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Published September 23, 2019 | Version v1
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Advances on the phylogenetic placement of the enigmatic octocoral Dendrobrachia Brook 1889

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Aurelle, Didier, Pante, Eric, Ledoux, Jean-Baptiste, Sartoretto, Stéphane (2019): Advances on the phylogenetic placement of the enigmatic octocoral Dendrobrachia Brook 1889. Zootaxa 4674 (1): 117-126, DOI: http://doi.org/10.5281/zenodo.3465777

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urn:lsid:zoobank.org:pub:146B6C0A-275E-4920-AF67-2E843D35CC26
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urn:lsid:plazi.org:pub:D11A013E210FFFD8FFCBA07AFF85FF87
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http://publication.plazi.org/id/D11A013E210FFFD8FFCBA07AFF85FF87

References

  • Aurelle, D., Ledoux, J.B., Rocher C., Borsa, P., Chenuil, A. & Feral, J.-P. (2011) Phylogeography of the red coral (Corallium rubrum): inferences on the evolutionary history of a temperate gorgonian. Genetica, 139, 855-869. [Epub 2011 Jul 8] https://doi.org/10.1007/s10709-011-9589-6
  • Bayer, F.M. (1955) Contributions to the nomenclature, systematics, and morphology of the Octocorallia. Proceedings of the United States National Museum, 105 (3357), 207-220. https://doi.org/10.5479/si.00963801.105-3357.207
  • Bayer, F.M. (1964) The genus Corallium (Gorgonacea: Scleraxonia) in the western North Atlantic Ocean. Bulletin of Marine Science, 14 (3), 465-478.
  • Bayer, F.M. (1996) Three new species of precious coral (Anthozoa: Gorgonacea, genus Corallium) from Pacific waters. Proceedings of the Biological Society of Washington, 109, 205-22
  • Bayer, F.M. & Muzik, K.M. (1976) New genera and species of the holaxonian family Chrysogorgiidae (Octocorallia: Gorgonacea). Zoologische Me dedelingen, 50 (5), 65-90.
  • Benayahu, Y., McFadden, C.S. & Shoham, E. (2017) Search for mesophotic octocorals (Cnidaria, Anthozoa) and their phylogeny: I. A new sclerite-free genus from Eilat, northern Red Sea. ZooKeys, (680), 1. https://doi.org/10.3897/zookeys.680.12727
  • Berntson, E., Bayer, F., McArthur, A. & France, S.C. (2001) Phylogenetic relationships within the Octocorallia (Cnidaria: Anthozoa) based on nuclear 18S rRNA sequences. Marine Biology, 138, 235-246. https://doi.org/10.1007/s002270000457
  • Berntson, E.A., France, S.C. & Mullineaux, L.S. (1999) Phylogenetic relationships within the class Anthozoa (phylum Cnidaria) based on nuclear 18S rDNA sequences. Molecular Phylogenetics and Evolution, 13, 417-433. https://doi.org/10.1006/mpev.1999.0649
  • Bilewitch, J.P. & Degnan, S.M. (2011) A unique horizontal gene transfer event has provided the octocoral mitochondrial genome with an active mismatch repair gene that has potential for an unusual self-contained function. BMC Evolutionary Biology, 11, 228. https://doi.org/10.1186/1471-2148-11-228
  • de Blainville, H.M.D. (1830) Zoophytes. In Dictionnaire des Sciences naturelles, dans lequel on traite methodiquement des differents etres de la nature, 60, 1-546. [Le Normant]
  • Brook, G. (1889) Report on the Antipatharia collected by HMS Challenger during the years 1873-1876. Report on the Scientific Results of the voyage of the HMS "Challenger 1873-76. London, Edinburgh, Dublin. Zoology, 32, 1-222.
  • Calderon, I., Garrabou, J. & Aurelle, D. (2006) Evaluation of the utility of COI and ITS markers as tools for population genetic studies of temperate gorgonians. Journal of Experimental Marine Biology and Ecology, 336, 184-197. https://doi.org/10.1016/j.jembe.2006.05.006
  • Castresana, J. (2000) Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Molecular biology and evolution, 17, 540-552. https://doi.org/10.1093/oxfordjournals.molbev.a026334
  • Chernomor, O., von Haeseler, A. & Minh, B.Q. (2016) Terrace aware data structure for phylogenomic inference from supermatrices. Systematic Biology, 65, 997-1008. https://doi.org/10.1093/sysbio/syw037
  • Cuvier, G. (1798) Tableau elementaire de l'histoire naturelle des animaux. Baudoin, Paris, xvi pp. https://doi.org/10.5962/bhl.title.45918
  • Daly, M., Brugler, M.R., Cartwright, P., Collins, A.G., Dawson, M.N., Fautin, D.G., France, S.C., McFadden, C.S., Opresko, D., Rodriguez, E., Romano, J.C. & Stake, J.L. (2007) The phylum Cnidaria: a review of phylogenetic patterns and diversity 300 years after Linnaeus. Zootaxa, 1668, 127-182.
