A revised taxonomy of the Felidae. The final report of the Cat Classification Task Force of the IUCN/SSC Cat Specialist Group. -
New Genus and Species Record of Reef Coral Micromussa Amakusensis In
Ng et al. Marine Biodiversity Records (2019) 12:17 https://doi.org/10.1186/s41200-019-0176-3 RESEARCH Open Access New genus and species record of reef coral Micromussa amakusensis in the southern South China Sea Chin Soon Lionel Ng1,2, Sudhanshi Sanjeev Jain1, Nhung Thi Hong Nguyen1, Shu Qin Sam2, Yuichi Preslie Kikuzawa2, Loke Ming Chou1,2 and Danwei Huang1,2* Abstract Background: Recent taxonomic revisions of zooxanthellate scleractinian coral taxa have inevitably resulted in confusion regarding the geographic ranges of even the most well-studied species. For example, the recorded distribution ranges of Stylophora pistillata and Pocillopora damicornis, two of the most intensely researched experimental subjects, have been restricted dramatically due to confounding cryptic species. Micromussa is an Indo-Pacific genus that has been revised recently. The revision incorporated five new members and led to substantial range restriction of its type species and only initial member M. amakusensis to Japan and the Coral Triangle. Here, we report the presence of Micromussa amakusensis in Singapore using phylogenetic methods. Results: A total of seven M. amakusensis colonies were recorded via SCUBA surveys at four coral reef sites south of mainland Singapore, including two artificial seawall sites. Colonies were found encrusting on dead coral skeletons or bare rocky substrate between 2 and 5 m in depth. Morphological examination and phylogenetic analyses support the identity of these colonies as M. amakusensis, but the phylogeny reconstruction also shows that they form relatively distinct branches with unexpected lineage diversity. Conclusions: Our results and verified geographic records of M. amakusensis illustrate that, outside the type locality in Japan, the species can also be found widely in the South China Sea. -
Diversity, Phylogeography, and Taxonomy of Hard-Corals in the Genus Porites from the Arabian Peninsula
Diversity, Phylogeography, and Taxonomy of Hard-Corals in the Genus Porites from the Arabian Peninsula Dissertation by Tullia Isotta Terraneo In partial Fulfillment of the Requirements For the Degree of Doctor of Philosophy King Abdullah University of Science and Technology, Thuwal, Kingdom of Saudi Arabia © December, 2019 Tullia Isotta Terraneo All rights reserved 2 EXAMINATION COMMITTEE PAGE The dissertation of Tullia Isotta Terraneo is approved by the examination committee. Committee Chairperson: Prof. Michael L. Berumen Committee Co-Chair: Prof. Andrew H. Baird Committee Members: Prof. Christian R. Voolstra, Prof. Mark Tester External Examiner: Prof. James D. Reimer 3 ABSTRACT Diversity, Phylogeography and Evolution of Hard-Corals in the genus Porites from the Arabian Peninsula Tullia Isotta Terraneo The genus Porites is one of the most important scleractinian genera in terms of species diversity and panmictic tropical distribution. However, Porites is notorious for challenging taxonomic identification based on colony gross morphology, micromorphology, and single gene analyses, suggesting that the current classification poorly represents real evolutionary relationships. This research integrates skeletal morphology data and single locus genetic evidence with genome-wide analyses and alternative line of evidence to taxonomy (i.e. symbiotic association data), with the aim of clarifying biodiversity, biogeography, and taxonomy of Porites from the Arabian Peninsula. In this dissertation, I evaluated the diversity of Porites in the Red Sea and the Gulf of Aden, providing a basic morpho-molecular background to the taxonomy of Porites in the region, and highlighting that a) the current taxonomic and phylogenetic position of 15 Porites morphological species needs to be reassessed, and that b) coral biodiversity in the Arabian region needs to be re-evaluated. -
Taxonomic Classification of the Reef Coral Family
