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\n\n \n \n 2024\n \n \n (1)\n \n \n
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\n \n \n\n \n \n \n \n \n \n Sea surface temperature reconstruction in the Pacific Ocean using multi-elemental proxy in Porites and Diploastrea corals: Application to Palau Archipelago.\n \n \n \n \n\n\n \n Canesi, M.; Douville, E.; Montagna, P.; Bordier, L.; Caquineau, S.; Pons-Branchu, E.; Iwankow, G.; Stolarski, J.; Allemand, D.; Planes, S.; Moulin, C.; Lombard, F.; Bourdin, G.; Troublé, R.; Agostini, S.; Banaigs, B.; Boissin, E.; Boss, E.; Bowler, C.; de Vargas, C.; Flores, J. M.; Forcioli, D.; Furla, P.; Gilson, E.; Galand, P. E.; Pesant, S.; Sunagawa, S.; Thomas, O. P.; Thurber, R. V.; Voolstra, C. R.; Wincker, P.; Zoccola, D.; and Reynaud, S.\n\n\n \n\n\n\n Chemical Geology, 645: 121884. February 2024.\n 0 citations (Semantic Scholar/DOI) [2024-02-09] 0 citations (Crossref) [2024-02-09]\n\n\n\n
\n\n\n\n \n \n![\"Sea](\"//bibbase.org/img/filetypes/link.svg\"\n\t "\\"Paper\\"\n\t")
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\n\n\n@article{canesi_sea_2024,\n\ttitle = {Sea surface temperature reconstruction in the {Pacific} {Ocean} using multi-elemental proxy in {Porites} and {Diploastrea} corals: {Application} to {Palau} {Archipelago}},\n\tvolume = {645},\n\tissn = {0009-2541},\n\tshorttitle = {Sea surface temperature reconstruction in the {Pacific} {Ocean} using multi-elemental proxy in {Porites} and {Diploastrea} corals},\n\turl = {https://www.sciencedirect.com/science/article/pii/S0009254123005855},\n\tdoi = {10.1016/j.chemgeo.2023.121884},\n\tabstract = {Massive reef-building Porites corals are commonly studied to obtain long-term reconstructions of past sea surface temperature (SST) using temperature-sensitive elemental proxies, such as Sr/Ca or Li/Mg ratios. Most recently, a multi-proxy approach combining these two ratios (e.g. D'Olivo et al., 2018) and the SrU method (DeCarlo et al., 2016) have proved to be more robust to reconstruct paleo-temperatures. To date, no study has been carried out on the application of these new approaches on the Diploastrea heliopora coral, another massive reef-building genus that can potentially provide longer temperature records. Moreover, only a few studies have assessed coral SST calibrations at the scale of the Indo-Pacific basin and compared SST reconstructions obtained from two massive coral genera from the same site. In this study, we investigated the elemental composition of the topmost portion of 34 modern tropical Porites and 6 Diploastrea colonies collected during the Tara Pacific expedition (2016–2018) from various hydrological contexts in the Pacific Ocean. We derived and discussed annual Sr/Ca, Li/Mg, combined Sr/Ca-Li/Mg and Sr/Ca-Li/Ca-Mg/Ca and SrU vs. SST calibrations as well as potential intra-colonial and genus specific effects and evaluated the use of these basin-wide calibration equations. Overall, multi-ratio and multi-genera SST calibrations perform better than single-ratio calibrations and seem to improve temperature reconstructions. These new SST calibrations were applied to two colonies of Porites and Diploastrea collected from the same site in the North-West of the Palau archipelago located in the western Pacific Ocean to evaluate the applicability of universal calibrations based on different proxies and their combination. Coral-based SST records spanning the last 141 years show decadal changes and recent warming episodes that are related to major El Niño Southern Oscillation events. However, differences in reconstruction remain between both genera in the long-term trends, amplitudes, and absolute temperatures, depending on which genus or temperature proxy is considered.},\n\turldate = {2024-01-30},\n\tjournal = {Chemical Geology},\n\tauthor = {Canesi, Marine and Douville, Eric and Montagna, Paolo and Bordier, Louise and Caquineau, Sandrine and Pons-Branchu, Edwige and Iwankow, Guillaume and Stolarski, Jarosław and Allemand, Denis and Planes, Serge and Moulin, Clémentine and Lombard, Fabien and Bourdin, Guillaume and Troublé, Romain and Agostini, Sylvain and Banaigs, Bernard and Boissin, Emilie and Boss, Emmanuel and Bowler, Chris and de Vargas, Colomban and Flores, J. Michel and Forcioli, Didier and Furla, Paola and Gilson, Eric and Galand, Pierre E. and Pesant, Stéphane and Sunagawa, Shinichi and Thomas, Olivier P. and Thurber, Rebecca Vega and Voolstra, Christian R. and Wincker, Patrick and Zoccola, Didier and Reynaud, Stéphanie},\n\tmonth = feb,\n\tyear = {2024},\n\tnote = {0 citations (Semantic Scholar/DOI) [2024-02-09]\n0 citations (Crossref) [2024-02-09]},\n\tkeywords = {Calibrations, Elemental proxies and SST reconstructions, Massive tropical corals, Pacific Ocean, Sea Surface Temperature},\n\tpages = {121884},\n}\n\n\n\n Massive reef-building Porites corals are commonly studied to obtain long-term reconstructions of past sea surface temperature (SST) using temperature-sensitive elemental proxies, such as Sr/Ca or Li/Mg ratios. Most recently, a multi-proxy approach combining these two ratios (e.g. D'Olivo et al., 2018) and the SrU method (DeCarlo et al., 2016) have proved to be more robust to reconstruct paleo-temperatures. To date, no study has been carried out on the application of these new approaches on the Diploastrea heliopora coral, another massive reef-building genus that can potentially provide longer temperature records. Moreover, only a few studies have assessed coral SST calibrations at the scale of the Indo-Pacific basin and compared SST reconstructions obtained from two massive coral genera from the same site. In this study, we investigated the elemental composition of the topmost portion of 34 modern tropical Porites and 6 Diploastrea colonies collected during the Tara Pacific expedition (2016–2018) from various hydrological contexts in the Pacific Ocean. We derived and discussed annual Sr/Ca, Li/Mg, combined Sr/Ca-Li/Mg and Sr/Ca-Li/Ca-Mg/Ca and SrU vs. SST calibrations as well as potential intra-colonial and genus specific effects and evaluated the use of these basin-wide calibration equations. Overall, multi-ratio and multi-genera SST calibrations perform better than single-ratio calibrations and seem to improve temperature reconstructions. These new SST calibrations were applied to two colonies of Porites and Diploastrea collected from the same site in the North-West of the Palau archipelago located in the western Pacific Ocean to evaluate the applicability of universal calibrations based on different proxies and their combination. Coral-based SST records spanning the last 141 years show decadal changes and recent warming episodes that are related to major El Niño Southern Oscillation events. However, differences in reconstruction remain between both genera in the long-term trends, amplitudes, and absolute temperatures, depending on which genus or temperature proxy is considered.\n
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\n \n \n\n \n \n \n \n \n \n Host transcriptomic plasticity and photosymbiotic fidelity underpin Pocillopora acclimatization across thermal regimes in the Pacific Ocean.\n \n \n \n \n\n\n \n Armstrong, E. J.; Lê-Hoang, J.; Carradec, Q.; Aury, J.; Noel, B.; Hume, B. C. C.; Voolstra, C. R.; Poulain, J.; Belser, C.; Paz-García, D. A.; Cruaud, C.; Labadie, K.; Da Silva, C.; Moulin, C.; Boissin, E.; Bourdin, G.; Iwankow, G.; Romac, S.; Agostini, S.; Banaigs, B.; Boss, E.; Bowler, C.; de Vargas, C.; Douville, E.; Flores, M.; Forcioli, D.; Furla, P.; Galand, P. E.; Gilson, E.; Lombard, F.; Pesant, S.; Reynaud, S.; Sullivan, M. B.; Sunagawa, S.; Thomas, O. P.; Troublé, R.; Thurber, R. V.; Zoccola, D.; Planes, S.; Allemand, D.; and Wincker, P.\n\n\n \n\n\n\n Nature Communications, 14(1): 3056. June 2023.\n 3 citations (Semantic Scholar/DOI) [2024-02-09] 2 citations (Crossref) [2024-02-09] Number: 1 Publisher: Nature Publishing Group\n\n\n\n
\n\n\n\n \n \nPaper\n \n \n\n \n \n doi\n \n \n\n \n link\n \n \n\n bibtex\n \n\n \n \n \n abstract \n \n\n \n \n \n 5 downloads\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n \n \n \n \n \n \n\n\n\n
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\n\n\n@article{armstrong_host_2023,\n\ttitle = {Host transcriptomic plasticity and photosymbiotic fidelity underpin {Pocillopora} acclimatization across thermal regimes in the {Pacific} {Ocean}},\n\tvolume = {14},\n\tcopyright = {2023 The Author(s)},\n\tissn = {2041-1723},\n\turl = {https://www.nature.com/articles/s41467-023-38610-6},\n\tdoi = {10.1038/s41467-023-38610-6},\n\tabstract = {Heat waves are causing declines in coral reefs globally. Coral thermal responses depend on multiple, interacting drivers, such as past thermal exposure, endosymbiont community composition, and host genotype. This makes the understanding of their relative roles in adaptive and/or plastic responses crucial for anticipating impacts of future warming. Here, we extracted DNA and RNA from 102 Pocillopora colonies collected from 32 sites on 11 islands across the Pacific Ocean to characterize host-photosymbiont fidelity and to investigate patterns of gene expression across a historical thermal gradient. We report high host-photosymbiont fidelity and show that coral and microalgal gene expression respond to different drivers. Differences in photosymbiotic association had only weak impacts on host gene expression, which was more strongly correlated with the historical thermal environment, whereas, photosymbiont gene expression was largely determined by microalgal lineage. Overall, our results reveal a three-tiered strategy of thermal acclimatization in Pocillopora underpinned by host-photosymbiont specificity, host transcriptomic plasticity, and differential photosymbiotic association under extreme warming.