  • Dereeper, A., Guignon, V., Blanc, G., Audic, S., Buffet, S., Chevenet, F., Dufayard, J.F., Guindon, S., Lefort, V., Lescot, M., Claverie, J.M. & Gascuel, O. (2008) Phylogeny.fr: robust phylogenetic analysis for the non-specialist. Nucleic Acids Research, 1, 36 (Web Server issue), W465-9. [Epub 19 April 2008] https://doi.org/10.1093/nar/gkn180
  • Duchassaing, P. & Michelotti, J. (1864) Supplement au memoire sur les coralliaires des Antilles. Memoires de l'Academie des Sciences de Turin, Series 2, 23, 97-206. https://doi.org/10.5962/bhl.title.105196
  • Edgar, R.C. (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Research, 32, 1792-1797. https://doi.org/10.1093/nar/gkh340
  • Esper, E.J.C. (1788) Die Pflanzenthiere in Abbildungen nach der Natur mit Farben erleuchtet nebst Beschreibungen. Vol. 2. In der Kaspeschen Buchhandlung, 303 pp.
  • Fabricius, K.K. & Alderslade, P.P. (2001) Soft corals and sea fans: a comprehensive guide to the tropical shallow water genera of the central-west Pacific, the Indian Ocean and the Red Sea. Australian Institute of Marine Science, Townsville, 264 pp.
  • Gray, D.J.E. (1857) Synopsis of the families and genera of axiferous zoophytes or barked corals. Proceedings of the Zoological Society of London, 25 (1), 278-294. https://doi.org/10.1111/j.1096-3642.1857.tb01242.x
  • Gray, J.E. (1870) Catalogue of Lithophytes Or Stony Corals in the Collection of the British Museum. Printed by order of the Trustees, London, 50 pp. https://doi.org/10.5962/bhl.title.11307
  • Herrera, S. & Shank, T.M. (2016) RAD sequencing enables unprecedented phylogenetic resolution and objective species delimitation in recalcitrant divergent taxa. Molecular Phylogenetics and Evolution, 100, 70-79. https://doi.org/10.1016/j.ympev.2016.03.010
  • Hickson, S.J. (1904) The Alcyonaria of the Cape of Good Hope. Part II, Marine Investigations in South Africa, 3, 211-239.
  • Huelsenbeck, J. & Ronquist, F. (2001) MrBayes: Bayesian inference of phylogeny. Bioinformatics, 17, 754-755. https://doi.org/10.1093/bioinformatics/17.8.754
  • Kalyaanamoorthy, S., Minh, B.Q., Wong, T.K.F., von Haeseler, A. & Jermiin, L.S. (2017) ModelFinder: fast model selection for accurate phylogenetic estimates. Nature Methods, 14, 587-589. https://doi.org/10.1038/nmeth.4285
  • Kolliker, A.V. (1865) Von der erharteten Bindesubstanz oder den Skelettbildungen der Coelenteraten. Icones histiologicae, oder Atlas der vergleichenden Gewebelehre, 1865, 117-171. https://doi.org/10.5962/bhl.title.82233
  • de Lacaze-Duthiers, H. (1897) Faune du golfe du Lion: coralliaires, zoanthaires, sclerodermes Coralliaires. Zoanthaires Sclerodermas. Archives de Zoologie Experimentale et Generale, 1897, 3.
