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1,135 results for “Indo-Pacific”
Patterns and drivers of species diversity in the Indo-Pacific red seaweed Portieria: phylogenetic data
<p>Alignments, trees and Biogeobears analyses related to the study: Leliaert F, Payo DA, Gurgel CFD, Schils T, Draisma SGA, Saunders GW, Kamiya M, Sherwood AR, Lin S-M, Huisman John M, Le Gall L, Anderson RJ, Bolton John J, Mattio L, Zubia M, Spokes T, Vieira C, Payri CE, Coppejans E, D'hondt S, Verbruggen H, De Clerck O. Patterns and drivers of species diversity in the Indo-Pacific red seaweed Portieria. Journal of Biogeography. 2018;45(10):2299-313. doi:10.1111/jbi.13410</p> <p>Abstract: Biogeographical processes underlying Indo-Pacific biodiversity patterns have been relatively well studied in marine shallow water invertebrates and fishes, but have been explored much less extensively in seaweeds, despite these organisms often displaying markedly different patterns. Using the marine red alga Portieria as a model, we aim to gain understanding of the evolutionary processes generating seaweed biogeographical patterns. Our results will be evaluated and compared with known patterns and processes in animals. Species diversity estimates were inferred using DNA-based species delimitation methods. Historical biogeographical patterns were inferred based on a six-gene time-calibrated phylogeny, distribution data of 802 specimens, and probabilistic modelling of geographic range evolution. The importance of geographic isolation for speciation was further evaluated by population genetic analyses at the intraspecific level. We delimited 92 candidate species, most with restricted distributions, suggesting low dispersal capacity. Highest species diversity was found in the Indo-Malay Archipelago (IMA). Our phylogeny indicates that Portieria originated during the late Cretaceous in the area that is now the Central Indo-Pacific. The biogeographical history of Portieria includes repeated dispersal events to peripheral regions, followed by long-term persistence and diversification of lineages within those regions, and limited dispersal back to the IMA. Our results suggest that the long geological history of the IMA played an important role in shaping Portieria diversity. High species richness in the IMA resulted from a combination of speciation at small spatial scales, possibly as a result of increased regional habitat diversity from the Eocene onwards, and species accumulation via dispersal and/or island integration through tectonic movement. Our results are consistent with the biodiversity feedback model, in which biodiversity hotspots act as both ‘centres of origin’ and ‘centres of accumulation’, and corroborate previous findings for invertebrates and fish that there is no single unifying model explaining the biological diversity within the IMA.</p>
From genomics to integrative species delimitation? The case study of the Indo-Pacific Pocillopora corals
<p>With the advent of genomics, sequencing thousands of loci from hundreds of individuals now appears feasible at reasonable costs, allowing complex phylogenies to be resolved. This is particularly relevant for cnidarians, for which insufficient data is available due to the small number of currently available markers and obscures species boundaries. Difficulties in inferring gene trees and morphological incongruences further blur the study and conservation of these organisms. Yet, can genomics alone be used to delimit species? Here, focusing on the coral genus <em>Pocillopora</em>, whose colonies play key roles in Indo-Pacific reef ecosystems but have challenged taxonomists for decades, we explored and discussed the usefulness of multiple criteria (genetics, morphology, biogeography and symbiosis ecology) to delimit species of this genus. Phylogenetic inferences, clustering approaches and species delimitation methods based on genome-wide single-nucleotide polymorphisms (SNP) were first used to resolve <em>Pocillopora</em> phylogeny and propose genomic species hypotheses from 356 colonies sampled across the Indo-Pacific (western Indian Ocean, tropical southwestern Pacific and south-east Polynesia). These