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2023-06-02},\n\tjournal = {Nature Communications},\n\tauthor = {Armstrong, Eric J. and Lê-Hoang, Julie and Carradec, Quentin and Aury, Jean-Marc and Noel, Benjamin and Hume, Benjamin C. C. and Voolstra, Christian R. and Poulain, Julie and Belser, Caroline and Paz-García, David A. and Cruaud, Corinne and Labadie, Karine and Da Silva, Corinne and Moulin, Clémentine and Boissin, Emilie and Bourdin, Guillaume and Iwankow, Guillaume and Romac, Sarah and Agostini, Sylvain and Banaigs, Bernard and Boss, Emmanuel and Bowler, Chris and de Vargas, Colomban and Douville, Eric and Flores, Michel and Forcioli, Didier and Furla, Paola and Galand, Pierre E. and Gilson, Eric and Lombard, Fabien and Pesant, Stéphane and Reynaud, Stéphanie and Sullivan, Matthew B. and Sunagawa, Shinichi and Thomas, Olivier P. and Troublé, Romain and Thurber, Rebecca Vega and Zoccola, Didier and Planes, Serge and Allemand, Denis and Wincker, Patrick},\n\tmonth = jun,\n\tyear = {2023},\n\tnote = {3 citations (Semantic Scholar/DOI) [2024-02-09]\n2 citations (Crossref) [2024-02-09]\nNumber: 1\nPublisher: Nature Publishing Group},\n\tkeywords = {Ecophysiology, Gene expression, Marine biology},\n\tpages = {3056},\n}\n\n\n\n Heat waves are causing declines in coral reefs globally. Coral thermal responses depend on multiple, interacting drivers, such as past thermal exposure, endosymbiont community composition, and host genotype. This makes the understanding of their relative roles in adaptive and/or plastic responses crucial for anticipating impacts of future warming. Here, we extracted DNA and RNA from 102 Pocillopora colonies collected from 32 sites on 11 islands across the Pacific Ocean to characterize host-photosymbiont fidelity and to investigate patterns of gene expression across a historical thermal gradient. We report high host-photosymbiont fidelity and show that coral and microalgal gene expression respond to different drivers. Differences in photosymbiotic association had only weak impacts on host gene expression, which was more strongly correlated with the historical thermal environment, whereas, photosymbiont gene expression was largely determined by microalgal lineage. Overall, our results reveal a three-tiered strategy of thermal acclimatization in Pocillopora underpinned by host-photosymbiont specificity, host transcriptomic plasticity, and differential photosymbiotic association under extreme warming.\n
\n\n\n\n \n\n \n \n \n \n \n \n Integrative omics framework for characterization of coral reef ecosystems from the Tara Pacific expedition.\n \n \n \n \n\n\n \n Belser, C.; Poulain, J.; Labadie, K.; Gavory, F.; Alberti, A.; Guy, J.; Carradec, Q.; Cruaud, C.; Da Silva, C.; Engelen, S.; Mielle, P.; Perdereau, A.; Samson, G.; Gas, S.; Voolstra, C. R.; Galand, P. E.; Flores, J. M.; Hume, B. C. C.; Perna, G.; Ziegler, M.; Ruscheweyh, H.; Boissin, E.; Romac, S.; Bourdin, G.; Iwankow, G.; Moulin, C.; Paz García, D. A.; Agostini, S.; Banaigs, B.; Boss, E.; Bowler, C.; de Vargas, C.; Douville, E.; Forcioli, D.; Furla, P.; Gilson, E.; Lombard, F.; Pesant, S.; Reynaud, S.; Sunagawa, S.; Thomas, O. P.; Troublé, R.; Thurber, R. V.; Zoccola, D.; Scarpelli, C.; Jacoby, E. K.; Oliveira, P. H.; Aury, J.; Allemand, D.; Planes, S.; and Wincker, P.\n\n\n \n\n\n\n Scientific Data, 10(1): 326. June 2023.\n 12 citations (Semantic Scholar/DOI) [2024-02-09] 6 citations (Crossref) [2024-02-09] Number: 1 Publisher: Nature Publishing Group\n\n\n\n
\n\n\n\n \n \nPaper\n \n \n\n \n \n doi\n \n \n\n \n link\n \n \n\n bibtex\n \n\n \n \n \n abstract \n \n\n \n \n \n 9 downloads\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n \n \n \n \n \n \n \n \n\n\n\n
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\n\n\n@article{belser_integrative_2023,\n\ttitle = {Integrative omics framework for characterization of coral reef ecosystems from the {Tara} {Pacific} expedition},\n\tvolume = {10},\n\tcopyright = {2023 The Author(s)},\n\tissn = {2052-4463},\n\turl = {https://www.nature.com/articles/s41597-023-02204-0},\n\tdoi = {10.1038/s41597-023-02204-0},\n\tabstract = {Coral reef science is a fast-growing field propelled by the need to better understand coral health and resilience to devise strategies to slow reef loss resulting from environmental stresses. Key to coral resilience are the symbiotic interactions established within a complex holobiont, i.e. the multipartite assemblages comprising the coral host organism, endosymbiotic dinoflagellates, bacteria, archaea, fungi, and viruses. Tara Pacific is an ambitious project built upon the experience of previous Tara Oceans expeditions, and leveraging state-of-the-art sequencing technologies and analyses to dissect the biodiversity and biocomplexity of the coral holobiont screened across most archipelagos spread throughout the entire Pacific Ocean. Here we detail the Tara Pacific workflow for multi-omics data generation, from sample handling to nucleotide sequence data generation and deposition. This unique multidimensional framework also includes a large amount of concomitant metadata collected side-by-side that provide new assessments of coral reef biodiversity including micro-biodiversity and shape future investigations of coral reef dynamics and their fate in the Anthropocene.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2023-06-02},\n\tjournal = {Scientific Data},\n\tauthor = {Belser, Caroline and Poulain, Julie and Labadie, Karine and Gavory, Frederick and Alberti, Adriana and Guy, Julie and Carradec, Quentin and Cruaud, Corinne and Da Silva, Corinne and Engelen, Stefan and Mielle, Paul and Perdereau, Aude and Samson, Gaelle and Gas, Shahinaz and Voolstra, Christian R. and Galand, Pierre E. and Flores, J. Michel and Hume, Benjamin C. C. and Perna, Gabriela and Ziegler, Maren and Ruscheweyh, Hans-Joachim and Boissin, Emilie and Romac, Sarah and Bourdin, Guillaume and Iwankow, Guillaume and Moulin, Clémentine and Paz García, David A. and Agostini, Sylvain and Banaigs, Bernard and Boss, Emmanuel and Bowler, Chris and de Vargas, Colomban and Douville, Eric and Forcioli, Didier and Furla, Paola and Gilson, Eric and Lombard, Fabien and Pesant, Stéphane and Reynaud, Stéphanie and Sunagawa, Shinichi and Thomas, Olivier P. and Troublé, Romain and Thurber, Rebecca Vega and Zoccola, Didier and Scarpelli, Claude and Jacoby, E’ Krame and Oliveira, Pedro H. and Aury, Jean-Marc and Allemand, Denis and Planes, Serge and Wincker, Patrick},\n\tmonth = jun,\n\tyear = {2023},\n\tnote = {12 citations (Semantic Scholar/DOI) [2024-02-09]\n6 citations (Crossref) [2024-02-09]\nNumber: 1\nPublisher: Nature Publishing Group},\n\tkeywords = {Data processing, Marine biology, Metagenomics, Next-generation sequencing},\n\tpages = {326},\n}\n\n\n\n Coral reef science is a fast-growing field propelled by the need to better understand coral health and resilience to devise strategies to slow reef loss resulting from environmental stresses. Key to coral resilience are the symbiotic interactions established within a complex holobiont, i.e. the multipartite assemblages comprising the coral host organism, endosymbiotic dinoflagellates, bacteria, archaea, fungi, and viruses. Tara Pacific is an ambitious project built upon the experience of previous Tara Oceans expeditions, and leveraging state-of-the-art sequencing technologies and analyses to dissect the biodiversity and biocomplexity of the coral holobiont screened across most archipelagos spread throughout the entire Pacific Ocean. Here we detail the Tara Pacific workflow for multi-omics data generation, from sample handling to nucleotide sequence data generation and deposition. This unique multidimensional framework also includes a large amount of concomitant metadata collected side-by-side that provide new assessments of coral reef biodiversity including micro-biodiversity and shape future investigations of coral reef dynamics and their fate in the Anthropocene.\n
\n\n\n\n \n\n \n \n \n \n \n \n Differences in carbonate chemistry up-regulation of long-lived reef-building corals.\n \n \n \n \n\n\n \n Canesi, M.; Douville, E.; Montagna, P.; Taviani, M.; Stolarski, J.; Bordier, L.; Dapoigny, A.; Coulibaly, G. E. H.; Simon, A.; Agelou, M.; Fin, J.; Metzl, N.; Iwankow, G.; Allemand, D.; Planes, S.; Moulin, C.; Lombard, F.; Bourdin, G.; Troublé, R.; Agostini, S.; Banaigs, B.; Boissin, E.; Boss, E.; Bowler, C.; de Vargas, C.; Flores, M.; Forcioli, D.; Furla, P.; Gilson, E.; Galand, P. E.; Pesant, S.; Sunagawa, S.; Thomas, O. P.; Vega Thurber, R.; Voolstra, C. R.; Wincker, P.; Zoccola, D.; and Reynaud, S.\n\n\n \n\n\n\n Scientific Reports, 13(1): 11589. July 2023.\n 1 citations (Semantic Scholar/DOI) [2024-02-09] 3 citations (Crossref) [2024-02-09] Number: 1 Publisher: Nature Publishing Group\n\n\n\n
