Biodiversity and biogeography of zooxanthellate soft corals across the Indo-Pacific


  • Huang, D., Goldberg, E. E., Chou, L. M. & Roy, K. The origin and evolution of coral species richness in a marine biodiversity hotspot. Evolution 72, 288–302 (2018).

    Article 
    PubMed 

    Google Scholar
     

  • Danovaro, R. Understanding marine biodiversity patterns and drivers: The fall of Icarus. Mar. Ecol. https://doi.org/10.1111/maec.12814 (2024).

    Article 

    Google Scholar
     

  • Worm, B. & Lotze, H. K. Marine biodiversity and climate change. In Climate Change: Observed Impacts on Planet Earth, 3rd ed. (ed Letcher, T. M.) 445–464 (Elsevier, 2021). https://doi.org/10.1016/B978-0-12-821575-3.00021-9.

    Chapter 

    Google Scholar
     

  • Roberts, C. M. et al. Marine biodiversity hotspots and conservation priorities for tropical reefs. Science 295, 1280–1284 (2002).

    Article 
    ADS 
    CAS 
    PubMed 

    Google Scholar
     

  • Selig, E. R. et al. Global priorities for marine biodiversity conservation. PLoS ONE 9, e82898 (2014).

    Article 
    ADS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Rogers, A. D. et al. Critical habitats and biodiversity: Inventory, thresholds and governance. In The Blue Compendium: From Knowledge to Action for a Sustainable Ocean Economy (eds Lubchenco, J. & Haugan, P. M.) 333–391 (Springer, 2020).


    Google Scholar
     

  • Hughes, T. P., Bellwood, D. R. & Connelly, S. R. Biodiversity hotspots, centres of endemicity, and the conservation of coral reefs. Ecol. Lett. 5, 775–784 (2002).

    Article 

    Google Scholar
     

  • Hoeksema, B. W. Delineation of the Indo-Malayan centre of maximum marine biodiversity: The Coral Triangle. In Biogeography, Time, and Place: Distributions, Barriers, and Islands (ed. Renema, Willem) 117–178 (Springer Netherlands, Dordrecht, 2007). https://doi.org/10.1007/978-1-4020-6374-9_5.

    Chapter 

    Google Scholar
     

  • Keith, S. A., Baird, A. H., Hughes, T. P., Madin, J. S. & Connolly, S. R. Faunal breaks and species composition of Indo-Pacific corals: The role of plate tectonics, environment and habitat distribution. Proc. R. Soc. B 280, 20130818 (2013).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Allen, G. R. Conservation hotspots of biodiversity and endemism for Indo-Pacific coral reef fishes. Aquat. Conserv. 18, 541–556 (2008).

    Article 

    Google Scholar
     

  • Kulbicki, M. et al. Global biogeography of reef fishes: A hierarchical quantitative delineation of regions. PLoS ONE 8, e81847 (2013).

    Article 
    ADS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Cowman, P. F. Historical factors that have shaped the evolution of tropical reef fishes: A review of phylogenies, biogeography, and remaining questions. Front. Genet. 5, 394 (2014).

    Article 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Cowman, P. F., Parravicini, V., Kulbicki, M. & Floeter, S. R. The biogeography of tropical reef fishes: Endemism and provinciality through time. Biol. Rev. 92, 2112–2130 (2017).

    Article 
    PubMed 

    Google Scholar
     

  • Bribiesca-Contraras, G., Verbruggen, H., Hugall, A. F. & O’Hara, T. D. Global biogeographic structuring of tropical shallow-water brittle stars. J. Biogeogr. 46, 1287–1299 (2019).

    Article 

    Google Scholar
     

  • Rosa, R. et al. Global patterns of species richness in coastal cephalopods. Front. Mar. Sci. 6, 469 (2019).

    Article 

    Google Scholar
     

  • Kerswell, A. P. Global biodiversity patterns of benthic marine algae. Ecology 87, 2479–2488 (2006).

    Article 
    PubMed 

    Google Scholar
     

  • Yip, Z. T., Quek, R. Z. B. & Huang, D. Historical biogeography of the widespread macroalga Sargassum (Fucales, Phaeophyceae). J. Phycol. 56, 300–309 (2020).

    Article 
    PubMed 

    Google Scholar
     

  • Hebert, P. D. N., Cywinska, A., Ball, S. L. & de Waard, J. R. Biological identifications through DNA barcodes. Proc. R. Soc. Lond. B 270, 313–321 (2003).

    Article 
    CAS 

    Google Scholar
     

  • Fukami, H. Regional specific approach is a next step for setting evolutionary-based conservation priorities in the scleractinian corals. Anim. Cons. 18, 318–319 (2015).

    Article 

    Google Scholar
     

  • DeQuieroz, K. Species concepts and species delimitation. Syst. Biol. 56, 879–886 (2007).