  • Lamarck, J.D. (1816) Histoire naturelle des Animaux sans Vertebres precedee d'une introduction offrant la determination des caracteres essentiels de l'animal, sa distinction du vegetal et des autres corps naturels, enfin, exposition des principes fondamentaux de la zoologie. Verdiere, Libraire, Quai des Augustins, Paris, 270 pp. https://doi.org/10.5962/bhl.title.5086
  • Lamouroux, J.V.F. (1812) Extrait d'un memoire sur la classification des polypiers coralligenes non entierement pierreux. Nouveaux Bulletin des Sciences, par la Societ Philomathique de Paris, 3, 181-188
  • Lanfear, R., Calcott, B., Ho, S.Y. & Guindon, S. (2012) PartitionFinder: combined selection of partitioning schemes and substitution models for phylogenetic analyses. Molecular Biology and Evolution, 29, 1695-1701. https://doi.org/10.1093/molbev/mss020
  • Ledoux, J.-B. & Antunes, A. (2018) Beyond the beaten path: improving natural products bioprospecting using an eco-evolutionary framework-the case of the octocorals. Critical Review in Biotechnology, 38,184-198. https://doi.org/10.1080/07388551.2017.1331335
  • Lopez-Gonzalez, P.J. & Cunha, M.R. (2010) Two new species of Dendrobrachia Brook, 1889 (Cnidaria: Octocorallia: Dendrobrachiidae) from the north-eastern Atlantic and western Mediterranean. Scientia Marina, 74, 423-434. https://doi.org/10.3989/scimar.2010.74n3423
  • McFadden, C.S., France, S.C., Sanchez, J.A. & Alderslade, P. (2006) A molecular phylogenetic analysis of the Octocorallia (Cnidaria: Anthozoa) based on mitochondrial protein-coding sequences. Molecular Phylogenetics and Evolution, 41, 513-527. https://doi.org/10.1016/j.ympev.2006.06.010
  • McFadden, C.S. & van Ofwegen, L.P. (2012). Stoloniferous octocorals (Anthozoa, Octocorallia) from South Africa, with descriptions of a new family of Alcyonacea, a new genus of Clavulariidae, and a new species of Cornularia (Cornulariidae). Invertebrate Systematics, 26 (4), 331-356. https://doi.org/10.1071/IS12035
  • McFadden, C.S. & Van Ofwegen, L.P. (2013) Molecular phylogenetic evidence supports a new family of octocorals and a new genus of Alcyoniidae (Octocorallia, Alcyonacea). ZooKeys, 346, 59-83. https://doi.org/10.3897/zookeys.346.6270
  • Milne-Edwards, H. (1857) Histoire naturelle des coralliaires ou polypes proprement dits, vol. 1, 2: Paris. Librairie Encyclopedique de Roret, VIII (1), 326. https://doi.org/10.5962/bhl.title.11396
  • Nguyen L.-T., Schmidt, H.A., von Haeseler, A. & Minh, B.Q. (2014) IQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies. Molecular Biology and Evolution, 32, 268-274. https://doi.org/10.1093/molbev/msu300
  • Okonechnikov, K., Golosova, O., Fursov, M. & Ugene Team (2012) Unipro UGENE: a unified bioinformatics toolkit. Bioinformatics, 28 (8), 1166-1167. https://doi.org/10.1093/bioinformatics/bts091
  • Opresko, D.M. & Bayer, F.M. (1991) Rediscovery of the enigmatic coelenterate Dendrobrachia (Octocorallia: Gorgonacea) with description of two new species. Transaction of the Royal Society of Sciences Australia, 115, 1-19.