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\n\n\n@article{canesi_differences_2023,\n\ttitle = {Differences in carbonate chemistry up-regulation of long-lived reef-building corals},\n\tvolume = {13},\n\tcopyright = {2023 The Author(s)},\n\tissn = {2045-2322},\n\turl = {https://www.nature.com/articles/s41598-023-37598-9},\n\tdoi = {10.1038/s41598-023-37598-9},\n\tabstract = {With climate projections questioning the future survival of stony corals and their dominance as tropical reef builders, it is critical to understand the adaptive capacity of corals to ongoing climate change. Biological mediation of the carbonate chemistry of the coral calcifying fluid is a fundamental component for assessing the response of corals to global threats. The Tara Pacific expedition (2016–2018) provided an opportunity to investigate calcification patterns in extant corals throughout the Pacific Ocean. Cores from colonies of the massive Porites and Diploastrea genera were collected from different environments to assess calcification parameters of long-lived reef-building corals. At the basin scale of the Pacific Ocean, we show that both genera systematically up-regulate their calcifying fluid pH and dissolved inorganic carbon to achieve efficient skeletal precipitation. However, while Porites corals increase the aragonite saturation state of the calcifying fluid (Ωcf) at higher temperatures to enhance their calcification capacity, Diploastrea show a steady homeostatic Ωcf across the Pacific temperature gradient. Thus, the extent to which Diploastrea responds to ocean warming and/or acidification is unclear, and it deserves further attention whether this is beneficial or detrimental to future survival of this coral genus.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2023-08-23},\n\tjournal = {Scientific Reports},\n\tauthor = {Canesi, Marine and Douville, Eric and Montagna, Paolo and Taviani, Marco and Stolarski, Jarosław and Bordier, Louise and Dapoigny, Arnaud and Coulibaly, Gninwoyo Eric Hermann and Simon, Anne-Catherine and Agelou, Mathieu and Fin, Jonathan and Metzl, Nicolas and Iwankow, Guillaume and Allemand, Denis and Planes, Serge and Moulin, Clémentine and Lombard, Fabien and Bourdin, Guillaume and Troublé, Romain and Agostini, Sylvain and Banaigs, Bernard and Boissin, Emilie and Boss, Emmanuel and Bowler, Chris and de Vargas, Colomban and Flores, Michel and Forcioli, Didier and Furla, Paola and Gilson, Eric and Galand, Pierre E. and Pesant, Stéphane and Sunagawa, Shinichi and Thomas, Olivier P. and Vega Thurber, Rebecca and Voolstra, Christian R. and Wincker, Patrick and Zoccola, Didier and Reynaud, Stéphanie},\n\tmonth = jul,\n\tyear = {2023},\n\tnote = {1 citations (Semantic Scholar/DOI) [2024-02-09]\n3 citations (Crossref) [2024-02-09]\nNumber: 1\nPublisher: Nature Publishing Group},\n\tkeywords = {Climate sciences, Environmental sciences, Ocean sciences},\n\tpages = {11589},\n}\n\n\n\n With climate projections questioning the future survival of stony corals and their dominance as tropical reef builders, it is critical to understand the adaptive capacity of corals to ongoing climate change. Biological mediation of the carbonate chemistry of the coral calcifying fluid is a fundamental component for assessing the response of corals to global threats. The Tara Pacific expedition (2016–2018) provided an opportunity to investigate calcification patterns in extant corals throughout the Pacific Ocean. Cores from colonies of the massive Porites and Diploastrea genera were collected from different environments to assess calcification parameters of long-lived reef-building corals. At the basin scale of the Pacific Ocean, we show that both genera systematically up-regulate their calcifying fluid pH and dissolved inorganic carbon to achieve efficient skeletal precipitation. However, while Porites corals increase the aragonite saturation state of the calcifying fluid (Ωcf) at higher temperatures to enhance their calcification capacity, Diploastrea show a steady homeostatic Ωcf across the Pacific temperature gradient. Thus, the extent to which Diploastrea responds to ocean warming and/or acidification is unclear, and it deserves further attention whether this is beneficial or detrimental to future survival of this coral genus.\n
\n\n\n\n \n\n \n \n \n \n \n \n Diversity of the Pacific Ocean coral reef microbiome.\n \n \n \n \n\n\n \n Galand, P. E.; Ruscheweyh, H.; Salazar, G.; Hochart, C.; Henry, N.; Hume, B. C. C.; Oliveira, P. H.; Perdereau, A.; Labadie, K.; Belser, C.; Boissin, E.; Romac, S.; Poulain, J.; Bourdin, G.; Iwankow, G.; Moulin, C.; Armstrong, E. J.; Paz-García, D. A.; Ziegler, M.; Agostini, S.; Banaigs, B.; Boss, E.; Bowler, C.; de Vargas, C.; Douville, E.; Flores, M.; Forcioli, D.; Furla, P.; Gilson, E.; Lombard, F.; Pesant, S.; Reynaud, S.; Thomas, O. P.; Troublé, R.; Zoccola, D.; Voolstra, C. R.; Thurber, R. V.; Sunagawa, S.; Wincker, P.; Allemand, D.; and Planes, S.\n\n\n \n\n\n\n Nature Communications, 14(1): 3039. June 2023.\n 10 citations (Semantic Scholar/DOI) [2024-02-09] 10 citations (Crossref) [2024-02-09] Number: 1 Publisher: Nature Publishing Group\n\n\n\n
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\n\n\n@article{galand_diversity_2023,\n\ttitle = {Diversity of the {Pacific} {Ocean} coral reef microbiome},\n\tvolume = {14},\n\tcopyright = {2023 The Author(s)},\n\tissn = {2041-1723},\n\turl = {https://www.nature.com/articles/s41467-023-38500-x},\n\tdoi = {10.1038/s41467-023-38500-x},\n\tabstract = {Coral reefs are among the most diverse ecosystems on Earth. They support high biodiversity of multicellular organisms that strongly rely on associated microorganisms for health and nutrition. However, the extent of the coral reef microbiome diversity and its distribution at the oceanic basin-scale remains to be explored. Here, we systematically sampled 3 coral morphotypes, 2 fish species, and planktonic communities in 99 reefs from 32 islands across the Pacific Ocean, to assess reef microbiome composition and biogeography. We show a very large richness of reef microorganisms compared to other environments, which extrapolated to all fishes and corals of the Pacific, approximates the current estimated total prokaryotic diversity for the entire Earth. Microbial communities vary among and within the 3 animal biomes (coral, fish, plankton), and geographically. For corals, the cross-ocean patterns of diversity are different from those known for other multicellular organisms. Within each coral morphotype, community composition is always determined by geographic distance first, both at the island and across ocean scale, and then by environment. Our unprecedented sampling effort of coral reef microbiomes, as part of the Tara Pacific expedition, provides new insight into the global microbial diversity, the factors driving their distribution, and the biocomplexity of reef ecosystems.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2023-06-02},\n\tjournal = {Nature Communications},\n\tauthor = {Galand, Pierre E. and Ruscheweyh, Hans-Joachim and Salazar, Guillem and Hochart, Corentin and Henry, Nicolas and Hume, Benjamin C. C. and Oliveira, Pedro H. and Perdereau, Aude and Labadie, Karine and Belser, Caroline and Boissin, Emilie and Romac, Sarah and Poulain, Julie and Bourdin, Guillaume and Iwankow, Guillaume and Moulin, Clémentine and Armstrong, Eric J. and Paz-García, David A. and Ziegler, Maren and Agostini, Sylvain and Banaigs, Bernard and Boss, Emmanuel and Bowler, Chris and de Vargas, Colomban and Douville, Eric and Flores, Michel and Forcioli, Didier and Furla, Paola and Gilson, Eric and Lombard, Fabien and Pesant, Stéphane and Reynaud, Stéphanie and Thomas, Olivier P. and Troublé, Romain and Zoccola, Didier and Voolstra, Christian R. and Thurber, Rebecca Vega and Sunagawa, Shinichi and Wincker, Patrick and Allemand, Denis and Planes, Serge},\n\tmonth = jun,\n\tyear = {2023},\n\tnote = {10 citations (Semantic Scholar/DOI) [2024-02-09]\n10 citations (Crossref) [2024-02-09]\nNumber: 1\nPublisher: Nature Publishing Group},\n\tkeywords = {Microbial ecology, Microbiome},\n\tpages = {3039},\n}\n\n\n\n Coral reefs are among the most diverse ecosystems on Earth. They support high biodiversity of multicellular organisms that strongly rely on associated microorganisms for health and nutrition. However, the extent of the coral reef microbiome diversity and its distribution at the oceanic basin-scale remains to be explored. Here, we systematically sampled 3 coral morphotypes, 2 fish species, and planktonic communities in 99 reefs from 32 islands across the Pacific Ocean, to assess reef microbiome composition and biogeography. We show a very large richness of reef microorganisms compared to other environments, which extrapolated to all fishes and corals of the Pacific, approximates the current estimated total prokaryotic diversity for the entire Earth. Microbial communities vary among and within the 3 animal biomes (coral, fish, plankton), and geographically. For corals, the cross-ocean patterns of diversity are different from those known for other multicellular organisms. Within each coral morphotype, community composition is always determined by geographic distance first, both at the island and across ocean scale, and then by environment. Our unprecedented sampling effort of coral reef microbiomes, as part of the Tara Pacific expedition, provides new insight into the global microbial diversity, the factors driving their distribution, and the biocomplexity of reef ecosystems.\n