    Article 

    Google Scholar
     

  • Paulay, G. & Meyer, C. Dispersal and divergence across the greatest ocean region: Do larvae matter? Integr. Comp. Biol. 46, 269–281 (2006).

    Article 
    PubMed 

    Google Scholar
     

  • Keshavmurthy, S. et al. DNA barcoding reveals the coral “laboratory rat”, Stylophora pistillata, encompasses multiple identities. Sci. Rep. 3, 1520 (2013).

    Article 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Bridge, T. C. L. et al. A tenuis relationship: Traditional taxonomy obscures systematics and biogeography of the ‘Acropora tenuis’ (Scleractinia: Acroporidae) species complex. Zool. J. Linn. Soc. https://doi.org/10.1093/zoolinnean/zlad187 (2023).

    Article 

    Google Scholar
     

  • OBIS Ocean Biodiversity Information System. Intergovernmental Oceanographic Commission of UNESCO. https://obis.org. (2024)

  • Goulet, T. L., Simmons, C. & Goulet, D. Worldwide biogeography of Symbiodinium in tropical octocorals. Mar. Ecol. Prog. Ser. 355, 45–58 (2008).

    Article 
    ADS 

    Google Scholar
     

  • Liberman, R., Benayahu, Y. & Huchon, D. Octocorals in the Gulf of Aqaba exhibit high photosymbiont fidelity. Front. Microbiol. 13, 1005471. https://doi.org/10.3389/fmicb.2022.1005471 (2022).

    Article 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Goulet, T. L., LaJeunesse, T. C. & Fabricius, K. E. Symbiont specificity and bleaching susceptibility among soft corals in the 1998 Great Barrier Reef mass coral bleaching event. Mar. Biol. 154, 795–804 (2008).

    Article 

    Google Scholar
     

  • Coffroth, M. A. et al. What makes a winner? Symbiont and host dynamics determine Caribbean octocoral resilience to bleaching. Sci. Adv. 9, eadj6788 (2023).

    Article 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Rodriguez, M. V. B., Segumalian, C. S., Lalas, J. A. A. & Maningas, J. M. C. Octocorals outcompete scleractinian corals in a degraded reef. IOP Conf. Ser. Earth Environ. Sci. 420, 012027 (2019).

    Article 

    Google Scholar
     

  • Garra, S., Hall, A. & Kingsford, M. J. The effects of predation on the condition of soft corals. Coral Reefs 39, 1329–1343 (2020).

    Article 

    Google Scholar
     

  • Tsounis, G., Steele, M. A. & Edmunds, P. J. Elevated feeding rates of fishes within octocoral canopies on Caribbean reefs. Coral Reefs 39, 1299–1311 (2020).

    Article 

    Google Scholar
     

  • Lasker, H. R., Bramanti, L., Tsounis, G. & Edmunds, P. J. The rise of octocoral forests on Caribbean reefs. Adv. Mar. Biol. 87, 361–410 (2020).

    Article 
    PubMed 

    Google Scholar
     

  • Reimer, J. D. et al. A large Heliopora-dominated reef off the east coast of Okinawajima Island Japan. Fauna Ryukyuana 69, 19–23 (2024).


    Google Scholar
     

  • Jeng, M.-S., Huang, H.-D., Dai, C.-F., Hsiao, Y.-C. & Benayahu, Y. Sclerite calcification and reef-building in the fleshy octocoral genus Sinularia (Octocorallia: Alcyonacea). Coral Reefs 30, 925–933 (2011).

    Article 
    ADS 

    Google Scholar
     

  • Shoham, E., Prohaska, T., Barkay, Z., Zitek, A. & Benayahu, Y. Soft corals form aragonite-precipitated columnar spiculite in mesophotic reefs. Sci. Rep. 9, 1241. https://doi.org/10.1038/s41598-018-37696-z (2019).

    Article 
    ADS 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Reverter, M., Helber, S. B., Rohde, S., de Goeij, J. M. & Schupp, P. J. Coral reef benthic community changes in the Anthropocene: Biogeographic heterogeneity, overlooked configurations, and methodology. Global Change Biol. 28, 1956–1971 (2021).

    Article 

    Google Scholar
     

  • Fabricius, K. Reef invasion by soft corals: Which taxa and which habitats? in Proceedings of the Australian Coral Reef Society 75th Anniversary Conference, Heron Island, October, 1997 (eds. Greenwood, J. G., & Hall, N. J.) 78–90 (University of Queensland, 1998).

  • Lalas, J. A. A., Jamodiong, E. A. & Reimer, J. D. Spatial patterns of soft coral (Octocorallia) assemblages in the shallow coral reefs of Okinawa Island, Ryukyu Archipelago, Japan: Dominance on highly disturbed reefs. Reg. Stud. Mar. Sci. 71, 103405. https://doi.org/10.1016/j.rsma.2024.103405 (2024).