  • Pallas, P.S. (1766) Elenchus zoophytorum sistens generum adumbrations generaliores et specierum cognitarum succintas descriptiones, cumselectis auctorum. Apud Petrum van Cleef Hagae-Comitum, 1766, 1-451. https://doi.org/10.5962/bhl.title.6595
  • Pante, E., France, S.C., Couloux, A., Cruaud, C., McFadden, C.S., Samadi, S. & Watling, L. (2012) Deep-Sea Origin and In-Situ Diversification of Chrysogorgiid Octocorals. PLoS ONE, 7 (6), e38357. https://doi.org/10.1371/journal.pone.0038357
  • Pante, E., Abdelkrim, J., Viricel, A., Gey, D., France, S.C., Boisselier, M.C. & Samadi, S. (2015) Use of RAD sequencing for delimiting species. Heredity, 114, 450-459. https://doi.org/10.1038/hdy.2014.105
  • Pont-Kingdon, G., Okada, N.A., Macfarlane, J.L., Beagley, C.T., Watkins-Sims, L.D., Cavalier-Smith, T., Clark-Walker, G.D. & Wolstenholme, D.R. (1998) Mitochondrial DNA of the coral Sarcophyton glaucum contains a gene for a homologue of bacterial MutS: a possible case of gene transfer from the nucleus to the mitochondrion. Journal of Molecular Evolution, 46, 419-431. https://doi.org/10.1007/PL00006321
  • Quattrini, A.M., Faircloth, B.C., Duenas, L.F., Bridge, T.C.L., Brugler, M.R., Calixto-Botia, I.F., DeLeo, D.M., Foret, S., Herrera, S., Lee, S.M.Y., Miller, D.J., Prada, C., Radis-Baptista, G., Ramirez-Portilla, C., Sanchez, J.A., Rodriguez, E. & McFadden, C.S. (2018) Universal target-enrichment baits for anthozoan (Cnidaria) phylogenomics: New approaches to long-standing problems. Molecular Ecology Resources, 18 (2), 281-295. https://doi.org/10.1111/1755-0998.12736
  • Rambaut, A. (2012) FigTree. Version 1.4. Available from: http://tree.bio.ed.ac.uk/software/figtree/ (accessed 20 June 2019)
  • Ronquist, F. & Huelsenbeck, J.P. (2003) MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics, 19, 1572-1574. https://doi.org/10.1093/bioinformatics/btg180
  • Sanchez, J., McFadden, C., France, S.C. & Lasker, H. (2003) Molecular phylogenetic analyses of shallow-water Caribbean octocorals. Marine Biology, 142, 975-987. https://doi.org/10.1007/s00227-003-1018-7
  • Sartoretto, S. (2012) New records of Dendrobrachia bonsai (Octocorallia: Gorgonacea: Dendrobrachiidae) in the western Mediterranean Sea. Marine Biodiversity Records, 5 (e7), 1-4. https://doi.org/10.1017/S175526721100114X
  • Strychar, K.B., Hamilton, L.C., Kenchington, E.L. & Scott, D.B. (2005) Genetic circumscription of deep-water coral species in Canada using 18S rRNA. In: Freiwald, A.R. & Roberts, J.M. (Eds.), Cold-water corals and ecosystems. Springer publisher, Berlin Heidelberg, pp. 679-690. https://doi.org/10.1007/3-540-27673-4_34
  • Thomson, J.A. (1910) Note On Dendrobrachia fallax Brook, A Rare And Remarkable Antipatharian. Journal of Microscopy, 30, 142-143. https://doi.org/10.1111/j.1365-2818.1910.tb01708.x
  • Tu, T.H., Dai, C.F. & Jeng, M.S. (2015) Phylogeny and systematics of deep-sea precious corals (Anthozoa: Octocorallia: Coralliidae). Molecular Phylogenetics and Evolution, 84, 173-184. https://doi.org/10.1016/j.ympev.2014.09.031
  • van Beneden, E. (1897) Les Anthozoaires de la "Plankton-Expedition,. Resultats de la "Plankton-Expedition" der Humboldt- Stiftung, 2, 1-222. https://doi.org/10.1080/00222930903359669
  • van Ofwegen, L.P. & McFadden, C.S. (2009) A new family of octocorals (Anthozoa: Octocorallia) from Cameroon waters. Journal of Natural History, 44 (1-2), 23-29. https://doi.org/10.3897/zookeys.462.8533
  • van Ofwegen, L.P., Aurelle, D. & Sartoretto, S. (2014) A new genus of soft coral (Cnidaria, Octocorallia) from the Republic of Congo (Pointe-Noire Region). ZooKeys, 469, 1-10.
  • Verrill, A.E. (1883) Report on the Anthozoa, and on some additional species dredged by the "Blake" in 1877- 1879, and by the U. S. Fish Commission Steamer "Fish Hawk" in 1880-82. Bulletin of the Museum of Comparative Zoology Harvard, 11, 1-72.
  • Verrill, A.E. (1869) Critical remarks on the halcyonoid polyps with descriptions of new species in the museum of Yale College 4. American Journal of Science and Arts, 2 (48), 419-429. https://doi.org/10.2475/ajs.s2-48.143.244
  • Vollmer, S.V. & Palumbi, S.R. (2004) Testing the utility of internally transcribed spacer sequences in coral phylogenetics. Molecular Ecology, 13, 2763-2772. https://doi.org/10.1111/j.1365-294X.2004.02265.x
  • Watling, L., France, S.C., Pante, E. & Simpson, A. (2011) Biology of Deep-Water Octocorals. Advances in Marine Biology, 60, 41-122. https://doi.org/10.1016/B978-0-12-385529-9.00002-0