\n\n\n\n \n\n \n \n \n \n \n \n Seasonal coral-algae interactions drive White Mat Syndrome coral disease outbreaks.\n \n \n \n \n\n\n \n Heitzman, J. M.; Mitushasi, G.; Spatafora, D.; and Agostini, S.\n\n\n \n\n\n\n Science of The Total Environment,166379. August 2023.\n 0 citations (Semantic Scholar/DOI) [2024-02-09] 0 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{heitzman_seasonal_2023,\n\ttitle = {Seasonal coral-algae interactions drive {White} {Mat} {Syndrome} coral disease outbreaks},\n\tissn = {0048-9697},\n\turl = {https://www.sciencedirect.com/science/article/pii/S0048969723050040},\n\tdoi = {10.1016/j.scitotenv.2023.166379},\n\tabstract = {Ocean warming drives not only the increase of known coral disease prevalence but facilitates the emergence of new undescribed ones too. As climate change is restructuring coral ecosystems, novel biological interactions could lead to an increase in coral disease in both tropical and marginal coral communities. White Mat Syndrome (WMS) represents one such emerging coral disease, with outbreaks associated with high algal interactions and seasonal summer temperatures. However, the mechanisms behind its pathogenesis, modes of transmission and causative pathogens remain to be identified. Ex situ infection experiments pairing the coral Porites heronensis together with local potential contributory factors show that the macroalga Gelidium elegans hosts and proliferates the WMS microbial mat. This pathogenic consortium then infects adjacent corals, leading to their mortality. WMS was also observed to transmit following the fragmentation of the microbial mat, which was able to infect healthy corals. Sulfur-cycling bacteria (i.e., Beggiatoa, Desulfobacter sp., Arcobacteraceae species) and the free-living spirochete Oceanospirochaeta sediminicola were found consistently in both WMS and G. elegans consortia, suggesting they are putative pathogens of WMS. The predicted functional roles of these pathogenic consortia showed degradative processes, hinting that tissue lyses could drive mat formation and spread. Coral-algae interactions will rise due to ongoing ocean warming and coral ecosystem degradation, likely promoting the virulence and prevalence of algal-driven coral diseases.},\n\turldate = {2023-08-23},\n\tjournal = {Science of The Total Environment},\n\tauthor = {Heitzman, Joshua M. and Mitushasi, Guinther and Spatafora, Davide and Agostini, Sylvain},\n\tmonth = aug,\n\tyear = {2023},\n\tnote = {0 citations (Semantic Scholar/DOI) [2024-02-09]\n0 citations (Crossref) [2024-02-09]},\n\tkeywords = {Coral disease, Coral-algae interactions, Warm temperate},\n\tpages = {166379},\n}\n\n\n\n Ocean warming drives not only the increase of known coral disease prevalence but facilitates the emergence of new undescribed ones too. As climate change is restructuring coral ecosystems, novel biological interactions could lead to an increase in coral disease in both tropical and marginal coral communities. White Mat Syndrome (WMS) represents one such emerging coral disease, with outbreaks associated with high algal interactions and seasonal summer temperatures. However, the mechanisms behind its pathogenesis, modes of transmission and causative pathogens remain to be identified. Ex situ infection experiments pairing the coral Porites heronensis together with local potential contributory factors show that the macroalga Gelidium elegans hosts and proliferates the WMS microbial mat. This pathogenic consortium then infects adjacent corals, leading to their mortality. WMS was also observed to transmit following the fragmentation of the microbial mat, which was able to infect healthy corals. Sulfur-cycling bacteria (i.e., Beggiatoa, Desulfobacter sp., Arcobacteraceae species) and the free-living spirochete Oceanospirochaeta sediminicola were found consistently in both WMS and G. elegans consortia, suggesting they are putative pathogens of WMS. The predicted functional roles of these pathogenic consortia showed degradative processes, hinting that tissue lyses could drive mat formation and spread. Coral-algae interactions will rise due to ongoing ocean warming and coral ecosystem degradation, likely promoting the virulence and prevalence of algal-driven coral diseases.\n
\n\n\n\n \n\n \n \n \n \n \n \n Ecology of Endozoicomonadaceae in three coral genera across the Pacific Ocean.\n \n \n \n \n\n\n \n Hochart, C.; Paoli, L.; Ruscheweyh, H.; Salazar, G.; Boissin, E.; Romac, S.; Poulain, J.; Bourdin, G.; Iwankow, G.; Moulin, C.; Ziegler, M.; Porro, B.; Armstrong, E. J.; Hume, B. C. C.; Aury, J.; Pogoreutz, C.; Paz-García, D. A.; Nugues, M. M.; Agostini, S.; Banaigs, B.; Boss, E.; Bowler, C.; de Vargas, C.; Douville, E.; Flores, M.; Forcioli, D.; Furla, P.; Gilson, E.; Lombard, F.; Pesant, S.; Reynaud, S.; Thomas, O. P.; Troublé, R.; Wincker, P.; Zoccola, D.; Allemand, D.; Planes, S.; Thurber, R. V.; Voolstra, C. R.; Sunagawa, S.; and Galand, P. E.\n\n\n \n\n\n\n Nature Communications, 14(1): 3037. June 2023.\n 9 citations (Semantic Scholar/DOI) [2024-02-09] 11 citations (Crossref) [2024-02-09] Number: 1 Publisher: Nature Publishing Group\n\n\n\n
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\n\n\n@article{hochart_ecology_2023,\n\ttitle = {Ecology of {Endozoicomonadaceae} in three coral genera across the {Pacific} {Ocean}},\n\tvolume = {14},\n\tcopyright = {2023 The Author(s)},\n\tissn = {2041-1723},\n\turl = {https://www.nature.com/articles/s41467-023-38502-9},\n\tdoi = {10.1038/s41467-023-38502-9},\n\tabstract = {Health and resilience of the coral holobiont depend on diverse bacterial communities often dominated by key marine symbionts of the Endozoicomonadaceae family. The factors controlling their distribution and their functional diversity remain, however, poorly known. Here, we study the ecology of Endozoicomonadaceae at an ocean basin-scale by sampling specimens from three coral genera (Pocillopora, Porites, Millepora) on 99 reefs from 32 islands across the Pacific Ocean. The analysis of 2447 metabarcoding and 270 metagenomic samples reveals that each coral genus harbored a distinct new species of Endozoicomonadaceae. These species are composed of nine lineages that have distinct biogeographic patterns. The most common one, found in Pocillopora, appears to be a globally distributed symbiont with distinct metabolic capabilities, including the synthesis of amino acids and vitamins not produced by the host. The other lineages are structured partly by the host genetic lineage in Pocillopora and mainly by the geographic location in Porites. Millepora is more rarely associated to Endozoicomonadaceae. Our results show that different coral genera exhibit distinct strategies of host-Endozoicomonadaceae associations that are defined at the bacteria lineage level.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2023-06-02},\n\tjournal = {Nature Communications},\n\tauthor = {Hochart, Corentin and Paoli, Lucas and Ruscheweyh, Hans-Joachim and Salazar, Guillem and Boissin, Emilie and Romac, Sarah and Poulain, Julie and Bourdin, Guillaume and Iwankow, Guillaume and Moulin, Clémentine and Ziegler, Maren and Porro, Barbara and Armstrong, Eric J. and Hume, Benjamin C. C. and Aury, Jean-Marc and Pogoreutz, Claudia and Paz-García, David A. and Nugues, Maggy M. and Agostini, Sylvain and Banaigs, Bernard and Boss, Emmanuel and Bowler, Chris and de Vargas, Colomban and Douville, Eric and Flores, Michel and Forcioli, Didier and Furla, Paola and Gilson, Eric and Lombard, Fabien and Pesant, Stéphane and Reynaud, Stéphanie and Thomas, Olivier P. and Troublé, Romain and Wincker, Patrick and Zoccola, Didier and Allemand, Denis and Planes, Serge and Thurber, Rebecca Vega and Voolstra, Christian R. and Sunagawa, Shinichi and Galand, Pierre E.},\n\tmonth = jun,\n\tyear = {2023},\n\tnote = {9 citations (Semantic Scholar/DOI) [2024-02-09]\n11 citations (Crossref) [2024-02-09]\nNumber: 1\nPublisher: Nature Publishing Group},\n\tkeywords = {Metagenomics, Microbial ecology},\n\tpages = {3037},\n}\n\n\n\n Health and resilience of the coral holobiont depend on diverse bacterial communities often dominated by key marine symbionts of the Endozoicomonadaceae family. The factors controlling their distribution and their functional diversity remain, however, poorly known. Here, we study the ecology of Endozoicomonadaceae at an ocean basin-scale by sampling specimens from three coral genera (Pocillopora, Porites, Millepora) on 99 reefs from 32 islands across the Pacific Ocean. The analysis of 2447 metabarcoding and 270 metagenomic samples reveals that each coral genus harbored a distinct new species of Endozoicomonadaceae. These species are composed of nine lineages that have distinct biogeographic patterns. The most common one, found in Pocillopora, appears to be a globally distributed symbiont with distinct metabolic capabilities, including the synthesis of amino acids and vitamins not produced by the host. The other lineages are structured partly by the host genetic lineage in Pocillopora and mainly by the geographic location in Porites. Millepora is more rarely associated to Endozoicomonadaceae. Our results show that different coral genera exhibit distinct strategies of host-Endozoicomonadaceae associations that are defined at the bacteria lineage level.\n
\n\n\n\n \n\n \n \n \n \n \n \n Ocean acidification increases the impact of typhoons on algal communities.\n \n \n \n \n\n\n \n Hudson, C. J.; Agostini, S.; Wada, S.; Hall-Spencer, J. M.; Connell, S. D.; and Harvey, B. P.\n\n\n \n\n\n\n Science of The Total Environment, 865: 161269. March 2023.\n 0 citations (Semantic Scholar/DOI) [2024-02-09] 2 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{hudson_ocean_2023,\n\ttitle = {Ocean acidification increases the impact of typhoons on algal communities},\n\tvolume = {865},\n\tissn = {0048-9697},\n\turl = {https://www.sciencedirect.com/science/article/pii/S0048969722083735},\n\tdoi = {10.1016/j.scitotenv.2022.161269},\n\tabstract = {Long-term environmental change, sudden pulses of extreme perturbation, or a combination of both can trigger regime shifts by changing the processes and feedbacks which determine community assembly, structure, and function, altering the state of ecosystems. Our understanding of the mechanisms that stabilise against regime shifts or lock communities into altered states is limited, yet also critical to anticipating future states, preventing regime shifts, and reversing unwanted state change. Ocean acidification contributes to the restructuring and simplification of algal systems, however the mechanisms through which this occurs and whether additional drivers are involved requires further study. Using monthly surveys over three years at a shallow-water volcanic seep we examined how the composition of algal communities change seasonally and following periods of significant physical disturbance by typhoons at three levels of ocean acidification (equivalent to means of contemporary ∼350 and future ∼500 and 900 μatm pCO2). Sites exposed to acidification were increasingly monopolised by structurally simple, fast-growing turf algae, and were clearly different to structurally complex macrophyte-dominated reference sites. The distinct contemporary and acidified community states were stabilised and maintained at their respective sites by different mechanisms following seasonal typhoon disturbance. Macroalgal-dominated sites were resistant to typhoon damage. In contrast, significant losses of algal biomass represented a near total ecosystem reset by typhoons for the turf-dominated communities at the elevated pCO2 sites (i.e. negligible resistance). A combination of disturbance and subsequent turf recovery maintained the same simplified state between years (elevated CO2 levels promote turf growth following algal removal, inhibiting macroalgal recruitment). Thus, ocean acidification may promote shifts in algal systems towards degraded ecosystem states, and short-term disturbances which reset successional trajectories may ‘lock-in’ these alternative states of low structural and functional diversity.