    Article 

    Google Scholar
     

  • Fabricius, K. & Alderslade, P. 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, 2001).


    Google Scholar
     

  • McFadden, C. S. et al. Species boundaries in the absence of morphological, ecological or geographical differentiation in the Red Sea octocoral genus Ovabunda (Alcyonacea: Xeniidae). Mol. Phylogen. Evol. 112, 174–184 (2017).

    Article 

    Google Scholar
     

  • Quattrini, A. M. et al. A next generation approach to species delimitation reveals the role of hybridization in a cryptic species complex of corals. BMC Evol. Biol. 19, 116 (2019).

    Article 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • West, J. M., Harvell, C. D. & Walls, A.-M. Morphological plasticity in a gorgonian coral (Briareum asbestinum) over a depth cline. Mar. Ecol. Prog. Ser. 94, 61–69 (1993).

    Article 
    ADS 

    Google Scholar
     

  • Halász, A., McFadden, C. S., Toonen, R. J. & Benayahu, Y. Re-description of type material of Xenia Lamarck, 1816. Zootaxa 4652, 201–239 (2019).

    Article 

    Google Scholar
     

  • McFadden, C. S., van Ofwegen, L. P. & Quattrini, A. M. Revisionary systematics of Octocorallia (Cnidaria: Anthozoa) guided by phylogenomics. Bull. Soc. Syst. Biol. 1(8735), 1–79 (2022).


    Google Scholar
     

  • van Ofwegen, L. P., Benayahu, Y. & McFadden, C. S. Sinularia leptoclados (Ehrenberg, 1834) (Cnidaria: Octocorallia) re-examined. ZooKeys 272, 29–59 (2013).

    Article 

    Google Scholar
     

  • van Ofwegen, L. P., McFadden, C. S. & Benayahu, Y. Sinularia polydactyla (Ehrenberg, 1834) (Cnidaria, Octocorallia) re-examined, with description of a new species. ZooKeys 581, 71–126 (2016).

    Article 

    Google Scholar
     

  • Benayahu, Y., Ekins, M. & McFadden, C. S. Overview of the genus Sympodium Ehrenberg, 1834 (Octocorallia, Alcyonacea, Xeniidae), with the description of new species, revealing regional endemism. Zootaxa 5072, 324–350 (2021).

    Article 
    PubMed 

    Google Scholar
     

  • McFadden, C. S. et al. Molecular operational taxonomic units reveal regional endemism in the Indo-Pacific octocoral family Xeniidae. J. Biogeogr. 46, 992–1006 (2019).

    Article 

    Google Scholar
     

  • McFadden, C. S., Brown, A. S., Brayton, C., Hunt, C. B. & van Ofwegen, L. P. Application of DNA barcoding to biodiversity studies of shallow-water octocorals: Molecular proxies agree with morphological estimates of species richness in Palau. Coral Reefs 33, 275–286 (2014).

    ADS 

    Google Scholar
     

  • Katoh, K., Kuma, K., Toh, H. & Miyata, T. MAFFT version 5: Improvement in accuracy of multiple sequence alignment. Nucl. Acids Res. 33, 511–513 (2005).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Schloss, P. D. et al. Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl. Environ. Microbiol. 75, 7537–7541 (2009).

    Article 
    ADS 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Spalding, M. D. et al. Marine ecoregions of the world: A bioregionalization of coastal and shelf areas. Bioscience 57, 573–583 (2007).

    Article 

    Google Scholar
     

  • Chao, A. & Jost, L. Coverage-based rarefaction and extrapolation: Standardizing samples by completeness rather than size. Ecology 93, 2533–2547 (2012).

    Article 
    PubMed 

    Google Scholar
     

  • Chao, A. et al. Rarefaction and extrapolation with Hill numbers: A framework for sampling and estimation in species diversity studies. Ecol. Monogr. 84, 45–67 (2014).

    Article 

    Google Scholar
     

  • Chao, A., Ma, K. H. & Hsieh, T. C. iNEXT Online: Software for Interpolation and Extrapolation of Species Diversity. Program and User’s Guide http://chao.stat.nthu.edu.tw/wordpress/software_download/inext-online/ (2016).

  • Kahng, S. E., Benayahu, Y. & Lasker, H. R. Sexual reproduction in octocorals. Mar. Ecol. Prog. Ser. 443, 265–283 (2011).

    Article 
    ADS 

    Google Scholar
     

  • Helmus, M. R., Bland, T. J., Williams, C. K. & Ives, A. R. Phylogenetic measures of biodiversity. Am. Nat. 169, E68–E83 (2007).