species hypotheses were then compared to other lines of evidence based on genetic, morphology, biogeography and symbiont associations. Out of 21 species hypotheses delimited by genomics, 13 were strongly supported by all approaches, while six could represent either undescribed species or nominal species that have been synonymised incorrectly. Altogether, our results support (1) the obsolescence of macromorphology (i.e., overall colony and branches shape) but the relevance of micromorphology (i.e., corallite structures) to refine <em>Pocillopora</em> species boundaries, (2) the relevance of the mtORF (coupled with other markers in some cases) as a diagnostic marker of most species, (3) the requirement of molecular identification when species identity of colonies is absolutely necessary to interpret results, as morphology can blur species identification in the field, and (4) the need for a taxonomic revision of the genus <em>Pocillopora</em>. These results give new insights into the usefulness of multiple criteria for resolving <em>Pocillopora</em>, and more widely, scleractinian species boundaries, and will ultimately contribute to the taxonomic revision of this genus and the conservation of its species.</p> <p> </p> <p>This deposit contains the data related to Oury N, Noël C, Mona S, Aurelle D, Magalon H (2023) From genomics to integrative species delimitation? The case study of the Indo-Pacific <em>Pocillopora </em>corals. Mol Phylogenet Evol 107803. doi:10.1016/j.ympev.2023.107803</p> <p>See 0_README.txt for more content details.</p>
MCR LTER: Coral Reef: Habitat Utilization and Pairing Patterns of Mutualistic Shrimps and Gobies from 7 Indo-Pacific regions
We analyzed network level specialization for eight Indo-Pacific networks of obligate, mutualistic gobies and shrimps, and elucidated ecological and evolutionary factors driving specialization. To accomplish this we collected and analyzed data on species pairings in Moorea, French Polynesia (lat. -17.49, long. -149.84), Kenting, Taiwan (lat. 21.95, long. 120.76), and Kimbe Bay, New Britain, Papua New Guinea (PNG; lat. -5.50, long. 150.12), and combined these observations with previously published data from Seychelles Islands (Polunin and Lubbock 1977), Great Barrier Reef, Australia (Cummins 1979), Red Sea, Israel (Karplus et al. 1981), Japan (Yanagisawa 1984), and the Gulf of Thailand, Thailand (Nakasone and Manthachitra 1986). We also systematically collected and analyzed habitat data for shrimps and gobies in Moorea, Taiwan, and PNG. We found specialization was affected by variability in habitat use for both gobies and shrimps and by phylogenetic history for shrimps. Habitat use was phylogenetically conserved among shrimp, and thus effects of shrimp phylogeny on partner choice were mediated in part by habitat. By contrast, habitat use and pairing patterns in gobies were not related to phylogenetic history. This asymmetry appears to result from evolutionary constraints on partner use in shrimps and convergence among distantly-related gobies to utilize burrows provided by multiple shrimp species. Results indicate that the evolution of mutualism is affected by life history characteristics that transcend environments and that different factors constrain interactions in disparate ecosystems. These data are associated with this publication: Thompson AR, Adam TC, Hultgren KM, Thacker CE (in press). Ecology and evolution affect network structure in an intimate marine mutualism. The American Naturalist. This is a collection of short term studies spanning 1972 to 2011.
Fig. 20 in The Indo-Pacific Amalda (Neogastropoda, Olivoidea, Ancillariidae) revisited with molecular data, with special emphasis on New Caledonia
Fig. 20. Radulae of species of Amalda H. Adams & A. Adams, 1853. A. Amalda sp., MNHN IM-2013- 63891 (shell on Fig. 19A–B). B, E. A. monilifera (Reeve, 1864), MNHN IM-2013-63898 (shell on Fig. 19F–G). C–D. A. contusa, MNHN IM-2009-22264, SL 22.7 mm. F–I. A. hayashii Ninomiya, 1988. F–G. MNHN IM-2013-44413 (shell on Fig. 19J–K). H. MNHN IM-2013-44432. I. MNHN IM-2013- 44457, SL 38.2 mm. J–K. A. hinomotoensis (Yokoyama, 1922), MNHN IM-2019-619, SL 38.5 mm.