},\n\tlanguage = {en},\n\turldate = {2023-01-10},\n\tjournal = {Science of The Total Environment},\n\tauthor = {Hudson, Callum J. and Agostini, Sylvain and Wada, Shigeki and Hall-Spencer, Jason M. and Connell, Sean D. and Harvey, Ben P.},\n\tmonth = mar,\n\tyear = {2023},\n\tnote = {0 citations (Semantic Scholar/DOI) [2024-02-09]\n2 citations (Crossref) [2024-02-09]},\n\tkeywords = {CO seeps, Community dynamics, Competition, Ecosystem function, Global change ecology, Inhibition, Recovery, Regime shift, Resistance, Stability, Turf algae},\n\tpages = {161269},\n}\n\n\n\n Long-term environmental change, sudden pulses of extreme perturbation, or a combination of both can trigger regime shifts by changing the processes and feedbacks which determine community assembly, structure, and function, altering the state of ecosystems. Our understanding of the mechanisms that stabilise against regime shifts or lock communities into altered states is limited, yet also critical to anticipating future states, preventing regime shifts, and reversing unwanted state change. Ocean acidification contributes to the restructuring and simplification of algal systems, however the mechanisms through which this occurs and whether additional drivers are involved requires further study. Using monthly surveys over three years at a shallow-water volcanic seep we examined how the composition of algal communities change seasonally and following periods of significant physical disturbance by typhoons at three levels of ocean acidification (equivalent to means of contemporary ∼350 and future ∼500 and 900 μatm pCO2). Sites exposed to acidification were increasingly monopolised by structurally simple, fast-growing turf algae, and were clearly different to structurally complex macrophyte-dominated reference sites. The distinct contemporary and acidified community states were stabilised and maintained at their respective sites by different mechanisms following seasonal typhoon disturbance. Macroalgal-dominated sites were resistant to typhoon damage. In contrast, significant losses of algal biomass represented a near total ecosystem reset by typhoons for the turf-dominated communities at the elevated pCO2 sites (i.e. negligible resistance). A combination of disturbance and subsequent turf recovery maintained the same simplified state between years (elevated CO2 levels promote turf growth following algal removal, inhibiting macroalgal recruitment). Thus, ocean acidification may promote shifts in algal systems towards degraded ecosystem states, and short-term disturbances which reset successional trajectories may ‘lock-in’ these alternative states of low structural and functional diversity.\n
\n\n\n\n \n\n \n \n \n \n \n \n Open science resources from the Tara Pacific expedition across coral reef and surface ocean ecosystems.\n \n \n \n \n\n\n \n Lombard, F.; Bourdin, G.; Pesant, S.; Agostini, S.; Baudena, A.; Boissin, E.; Cassar, N.; Clampitt, M.; Conan, P.; Da Silva, O.; Dimier, C.; Douville, E.; Elineau, A.; Fin, J.; Flores, J. M.; Ghiglione, J.; Hume, B. C. C.; Jalabert, L.; John, S. G.; Kelly, R. L.; Koren, I.; Lin, Y.; Marie, D.; McMinds, R.; Mériguet, Z.; Metzl, N.; Paz-García, D. A.; Pedrotti, M. L.; Poulain, J.; Pujo-Pay, M.; Ras, J.; Reverdin, G.; Romac, S.; Rouan, A.; Röttinger, E.; Vardi, A.; Voolstra, C. R.; Moulin, C.; Iwankow, G.; Banaigs, B.; Bowler, C.; de Vargas, C.; Forcioli, D.; Furla, P.; Galand, P. E.; Gilson, E.; Reynaud, S.; Sunagawa, S.; Sullivan, M. B.; Thomas, O. P.; Troublé, R.; Thurber, R. V.; Wincker, P.; Zoccola, D.; Allemand, D.; Planes, S.; Boss, E.; and Gorsky, G.\n\n\n \n\n\n\n Scientific Data, 10(1): 324. June 2023.\n 17 citations (Semantic Scholar/DOI) [2024-02-09] 8 citations (Crossref) [2024-02-09] Number: 1 Publisher: Nature Publishing Group\n\n\n\n
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\n\n\n@article{lombard_open_2023,\n\ttitle = {Open science resources from the {Tara} {Pacific} expedition across coral reef and surface ocean ecosystems},\n\tvolume = {10},\n\tcopyright = {2022 The Author(s)},\n\tissn = {2052-4463},\n\turl = {https://www.nature.com/articles/s41597-022-01757-w},\n\tdoi = {10.1038/s41597-022-01757-w},\n\tabstract = {The Tara Pacific expedition (2016–2018) sampled coral ecosystems around 32 islands in the Pacific Ocean and the ocean surface waters at 249 locations, resulting in the collection of nearly 58 000 samples. The expedition was designed to systematically study warm-water coral reefs and included the collection of corals, fish, plankton, and seawater samples for advanced biogeochemical, molecular, and imaging analysis. Here we provide a complete description of the sampling methodology, and we explain how to explore and access the different datasets generated by the expedition. Environmental context data were obtained from taxonomic registries, gazetteers, almanacs, climatologies, operational biogeochemical models, and satellite observations. The quality of the different environmental measures has been validated not only by various quality control steps, but also through a global analysis allowing the comparison with known environmental large-scale structures. Such publicly released datasets open the perspective to address a wide range of scientific questions.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2023-06-02},\n\tjournal = {Scientific Data},\n\tauthor = {Lombard, Fabien and Bourdin, Guillaume and Pesant, Stéphane and Agostini, Sylvain and Baudena, Alberto and Boissin, Emilie and Cassar, Nicolas and Clampitt, Megan and Conan, Pascal and Da Silva, Ophélie and Dimier, Céline and Douville, Eric and Elineau, Amanda and Fin, Jonathan and Flores, J. Michel and Ghiglione, Jean-François and Hume, Benjamin C. C. and Jalabert, Laetitia and John, Seth G. and Kelly, Rachel L. and Koren, Ilan and Lin, Yajuan and Marie, Dominique and McMinds, Ryan and Mériguet, Zoé and Metzl, Nicolas and Paz-García, David A. and Pedrotti, Maria Luiza and Poulain, Julie and Pujo-Pay, Mireille and Ras, Joséphine and Reverdin, Gilles and Romac, Sarah and Rouan, Alice and Röttinger, Eric and Vardi, Assaf and Voolstra, Christian R. and Moulin, Clémentine and Iwankow, Guillaume and Banaigs, Bernard and Bowler, Chris and de Vargas, Colomban and Forcioli, Didier and Furla, Paola and Galand, Pierre E. and Gilson, Eric and Reynaud, Stéphanie and Sunagawa, Shinichi and Sullivan, Matthew B. and Thomas, Olivier P. and Troublé, Romain and Thurber, Rebecca Vega and Wincker, Patrick and Zoccola, Didier and Allemand, Denis and Planes, Serge and Boss, Emmanuel and Gorsky, Gaby},\n\tmonth = jun,\n\tyear = {2023},\n\tnote = {17 citations (Semantic Scholar/DOI) [2024-02-09]\n8 citations (Crossref) [2024-02-09]\nNumber: 1\nPublisher: Nature Publishing Group},\n\tkeywords = {Biodiversity, Ecosystem ecology},\n\tpages = {324},\n}\n\n\n\n The Tara Pacific expedition (2016–2018) sampled coral ecosystems around 32 islands in the Pacific Ocean and the ocean surface waters at 249 locations, resulting in the collection of nearly 58 000 samples. The expedition was designed to systematically study warm-water coral reefs and included the collection of corals, fish, plankton, and seawater samples for advanced biogeochemical, molecular, and imaging analysis. Here we provide a complete description of the sampling methodology, and we explain how to explore and access the different datasets generated by the expedition. Environmental context data were obtained from taxonomic registries, gazetteers, almanacs, climatologies, operational biogeochemical models, and satellite observations. The quality of the different environmental measures has been validated not only by various quality control steps, but also through a global analysis allowing the comparison with known environmental large-scale structures. Such publicly released datasets open the perspective to address a wide range of scientific questions.\n