Zoological Journal of the Linnean Society, 2016, 178, 436–481. With 14 figures Taxonomic classification of the reef coral family Lobophylliidae (Cnidaria: Anthozoa: Scleractinia) DANWEI HUANG1*, ROBERTO ARRIGONI2,3*, FRANCESCA BENZONI3, HIRONOBU FUKAMI4, NANCY KNOWLTON5, NATHAN D. SMITH6, JAROSŁAW STOLARSKI7, LOKE MING CHOU1 and ANN F. BUDD8 1Department of Biological Sciences and Tropical Marine Science Institute, National University of Singapore, Singapore 117543, Singapore 2Red Sea Research Center, Division of Biological and Environmental Science and Engineering, King Abdullah University of Science and Technology, Thuwal 23955-6900, Saudi Arabia 3Department of Biotechnology and Biosciences, University of Milano-Bicocca, Piazza della Scienza 2, 20126 Milan, Italy 4Department of Marine Biology and Environmental Science, University of Miyazaki, Miyazaki 889- 2192, Japan 5Department of Invertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, DC 20013, USA 6The Dinosaur Institute, Natural History Museum of Los Angeles County, 900 Exposition Boulevard, Los Angeles, CA 90007, USA 7Institute of Paleobiology, Polish Academy of Sciences, Twarda 51/55, PL-00-818, Warsaw, Poland 8Department of Earth and Environmental Sciences, University of Iowa, Iowa City, IA 52242, USA Received 14 July 2015; revised 19 December 2015; accepted for publication 31 December 2015 Lobophylliidae is a family-level clade of corals within the ‘robust’ lineage of Scleractinia. It comprises species traditionally classified as Indo-Pacific ‘mussids’, ‘faviids’, and ‘pectiniids’. Following detailed revisions of the closely related families Merulinidae, Mussidae, Montastraeidae, and Diploastraeidae, this monograph focuses on the taxonomy of Lobophylliidae. Specifically, we studied 44 of a total of 54 living lobophylliid species from all 11 genera based on an integrative analysis of colony, corallite, and subcorallite morphology with molecular sequence data. -
6 附录2 中国造礁石珊瑚同物异名对照表appendix 2 Comparison Of
黄林韬, 黄晖, 江雷. 中国造礁石珊瑚分类厘定. 生物多样性, 2020, 28 (4): 515–523. http://www.biodiversity-science.net/CN/10.17520/biods. 2019384 附录2 中国造礁石珊瑚同物异名对照表 Appendix 2 Comparison of synonyms of Chinese hermatypic corals 旧种名 Old species 新种名 New species 文献依据 Basis of 旧物种来源文献 Original description names names record Hoeksema & Cairns, Acanthastrea faviaformis Dipsastraea matthaii Zhao et al, 2017 2020 Acanthastrea hillae Homophyllia bowerbanki Dai & Horng, 2009b Arrigoni et al, 2016 Acanthastrea Micomussa lordhowensis 陈乃观等, 2005 Arrigoni et al, 2016 lordhowensis Hoeksema & Cairns, Acrhelia horrescens Galaxea horrescens 邹仁林, 2001 2020 Acropora aff. Guppyi Acropora humilis Д.В.纳乌莫夫等, 1960 邹仁林, 2001 Acropora affinis Acropora florida 邹仁林等, 1975 Wallace, 1999 Acropora armata Acropora cytherea 于登攀和邹仁林, 1996; 邹仁林, 2001 邹仁林, 2001 Acropora azurea Acropora nana Dai & Horng, 2009a; 潘子良, 2017 Wallace, 1999 Wallace et al, 2007; Dai Acropora brueggemanni Isopora brueggemanni 邹仁林, 2001 & Horng, 2009a Acropora complanata Acropora clathrata Yang & Dai, 1981 Wallace, 1999 邹仁林等, 1975; 于登攀和邹仁林, Wallace, 1999; 邹仁林, Acropora conferta Acropora hyacinthus 1996 2001 Acropora corymbosa Acropora cytherea 邹仁林等, 1975, 2001 Wallace, 1999 Acropora crateriformis Isopora crateriformis 黄晖等, 2011 Wallace et al, 2007 Wallace et al, 2007; Dai Acropora cuneata Isopora cuneata 黄晖等, 2011 & Horng, 2009a Acropora danai Acropora abrotanoides Dai & Horng, 2009a, b Wallace, 1999 Wallace, 1999; 邹仁林, Acropora decipiens Acropora robusta 邹仁林等, 1975 2001 Acropora Acropora selago 邹仁林等, 1975 Wallace, 1999 deliculatadelicatula -
Recent Changes in Scleractinian Coral Nomenclature and Classification
Recent changes in Scleractinian coral nomenclature and classification. (A practical guide for coral and reef ecologists) Michel Pichon Adjunct Professor, James Cook University Australia Honorary Associate, Museum of Tropical Queensland, Townsville The following document provides information on changes which were introduced recently in the classification and nomenclature of scleractinian corals. Such changes stem to a large extent from the research activity and the syntheses carried out by the members of the international “Scleractinian Systematics Working Group” (SSWG) over the last few years. They are the result of a multi-pronged approach combining the information provided by the implementation of relatively new techniques, which have only recently been applied to scleractinian coral taxonomy. Such new tools include, inter alia, morphometrics, microstructural analyses, anatomy of soft parts and molecular genetics. The changes thus made to the nomenclature and classification of scleractinian corals underlie a move towards a classification reflecting more and more the phylogeny of various taxa, and as a result may place side by side morphologically very dissimilar species. Furthermore, such a move will require a re-definition of numerous genera (and of some families, which from a practical viewpoint is less critical) in accordance with the rules set out in the International Code of Zoological Nomenclature. Such a work is still to be done and a number of genera remain to this day without an adequate revised diagnostic morphological characterization. Several important studies are still in progress and one may expect additional changes in the near future. The present document, therefore, does not pretend to represent a complete revision of scleractinian coral taxonomy.