Fig. 18. A–E. A in The Indo-Pacific Amalda (Neogastropoda, Olivoidea, Ancillariidae) revisited with molecular data, with special emphasis on New Caledonia
Fig. 18. A–E. A. fuscolingua Kilburn & Bouchet, 1988. A–B. Holotype, MNHN IM-2000-1439, SL 30.6 mm. C. MNHN IM-2007-43643, SL 26.6 mm (sequenced specimen). D–E. MNHN IM-2007- 43649, SL 30.2 mm (sequenced specimen). F–J. A. coriolis Kilburn & Bouchet, 1988. F–G. Holotype, MNHN IM-2000-1393, SL 40.1 mm. H–I. MNHN IM-2013-63899, SL 40.4 mm (sequenced specimen). J. Coral Sea, Capel Bank, KANADEEP, stn DW4944, 25°21′ S, 159°45′ E, 235–242 m, SL 37.3 mm. A–E = at the same scale; F–J = at the same scale.
Fig. 12 in The Indo-Pacific Amalda (Neogastropoda, Olivoidea, Ancillariidae) revisited with molecular data, with special emphasis on New Caledonia
Fig. 12. Amalda montrouzieri (Souverbie, 1860), southern New Caledonia. A–C. Syntype MNHN IM-2000-1475, SL 41.4 mm. D–E. MNHN IM-2013-80199, SL 18.7 mm (sequenced specimen). F. Secteur Île Ouen-Baie du Prony, LAGON, stn DW98, 22°35.7′ S, 166°31.8′ E, 15 m, SL 25.6 mm. G. Grand Récif Sud, LAGON, stn DW334, 22°38′ S, 166°53.6′ E, 47–48 m, SL 26.6 mm (illustrated by Kilburn & Bouchet 1988: fig. 14). H. Secteur de Nouméa. LAGON, stn DW51, 22°14.7′ S, 166°11.1′ E, 10 m, SL 27.6 mm. I. Grand Récif Sud, LAGON, stn DW544, 22°50.8′ S, 166°48.5′ E, 25 m, SL 25.4 mm. J–K. A. cf. montrouzieri. Deep-water morph, SMIB2, stn DW23, 22°31′ S, 167°37′ E, 410–420 m, SL 30.2 mm (specimen illustrated by Kilburn & Bouchet 1988: figs 5–6). All specimens except D–E not sequenced. Shells at the same scale.
Fig. 11 in The Indo-Pacific Amalda (Neogastropoda, Olivoidea, Ancillariidae) revisited with molecular data, with special emphasis on New Caledonia
Fig. 11. Amalda cacao sp. nov. A–E. Holotype, MNHN IM-2000-35296, SL 74.9 mm (D–E = enlarged apical and lateral views of the protoconch), specimen not sequenced. F. MNHN IM-2007-33287, SL 61 mm, sequenced specimen. G. KANADEEP 1, stn DW4951, 25°29′ S, 159°49′ E, 310–320 m, Capel Bank, SL 50 mm, specimen not sequenced. H. NORFOLK 1, stn CP1676, 24°44′ S, 168°09′ E, 227–232 m, Norfolk Ridge, SL 67.1 mm, specimen not sequenced. Shells at the same scale.
Fig. 6 in The Indo-Pacific Amalda (Neogastropoda, Olivoidea, Ancillariidae) revisited with molecular data, with special emphasis on New Caledonia
Fig. 6. Amalda hilgendorfi (von Martens, 1897). Southern New Caledonia morph. A–D and E–H belong to two molecularly distinct subclades. A–B. MNHN IM-2007-43664, SL 30.6 mm. C. MNHN IM-2007-43673, SL 34.2 mm. D. MNHN IM-2009-11964, SL 15.2 mm. E–F. MNHN IM-2007-43671, SL 33.8 mm. G. MNHN IM-2007-43674, SL 34.7 mm. H. MNHN IM-2009-11945, SL 31.6 mm. I. Norfolk Ridge, Banc Éponge, NORFOLK 1, stn DW 1693, 24°55′ S, 168°21′ E, 564–1144 m, SL 61 mm, specimen not sequenced, shell not to scale. Shells (except I, reduced) at the same scale.