\n\n\n\n \n\n \n \n \n \n \n \n Pervasive tandem duplications and convergent evolution shape coral genomes.\n \n \n \n \n\n\n \n Noel, B.; Denoeud, F.; Rouan, A.; Buitrago-López, C.; Capasso, L.; Poulain, J.; Boissin, E.; Pousse, M.; Da Silva, C.; Couloux, A.; Armstrong, E.; Carradec, Q.; Cruaud, C.; Labadie, K.; Lê-Hoang, J.; Tambutté, S.; Barbe, V.; Moulin, C.; Bourdin, G.; Iwankow, G.; Romac, S.; Agostini, S.; Banaigs, B.; Boss, E.; Bowler, C.; de Vargas, C.; Douville, E.; Flores, J. M.; Forcioli, D.; Furla, P.; Galand, P. E.; Lombard, F.; Pesant, S.; Reynaud, S.; Sullivan, M. B.; Sunagawa, S.; Thomas, O. P.; Troublé, R.; Thurber, R. V.; Allemand, D.; Planes, S.; Gilson, E.; Zoccola, D.; Wincker, P.; Voolstra, C. R.; and Aury, J.\n\n\n \n\n\n\n Genome Biology, 24(1): 123. June 2023.\n 9 citations (Semantic Scholar/DOI) [2024-02-09] 4 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{noel_pervasive_2023,\n\ttitle = {Pervasive tandem duplications and convergent evolution shape coral genomes},\n\tvolume = {24},\n\tissn = {1474-760X},\n\turl = {https://doi.org/10.1186/s13059-023-02960-7},\n\tdoi = {10.1186/s13059-023-02960-7},\n\tabstract = {Over the last decade, several coral genomes have been sequenced allowing a better understanding of these symbiotic organisms threatened by climate change. Scleractinian corals are reef builders and are central to coral reef ecosystems, providing habitat to a great diversity of species.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2023-06-02},\n\tjournal = {Genome Biology},\n\tauthor = {Noel, Benjamin and Denoeud, France and Rouan, Alice and Buitrago-López, Carol and Capasso, Laura and Poulain, Julie and Boissin, Emilie and Pousse, Mélanie and Da Silva, Corinne and Couloux, Arnaud and Armstrong, Eric and Carradec, Quentin and Cruaud, Corinne and Labadie, Karine and Lê-Hoang, Julie and Tambutté, Sylvie and Barbe, Valérie and Moulin, Clémentine and Bourdin, Guillaume and Iwankow, Guillaume and Romac, Sarah and Agostini, Sylvain and Banaigs, Bernard and Boss, Emmanuel and Bowler, Chris and de Vargas, Colomban and Douville, Eric and Flores, J. Michel and Forcioli, Didier and Furla, Paola and Galand, Pierre E. and Lombard, Fabien and Pesant, Stéphane and Reynaud, Stéphanie and Sullivan, Matthew B. and Sunagawa, Shinichi and Thomas, Olivier P. and Troublé, Romain and Thurber, Rebecca Vega and Allemand, Denis and Planes, Serge and Gilson, Eric and Zoccola, Didier and Wincker, Patrick and Voolstra, Christian R. and Aury, Jean-Marc},\n\tmonth = jun,\n\tyear = {2023},\n\tnote = {9 citations (Semantic Scholar/DOI) [2024-02-09]\n4 citations (Crossref) [2024-02-09]},\n\tpages = {123},\n}\n\n\n\n Over the last decade, several coral genomes have been sequenced allowing a better understanding of these symbiotic organisms threatened by climate change. Scleractinian corals are reef builders and are central to coral reef ecosystems, providing habitat to a great diversity of species.\n
\n\n\n\n \n\n \n \n \n \n \n \n Multi-omics determination of metabolome diversity in natural coral populations in the Pacific Ocean.\n \n \n \n \n\n\n \n Reddy, M. M.; Goossens, C.; Zhou, Y.; Chaib, S.; Raviglione, D.; Nicolè, F.; Hume, B. C. C.; Forcioli, D.; Agostini, S.; Boissin, E.; Boss, E.; Bowler, C.; de Vargas, C.; Douville, E.; Flores, M.; Furla, P.; Galand, P. E.; Gilson, E.; Lombard, F.; Pesant, S.; Reynaud, S.; Sullivan, M. B.; Sunagawa, S.; Troublé, R.; Thurber, R. V.; Wincker, P.; Zoccola, D.; Voolstra, C. R.; Allemand, D.; Planes, S.; Thomas, O. P.; and Banaigs, B.\n\n\n \n\n\n\n Communications Earth & Environment, 4(1): 1–10. August 2023.\n 0 citations (Semantic Scholar/DOI) [2024-02-09] 0 citations (Crossref) [2024-02-09] Number: 1 Publisher: Nature Publishing Group\n\n\n\n
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\n\n\n@article{reddy_multi-omics_2023,\n\ttitle = {Multi-omics determination of metabolome diversity in natural coral populations in the {Pacific} {Ocean}},\n\tvolume = {4},\n\tcopyright = {2023 Springer Nature Limited},\n\tissn = {2662-4435},\n\turl = {https://www.nature.com/articles/s43247-023-00942-y},\n\tdoi = {10.1038/s43247-023-00942-y},\n\tabstract = {Coral reefs are considered one of the most emblematic ecosystems in our oceans, but their existence is increasingly threatened by climate change. In this study, natural populations of two reef-building coral genera, Pocillopora spp. and Porites spp., and one hydrocoral Millepora cf. platyphylla from two different marine provinces in the Pacific Ocean were investigated using a multi-omics approach as part of the Tara Pacific expedition. Here, we propose a standardised method consisting of a biphasic extraction method followed by metabolomics analysis using mass spectrometry for the lipidome and 1H nuclear magnetic resonance for hydrophilic metabolites. Our study assessed a broad range of the metabolome and is the first to identify and add 24 compounds by NMR and over 200 lipids by MS analyses for corals. Metabolic profiles were distinct among genera but not within genotypes of the cnidarian corals. Although endosymbiotic dinoflagellates of the family Symbiodiniaceae are known to play a central role in the metabolomic signature of the coral holobiont, they did not account for all differences. This suggests that a combined effect by different members of the coral holobiont and an interaction with the environment might be at play. Our study provides foundational knowledge on the coral holobiont metabolome.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2023-08-23},\n\tjournal = {Communications Earth \\& Environment},\n\tauthor = {Reddy, Maggie M. and Goossens, Corentine and Zhou, Yuxiang and Chaib, Slimane and Raviglione, Delphine and Nicolè, Florence and Hume, Benjamin C. C. and Forcioli, Didier and Agostini, Sylvain and Boissin, Emilie and Boss, Emmanuel and Bowler, Chris and de Vargas, Colomban and Douville, Eric and Flores, Michel and Furla, Paola and Galand, Pierre E. and Gilson, Eric and Lombard, Fabien and Pesant, Stéphane and Reynaud, Stéphanie and Sullivan, Matthew B. and Sunagawa, Shinichi and Troublé, Romain and Thurber, Rebecca Vega and Wincker, Patrick and Zoccola, Didier and Voolstra, Christian R. and Allemand, Denis and Planes, Serge and Thomas, Olivier P. and Banaigs, Bernard},\n\tmonth = aug,\n\tyear = {2023},\n\tnote = {0 citations (Semantic Scholar/DOI) [2024-02-09]\n0 citations (Crossref) [2024-02-09]\nNumber: 1\nPublisher: Nature Publishing Group},\n\tkeywords = {Marine biology, Marine chemistry},\n\tpages = {1--10},\n}\n\n\n\n Coral reefs are considered one of the most emblematic ecosystems in our oceans, but their existence is increasingly threatened by climate change. In this study, natural populations of two reef-building coral genera, Pocillopora spp. and Porites spp., and one hydrocoral Millepora cf. platyphylla from two different marine provinces in the Pacific Ocean were investigated using a multi-omics approach as part of the Tara Pacific expedition. Here, we propose a standardised method consisting of a biphasic extraction method followed by metabolomics analysis using mass spectrometry for the lipidome and 1H nuclear magnetic resonance for hydrophilic metabolites. Our study assessed a broad range of the metabolome and is the first to identify and add 24 compounds by NMR and over 200 lipids by MS analyses for corals. Metabolic profiles were distinct among genera but not within genotypes of the cnidarian corals. Although endosymbiotic dinoflagellates of the family Symbiodiniaceae are known to play a central role in the metabolomic signature of the coral holobiont, they did not account for all differences. This suggests that a combined effect by different members of the coral holobiont and an interaction with the environment might be at play. Our study provides foundational knowledge on the coral holobiont metabolome.\n
\n\n\n\n \n\n \n \n \n \n \n \n High abundances of zooxanthellate zoantharians (Palythoa and Zoanthus) at multiple natural analogues: potential model anthozoans?.\n \n \n \n \n\n\n \n Reimer, J. D.; Agostini, S.; Golbuu, Y.; Harvey, B. P.; Izumiyama, M.; Jamodiong, E. A.; Kawai, E.; Kayanne, H.; Kurihara, H.; Ravasi, T.; Wada, S.; and Rodolfo-Metalpa, R.\n\n\n \n\n\n\n Coral Reefs, 42(3): 707–715. June 2023.\n 0 citations (Semantic Scholar/DOI) [2024-02-09] 0 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{reimer_high_2023,\n\ttitle = {High abundances of zooxanthellate zoantharians ({Palythoa} and {Zoanthus}) at multiple natural analogues: potential model anthozoans?},\n\tvolume = {42},\n\tissn = {1432-0975},\n\tshorttitle = {High abundances of zooxanthellate zoantharians ({Palythoa} and {Zoanthus}) at multiple natural analogues},\n\turl = {https://doi.org/10.1007/s00338-023-02381-9},\n\tdoi = {10.1007/s00338-023-02381-9},\n\tabstract = {Whilst natural analogues for future ocean conditions such as CO2 seeps and enclosed lagoons in coral reef regions have received much recent research attention, most efforts in such locations have focused on the effects of prolonged high CO2 levels on scleractinian corals and fishes. Here, we demonstrate that the three species of zooxanthellate zoantharians, hexacorallian non-calcifying “cousins” of scleractinians, are common across five coral reef natural analogue sites with high CO2 levels in the western Pacific Ocean, in Japan (n = 2), Palau, Papua New Guinea, and New Caledonia (n = 1 each). These current observations support previously reported cases of high Palythoa and Zoanthus abundance and dominance on various impacted coral reefs worldwide. The results demonstrate the need for more research on the ecological roles of zooxanthellate zoantharians in coral reef systems, as well as examining other “understudied” taxa that may become increasingly important in the near future under climate change scenarios. Given their abundance in these sites combined with ease in sampling and non-CITES status, some zoantharian species should make excellent hexacoral models for examining potential resilience or resistance mechanisms of anthozoans to future high pCO2 conditions.