    Article 
    PubMed 

    Google Scholar
     

  • R Core Team. R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna, Austria. https://www.R-project.org/ (2024).

  • Kembel, S. An introduction to the picante package. (2010)

  • Minh, B. Q. et al. IQTree-2: New models and efficient methods for phylogenetic inference in the genomic era. Mol. Biol. Evol. 37, 1530–1534 (2020).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Chernomor, O., von Haeseler, A. & Minh, B. Q. Terrace aware data structure for phylogenomic inference from supermatrices. Syst. Biol. 65, 997–1008 (2016).

    Article 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Kalyaanamoorthy, S., Minh, B. Q., Wong, T. K. F., von Haeseler, A. & Jermiin, L. S. ModelFinder: Fast model selection for accurate phylogenetic estimates. Nat. Methods 14, 587–589 (2017).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Baselga, A. The relationship between species replacement, dissimilarity derived from nestedness, and nestedness. Global Ecol. Biogeogr. 21, 1223–1232 (2012).

    Article 

    Google Scholar
     

  • Clarke, K. R., & Gorley, R. N. PRIMER v7: User manual/tutorial. (PRIMER-E-LTD, 2015).

  • Benayahu, Y. et al. Diversity and distribution of octocorals (Coelenterata: Anthozoa) on the coral reefs of Penghu Taiwan. Zool. Stud. 51, 1529–1548 (2012).


    Google Scholar
     

  • DiBattista, J. D. et al. On the origin of endemic species in the Red Sea. J. Biogeogr. 43, 13–30 (2016).

    Article 

    Google Scholar
     

  • DiBattista, J. D. et al. A review of contemporary patterns of endemism for shallow water reef fauna in the Red Sea. J. Biogeogr. 43, 423–439 (2016).

    Article 

    Google Scholar
     

  • Obura, D. An Indian Ocean centre of origin revisited: Palaeogene and Neogene influences defining a biogeographic realm. J. Biogeogr. 43, 229–242 (2016).

    Article 

    Google Scholar
     

  • Kusumoto, B. et al. Global distribution of coral diversity: Biodiversity knowledge gradients related to spatial resolution. Ecol. Res. 35, 315–326 (2020).

    Article 

    Google Scholar
     

  • van Ofwegen, L. P. Status of knowledge of the Indo-Pacific soft coral genus Sinularia May, 1898 (Anthozoa: Octocorallia). In Proceedings of the Ninth International Coral Reef Symposium vol 1, pp 167–171 (2002).

  • Benayahu, Y. & Loya, Y. Substratum preferences and planulae settling of two Red Sea alcyonaceans: Xenia macrospiculata Gohar and Parerythropodium fulvum fulvum (Forskål). J. Exp. Mar. Biol. Ecol. 83, 249–261 (1984).

    Article 

    Google Scholar
     

  • Mantelatto, M. C., da Silva, A. G., Louzada, T. S., McFadden, C. S. & Creed, J. C. Invasion of aquarium origin soft corals on a tropical rocky reef in the southwest Atlantic, Brazil. Mar. Pollut. Bull. 130, 84–94 (2018).

    Article 
    CAS 
    PubMed 

    Google Scholar
     

  • Ruiz Allais, J. P., Benayahu, Y. & Lasso-Alcala, O. M. The invasive Unomia stolonifera (Alcyonacea, Xeniidae) is dominating the benthos in the Southeastern Caribbean Sea. Mem. Fund. La Salle Cienc. Nat. 79, 63–80 (2021).


    Google Scholar
     

  • Harrison, P. L. & Wallace, C. C. Reproduction, dispersal and recruitment of scleractinian corals. In Ecosystems of the World 25: Coral Reefs (ed. Dubinsky, Z.) 133–207 (Elsevier, 2011).


    Google Scholar
     

  • Shearer, T. L. & Coffroth, M. A. Barcoding corals: Limited by interspecific divergence not intraspecific variation. Mol. Ecol. Res. 8, 247–255 (2008).

    Article 
    CAS 

    Google Scholar
     

  • Cordeiro, R. T. S. et al. Neospongodes atlantica, a potential case of an early biological introduction in the Southwestern Atlantic. PeerJ 10, e14347. https://doi.org/10.7717/peerj.14347 (2022).

    Article 
    CAS 
    PubMed 
    PubMed Central 

    Google Scholar
     

  • Yasuhara, M. et al. Hotspots of Cenozoic tropical marine biodiversity. Oceanogr. Mar. Biol. Ann. Rev. 60, 243–300 (2022).


    Google Scholar
     

  • Renema, W. et al. Hopping hotspots: Global shifts in marine biodiversity. Science 321, 654–657 (2008).

    Article 
    ADS 
    CAS 
    PubMed 

    Google Scholar
     



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