Fig. 17 in The Indo-Pacific Amalda (Neogastropoda, Olivoidea, Ancillariidae) revisited with molecular data, with special emphasis on New Caledonia
Fig. 17. Comparison of Amalda allaryi Bozzetti, 2007 with A. montrouzieri (Souverbie, 1860). A–B. A. allaryi, MNHN IM-2013-68272, SL 26.2 mm, specimen not sequenced. C–D. A. montrouzieri, LAGON, stn DW51, Nouméa Sector, 22°15′ S, 166°11′ E, 10 m, SL 27.6 mm, specimen not sequenced.
Fig. 17 in Revision of the Siriella brevicaudata species group (Crustacea: Mysida: Mysidae) from the West Indo-Pacific
Fig. 17. Siriella muranoi sp. nov., holotype, ♂, length 5.5 mm, Port Essington, Arafura Sea, Northern Territory, Australia. A. Endopod of pereopod 4, posterior view. B. Endopod of pereopod 5, posterior view. C. Endopod of pereopod 6, posterior view. D. Penis. E. Pleopod 3 (endopod not shown), lateral view. F. Pleopod 5 (endopod not shown), lateral view. G. Pleopod 5 (rami setae not shown), anterior view. Scale bars: A–D = 0.5 mm; E–G = 0.2 mm.
Fig. 16 in Revision of the Siriella brevicaudata species group (Crustacea: Mysida: Mysidae) from the West Indo-Pacific
Fig. 16. Siriella muranoi sp. nov., holotype, ♂, length 5.5 mm, Port Essington, Arafura Sea, Northern Territory, Australia. A. Anterior part of maxilliped 2, posterior view. B. Endopod of pereopod 1, posterior view. C. Endopod of pereopod 2, posterior view. D. Endopod of pereopod 3, posterior view. Scale bars: A = 0.2 mm; B–D = 0.25 mm.
Fig. 15 in Revision of the Siriella brevicaudata species group (Crustacea: Mysida: Mysidae) from the West Indo-Pacific
Fig. 15. Siriella muranoi sp. nov., holotype, ♂, length 5.5 mm, Port Essington, Arafura Sea, Northern Territory, Australia. A. Antenna 1 peduncle, dorsal view. B. Antenna 2 (peduncle and antennal scale), ventral view. C. Mandibles, left and right. D. Mandibular palp, lateral view. E. Labrum. F. Inner ramus of maxilla 1, posterior view. G. Distal part of maxilliped 1, posterior view. Scale bars: A–B, D = 0.25 mm; C, E–G = 0.2 mm.
Fig. 23 in Revision of the Siriella brevicaudata species group (Crustacea: Mysida: Mysidae) from the West Indo-Pacific
Fig. 23. Siriella tabaniocula sp. nov., holotype, ♀, length 6 mm, Ningaloo Reef, Western Australia. A. Habitus, lateral view. B. Habitus, dorsal view. C. Telson. D. Uropodal endopod, dorsal view. E. Uropodal exopod, dorsal view. Scale bars: A–B = 1 mm; C–E = 0.25 mm.
Fig. 20 in Revision of the Siriella brevicaudata species group (Crustacea: Mysida: Mysidae) from the West Indo-Pacific
Fig. 20. Siriella occulta sp. nov., holotype, ♂, length 6.5 mm, Arabian Gulf, Saudi Arabia. A. Pleopod 1, posterior view. B. Pleopod 4, posterior view. C. Uropodal endopod, dorsal view. D. Uropodal exopod, dorsal view. Scale bars: 0.25 mm.
Fig. 27 in Revision of the Siriella brevicaudata species group (Crustacea: Mysida: Mysidae) from the West Indo-Pacific
Fig. 27. Siriella talbotae sp. nov., holotype, ♂, length 5 mm, Lizard Island, Queensland, Australia. A. Mandibular palp, lateral view. B. Right mandible. C. Left mandible. D. Maxilla 1, anterior view. E. Endopod of maxilliped 2, posterior view. F. Endopod of pereopod 1, posterior view. G. Penis. Scale bars: A–D = 0.25 mm; E–G = 0.5 mm.