},\n\tlanguage = {en},\n\tnumber = {3},\n\turldate = {2023-05-24},\n\tjournal = {Coral Reefs},\n\tauthor = {Reimer, James Davis and Agostini, Sylvain and Golbuu, Yimnang and Harvey, Ben P. and Izumiyama, Michael and Jamodiong, Emmeline A. and Kawai, Erina and Kayanne, Hajime and Kurihara, Haruko and Ravasi, Timothy and Wada, Shigeki and Rodolfo-Metalpa, Riccardo},\n\tmonth = jun,\n\tyear = {2023},\n\tnote = {0 citations (Semantic Scholar/DOI) [2024-02-09]\n0 citations (Crossref) [2024-02-09]},\n\tkeywords = {CO2 seeps, Ocean acidification, Palythoa, Semi-enclosed bays, Zoanthus},\n\tpages = {707--715},\n}\n\n\n\n Whilst natural analogues for future ocean conditions such as CO2 seeps and enclosed lagoons in coral reef regions have received much recent research attention, most efforts in such locations have focused on the effects of prolonged high CO2 levels on scleractinian corals and fishes. Here, we demonstrate that the three species of zooxanthellate zoantharians, hexacorallian non-calcifying “cousins” of scleractinians, are common across five coral reef natural analogue sites with high CO2 levels in the western Pacific Ocean, in Japan (n = 2), Palau, Papua New Guinea, and New Caledonia (n = 1 each). These current observations support previously reported cases of high Palythoa and Zoanthus abundance and dominance on various impacted coral reefs worldwide. The results demonstrate the need for more research on the ecological roles of zooxanthellate zoantharians in coral reef systems, as well as examining other “understudied” taxa that may become increasingly important in the near future under climate change scenarios. Given their abundance in these sites combined with ease in sampling and non-CITES status, some zoantharian species should make excellent hexacoral models for examining potential resilience or resistance mechanisms of anthozoans to future high pCO2 conditions.\n
\n\n\n\n \n\n \n \n \n \n \n \n Telomere DNA length regulation is influenced by seasonal temperature differences in short-lived but not in long-lived reef-building corals.\n \n \n \n \n\n\n \n Rouan, A.; Pousse, M.; Djerbi, N.; Porro, B.; Bourdin, G.; Carradec, Q.; Hume, B. C.; Poulain, J.; Lê-Hoang, J.; Armstrong, E.; Agostini, S.; Salazar, G.; Ruscheweyh, H.; Aury, J.; Paz-García, D. A.; McMinds, R.; Giraud-Panis, M.; Deshuraud, R.; Ottaviani, A.; Morini, L. D.; Leone, C.; Wurzer, L.; Tran, J.; Zoccola, D.; Pey, A.; Moulin, C.; Boissin, E.; Iwankow, G.; Romac, S.; de Vargas, C.; Banaigs, B.; Boss, E.; Bowler, C.; Douville, E.; Flores, M.; Reynaud, S.; Thomas, O. P.; Troublé, R.; Thurber, R. V.; Planes, S.; Allemand, D.; Pesant, S.; Galand, P. E.; Wincker, P.; Sunagawa, S.; Röttinger, E.; Furla, P.; Voolstra, C. R.; Forcioli, D.; Lombard, F.; and Gilson, E.\n\n\n \n\n\n\n Nature Communications, 14(1): 3038. June 2023.\n 3 citations (Semantic Scholar/DOI) [2024-02-09] 2 citations (Crossref) [2024-02-09] Number: 1 Publisher: Nature Publishing Group\n\n\n\n
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\n\n\n@article{rouan_telomere_2023,\n\ttitle = {Telomere {DNA} length regulation is influenced by seasonal temperature differences in short-lived but not in long-lived reef-building corals},\n\tvolume = {14},\n\tcopyright = {2023 The Author(s)},\n\tissn = {2041-1723},\n\turl = {https://www.nature.com/articles/s41467-023-38499-1},\n\tdoi = {10.1038/s41467-023-38499-1},\n\tabstract = {Telomeres are environment-sensitive regulators of health and aging. Here,we present telomere DNA length analysis of two reef-building coral genera revealing that the long- and short-term water thermal regime is a key driver of between-colony variation across the Pacific Ocean. Notably, there are differences between the two studied genera. The telomere DNA lengths of the short-lived, more stress-sensitive Pocillopora spp. colonies were largely determined by seasonal temperature variation, whereas those of the long-lived, more stress-resistant Porites spp. colonies were insensitive to seasonal patterns, but rather influenced by past thermal anomalies. These results reveal marked differences in telomere DNA length regulation between two evolutionary distant coral genera exhibiting specific life-history traits. We propose that environmentally regulated mechanisms of telomere maintenance are linked to organismal performances, a matter of paramount importance considering the effects of climate change on health.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2023-06-02},\n\tjournal = {Nature Communications},\n\tauthor = {Rouan, Alice and Pousse, Melanie and Djerbi, Nadir and Porro, Barbara and Bourdin, Guillaume and Carradec, Quentin and Hume, Benjamin CC and Poulain, Julie and Lê-Hoang, Julie and Armstrong, Eric and Agostini, Sylvain and Salazar, Guillem and Ruscheweyh, Hans-Joachim and Aury, Jean-Marc and Paz-García, David A. and McMinds, Ryan and Giraud-Panis, Marie-Josèphe and Deshuraud, Romane and Ottaviani, Alexandre and Morini, Lycia Die and Leone, Camille and Wurzer, Lia and Tran, Jessica and Zoccola, Didier and Pey, Alexis and Moulin, Clémentine and Boissin, Emilie and Iwankow, Guillaume and Romac, Sarah and de Vargas, Colomban and Banaigs, Bernard and Boss, Emmanuel and Bowler, Chris and Douville, Eric and Flores, Michel and Reynaud, Stéphanie and Thomas, Olivier P. and Troublé, Romain and Thurber, Rebecca Vega and Planes, Serge and Allemand, Denis and Pesant, Stephane and Galand, Pierre E. and Wincker, Patrick and Sunagawa, Shinichi and Röttinger, Eric and Furla, Paola and Voolstra, Christian R. and Forcioli, Didier and Lombard, Fabien and Gilson, Eric},\n\tmonth = jun,\n\tyear = {2023},\n\tnote = {3 citations (Semantic Scholar/DOI) [2024-02-09]\n2 citations (Crossref) [2024-02-09]\nNumber: 1\nPublisher: Nature Publishing Group},\n\tkeywords = {Cell biology, Ecology, Evolution},\n\tpages = {3038},\n}\n\n\n\n Telomeres are environment-sensitive regulators of health and aging. Here,we present telomere DNA length analysis of two reef-building coral genera revealing that the long- and short-term water thermal regime is a key driver of between-colony variation across the Pacific Ocean. Notably, there are differences between the two studied genera. The telomere DNA lengths of the short-lived, more stress-sensitive Pocillopora spp. colonies were largely determined by seasonal temperature variation, whereas those of the long-lived, more stress-resistant Porites spp. colonies were insensitive to seasonal patterns, but rather influenced by past thermal anomalies. These results reveal marked differences in telomere DNA length regulation between two evolutionary distant coral genera exhibiting specific life-history traits. We propose that environmentally regulated mechanisms of telomere maintenance are linked to organismal performances, a matter of paramount importance considering the effects of climate change on health.\n
\n\n\n\n \n\n \n \n \n \n \n \n Potential ecosystem regime shift resulting from elevated CO2 and inhibition of macroalgal recruitment by turf algae.\n \n \n \n \n\n\n \n Seto, M.; Harvey, B. P.; Wada, S.; and Agostini, S.\n\n\n \n\n\n\n Theoretical Ecology. January 2023.\n 0 citations (Semantic Scholar/DOI) [2024-02-09] 0 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{seto_potential_2023,\n\ttitle = {Potential ecosystem regime shift resulting from elevated {CO2} and inhibition of macroalgal recruitment by turf algae},\n\tissn = {1874-1746},\n\turl = {https://doi.org/10.1007/s12080-022-00550-0},\n\tdoi = {10.1007/s12080-022-00550-0},\n\tabstract = {Rising carbon dioxide (CO2) concentrations are predicted to cause an undesirable transition from macroalgae-dominant to turf algae-dominant ecosystems due to its effect on community structuring processes. As turf algae are more likely to proliferate due to the CO2 fertilization effect than macroalgae and often inhibit macroalgal recruitment, increased CO2 beyond certain levels may produce novel positive feedback loops that promote turf algae growth and thus can stabilize turf algae-dominant ecosystems. In this study, we built a simple competition model between macroalgae and turf algae in a homogeneous space to investigate the steady-state response of the ecosystem to changes in the partial pressure of CO2 (pCO2). We found that discontinuous regime shifts in response to pCO2 change can occur once turf algae coverage reaches a critical level capable of inhibiting macroalgal recruitment. The effect of localized turf algae density on the success rate of macroalgae recruitment was also investigated using a patch model that simulated a two-dimensional heterogeneous space. This suggested that in addition to the inhibitory effect by turf algae, a self-enhancing effect by macroalgae could also be important in predicting the potential discontinuous regime shifts in response to future pCO2 changes.},\n\tlanguage = {en},\n\turldate = {2023-01-10},\n\tjournal = {Theoretical Ecology},\n\tauthor = {Seto, Mayumi and Harvey, Ben P. and Wada, Shigeki and Agostini, Sylvain},\n\tmonth = jan,\n\tyear = {2023},\n\tnote = {0 citations (Semantic Scholar/DOI) [2024-02-09]\n0 citations (Crossref) [2024-02-09]},\n\tkeywords = {Macroalgae, Ocean acidification, Population dynamics, Regime shift, Turf algae},\n}\n\n\n\n Rising carbon dioxide (CO2) concentrations are predicted to cause an undesirable transition from macroalgae-dominant to turf algae-dominant ecosystems due to its effect on community structuring processes. As turf algae are more likely to proliferate due to the CO2 fertilization effect than macroalgae and often inhibit macroalgal recruitment, increased CO2 beyond certain levels may produce novel positive feedback loops that promote turf algae growth and thus can stabilize turf algae-dominant ecosystems. In this study, we built a simple competition model between macroalgae and turf algae in a homogeneous space to investigate the steady-state response of the ecosystem to changes in the partial pressure of CO2 (pCO2). We found that discontinuous regime shifts in response to pCO2 change can occur once turf algae coverage reaches a critical level capable of inhibiting macroalgal recruitment. The effect of localized turf algae density on the success rate of macroalgae recruitment was also investigated using a patch model that simulated a two-dimensional heterogeneous space. This suggested that in addition to the inhibitory effect by turf algae, a self-enhancing effect by macroalgae could also be important in predicting the potential discontinuous regime shifts in response to future pCO2 changes.\n