Fig. 30. Siriella vincenti W.M. Tattersall, 1927 in Revision of the Siriella brevicaudata species group (Crustacea: Mysida: Mysidae) from the West Indo-Pacific
Fig. 30. Siriella vincenti W.M. Tattersall, 1927, syntypes, Gulf of St. Vincent, South Australia, Australia. A. Antenna 1 peduncle, dorsal view. B. Antenna 1 peduncle, dorsal view. C. Antenna 2 peduncle and antennal scale, ventral view. D. Mandibular palp, medial view. E. Labrum. F. Distal part of maxilliped 1 endopod, posterior view. A, C–F = ♀; B = ♂, length 7.5 mm. Scale bars: A–C = 0.5 mm; D–F = 0.25 mm.
Fig. 19 in Revision of the Siriella brevicaudata species group (Crustacea: Mysida: Mysidae) from the West Indo-Pacific
Fig. 19. Siriella occulta sp. nov., holotype, ♂, length 6.5 mm, Arabian Gulf, Saudi Arabia. A. Maxilliped 1, anterior view. B. Maxilliped 2, anterior view. C. Dactylus of maxilliped 2, anterior view. D. Endopod of pereopod 1, anterior view. E. Exopod of pereopod 1. F. Endopod of pereopod 6, anterior view. G. Penis. Scale bars: A–B, D–G = 0.25 mm; C = 0.1 mm.
Fig. 14 in Revision of the Siriella brevicaudata species group (Crustacea: Mysida: Mysidae) from the West Indo-Pacific
Fig. 14. Siriella muranoi sp. nov., holotype, ♂, length 5.5 mm, Port Essington, Arafura Sea, Northern Territory, Australia. A. Habitus. B. Anterior part of body. C. Anterior part of carapace, lateral view. D. Posterior part of body (left uropods not shown). E. Uropodal endopod, ventral view. Scale bars: A, C = 1 mm; B, D–E = 0.5 mm.
Fig. 11. Siriella hanseni W.M. Tattersall, 1922 in Revision of the Siriella brevicaudata species group (Crustacea: Mysida: Mysidae) from the West Indo-Pacific
Fig. 11. Siriella hanseni W.M. Tattersall, 1922, Laccadive Sea, Gulf of Manaar, India. A. Anterior part of body (right eye not shown). B. Anterior part of body (left eye not shown). C. Telson (two posterolateral subterminal spiniform setae missing). D. Telson, paralectotype. E. Antenna 1 peduncle, dorsal view. F. Antenna 2, lectotype, ventral view. G. Labrum. H. Mandibular palp, lateral view. I. Left mandible. J. Right mandible. A, C, E–J = lectotype, ♂, length 5.5 mm; B, D = paralectotype, ♀, length 5.5 mm. Scale bars: A–B = 1 mm; E–F, K = 0.5 mm; C–D, G–H = 0.25 mm; I–J = 0.1 mm.
Fig. 31. Siriella vincenti W.M. Tattersall, 1927 in Revision of the Siriella brevicaudata species group (Crustacea: Mysida: Mysidae) from the West Indo-Pacific
Fig. 31. Siriella vincenti W.M. Tattersall, 1927, syntypes, Gulf of St. Vincent, South Australia, Australia. A. Maxilliped 2 endopod, posterior view. B. Distal part of maxilliped 2 endopod, posterior view. C. Pereopod 1 endopod, posterior view. D. Pleopod 4, posterior view. A–C = ♀, length 7.5 mm; D = ♂, length 7.5 mm. Scale bars: A, C–D = 0.5 mm; B = 0.25 mm.
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Allen Brain Atlas
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International Brain Laboratory public data
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OpenNeuro
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