\n\n\n\n \n\n \n \n \n \n \n \n Endogenous viral elements reveal associations between a non-retroviral RNA virus and symbiotic dinoflagellate genomes.\n \n \n \n \n\n\n \n Veglia, A. J.; Bistolas, K. S. I.; Voolstra, C. R.; Hume, B. C. C.; Ruscheweyh, H.; Planes, S.; Allemand, D.; Boissin, E.; Wincker, P.; Poulain, J.; Moulin, C.; Bourdin, G.; Iwankow, G.; Romac, S.; Agostini, S.; Banaigs, B.; Boss, E.; Bowler, C.; de Vargas, C.; Douville, E.; Flores, M.; Forcioli, D.; Furla, P.; Galand, P. E.; Gilson, E.; Lombard, F.; Pesant, S.; Reynaud, S.; Sunagawa, S.; Thomas, O. P.; Troublé, R.; Zoccola, D.; Correa, A. M. S.; and Vega Thurber, R. L.\n\n\n \n\n\n\n Communications Biology, 6(1): 1–13. June 2023.\n 6 citations (Semantic Scholar/DOI) [2024-02-09] 5 citations (Crossref) [2024-02-09] Number: 1 Publisher: Nature Publishing Group\n\n\n\n
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\n\n\n@article{veglia_endogenous_2023,\n\ttitle = {Endogenous viral elements reveal associations between a non-retroviral {RNA} virus and symbiotic dinoflagellate genomes},\n\tvolume = {6},\n\tcopyright = {2023 The Author(s)},\n\tissn = {2399-3642},\n\turl = {https://www.nature.com/articles/s42003-023-04917-9},\n\tdoi = {10.1038/s42003-023-04917-9},\n\tabstract = {Endogenous viral elements (EVEs) offer insight into the evolutionary histories and hosts of contemporary viruses. This study leveraged DNA metagenomics and genomics to detect and infer the host of a non-retroviral dinoflagellate-infecting +ssRNA virus (dinoRNAV) common in coral reefs. As part of the Tara Pacific Expedition, this study surveyed 269 newly sequenced cnidarians and their resident symbiotic dinoflagellates (Symbiodiniaceae), associated metabarcodes, and publicly available metagenomes, revealing 178 dinoRNAV EVEs, predominantly among hydrocoral-dinoflagellate metagenomes. Putative associations between Symbiodiniaceae and dinoRNAV EVEs were corroborated by the characterization of dinoRNAV-like sequences in 17 of 18 scaffold-scale and one chromosome-scale dinoflagellate genome assembly, flanked by characteristically cellular sequences and in proximity to retroelements, suggesting potential mechanisms of integration. EVEs were not detected in dinoflagellate-free (aposymbiotic) cnidarian genome assemblies, including stony corals, hydrocorals, jellyfish, or seawater. The pervasive nature of dinoRNAV EVEs within dinoflagellate genomes (especially Symbiodinium), as well as their inconsistent within-genome distribution and fragmented nature, suggest ancestral or recurrent integration of this virus with variable conservation. Broadly, these findings illustrate how +ssRNA viruses may obscure their genomes as members of nested symbioses, with implications for host evolution, exaptation, and immunity in the context of reef health and disease.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2023-06-02},\n\tjournal = {Communications Biology},\n\tauthor = {Veglia, Alex J. and Bistolas, Kalia S. I. and Voolstra, Christian R. and Hume, Benjamin C. C. and Ruscheweyh, Hans-Joachim and Planes, Serge and Allemand, Denis and Boissin, Emilie and Wincker, Patrick and Poulain, Julie and Moulin, Clémentine and Bourdin, Guillaume and Iwankow, Guillaume and Romac, Sarah and Agostini, Sylvain and Banaigs, Bernard and Boss, Emmanuel and Bowler, Chris and de Vargas, Colomban and Douville, Eric and Flores, Michel and Forcioli, Didier and Furla, Paola and Galand, Pierre E. and Gilson, Eric and Lombard, Fabien and Pesant, Stéphane and Reynaud, Stéphanie and Sunagawa, Shinichi and Thomas, Olivier P. and Troublé, Romain and Zoccola, Didier and Correa, Adrienne M. S. and Vega Thurber, Rebecca L.},\n\tmonth = jun,\n\tyear = {2023},\n\tnote = {6 citations (Semantic Scholar/DOI) [2024-02-09]\n5 citations (Crossref) [2024-02-09]\nNumber: 1\nPublisher: Nature Publishing Group},\n\tkeywords = {Microbial ecology, Virology, Water microbiology},\n\tpages = {1--13},\n}\n\n\n\n Endogenous viral elements (EVEs) offer insight into the evolutionary histories and hosts of contemporary viruses. This study leveraged DNA metagenomics and genomics to detect and infer the host of a non-retroviral dinoflagellate-infecting +ssRNA virus (dinoRNAV) common in coral reefs. As part of the Tara Pacific Expedition, this study surveyed 269 newly sequenced cnidarians and their resident symbiotic dinoflagellates (Symbiodiniaceae), associated metabarcodes, and publicly available metagenomes, revealing 178 dinoRNAV EVEs, predominantly among hydrocoral-dinoflagellate metagenomes. Putative associations between Symbiodiniaceae and dinoRNAV EVEs were corroborated by the characterization of dinoRNAV-like sequences in 17 of 18 scaffold-scale and one chromosome-scale dinoflagellate genome assembly, flanked by characteristically cellular sequences and in proximity to retroelements, suggesting potential mechanisms of integration. EVEs were not detected in dinoflagellate-free (aposymbiotic) cnidarian genome assemblies, including stony corals, hydrocorals, jellyfish, or seawater. The pervasive nature of dinoRNAV EVEs within dinoflagellate genomes (especially Symbiodinium), as well as their inconsistent within-genome distribution and fragmented nature, suggest ancestral or recurrent integration of this virus with variable conservation. Broadly, these findings illustrate how +ssRNA viruses may obscure their genomes as members of nested symbioses, with implications for host evolution, exaptation, and immunity in the context of reef health and disease.\n
\n\n\n\n \n\n \n \n \n \n \n \n Disparate genetic divergence patterns in three corals across a pan-Pacific environmental gradient highlight species-specific adaptation.\n \n \n \n \n\n\n \n Voolstra, C. R.; Hume, B. C. C.; Armstrong, E. J.; Mitushasi, G.; Porro, B.; Oury, N.; Agostini, S.; Boissin, E.; Poulain, J.; Carradec, Q.; Paz-García, D. A.; Zoccola, D.; Magalon, H.; Moulin, C.; Bourdin, G.; Iwankow, G.; Romac, S.; Banaigs, B.; Boss, E.; Bowler, C.; de Vargas, C.; Douville, E.; Flores, M.; Furla, P.; Galand, P. E.; Gilson, E.; Lombard, F.; Pesant, S.; Reynaud, S.; Sullivan, M. B.; Sunagawa, S.; Thomas, O. P.; Troublé, R.; Thurber, R. V.; Wincker, P.; Planes, S.; Allemand, D.; and Forcioli, D.\n\n\n \n\n\n\n npj Biodiversity, 2(1): 1–16. July 2023.\n 5 citations (Semantic Scholar/DOI) [2024-02-09] 4 citations (Crossref) [2024-02-09] Number: 1 Publisher: Nature Publishing Group\n\n\n\n
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\n\n\n@article{voolstra_disparate_2023,\n\ttitle = {Disparate genetic divergence patterns in three corals across a pan-{Pacific} environmental gradient highlight species-specific adaptation},\n\tvolume = {2},\n\tcopyright = {2023 The Author(s)},\n\tissn = {2731-4243},\n\turl = {https://www.nature.com/articles/s44185-023-00020-8},\n\tdoi = {10.1038/s44185-023-00020-8},\n\tabstract = {Tropical coral reefs are among the most affected ecosystems by climate change and face increasing loss in the coming decades. Effective conservation strategies that maximize ecosystem resilience must be informed by the accurate characterization of extant genetic diversity and population structure together with an understanding of the adaptive potential of keystone species. Here we analyzed samples from the Tara Pacific Expedition (2016–2018) that completed an 18,000 km longitudinal transect of the Pacific Ocean sampling three widespread corals—Pocillopora meandrina, Porites lobata, and Millepora cf. platyphylla—across 33 sites from 11 islands. Using deep metagenomic sequencing of 269 colonies in conjunction with morphological analyses and climate variability data, we can show that despite a targeted sampling the transect encompasses multiple cryptic species. These species exhibit disparate biogeographic patterns and, most importantly, distinct evolutionary patterns in identical environmental regimes. Our findings demonstrate on a basin scale that evolutionary trajectories are species-specific and can only in part be predicted from the environment. This highlights that conservation strategies must integrate multi-species investigations to discern the distinct genomic footprints shaped by selection as well as the genetic potential for adaptive change.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2023-07-10},\n\tjournal = {npj Biodiversity},\n\tauthor = {Voolstra, Christian R. and Hume, Benjamin C. C. and Armstrong, Eric J. and Mitushasi, Guinther and Porro, Barbara and Oury, Nicolas and Agostini, Sylvain and Boissin, Emilie and Poulain, Julie and Carradec, Quentin and Paz-García, David A. and Zoccola, Didier and Magalon, Hélène and Moulin, Clémentine and Bourdin, Guillaume and Iwankow, Guillaume and Romac, Sarah and Banaigs, Bernard and Boss, Emmanuel and Bowler, Chris and de Vargas, Colomban and Douville, Eric and Flores, Michel and Furla, Paola and Galand, Pierre E. and Gilson, Eric and Lombard, Fabien and Pesant, Stéphane and Reynaud, Stéphanie and Sullivan, Matthew B. and Sunagawa, Shinichi and Thomas, Olivier P. and Troublé, Romain and Thurber, Rebecca Vega and Wincker, Patrick and Planes, Serge and Allemand, Denis and Forcioli, Didier},\n\tmonth = jul,\n\tyear = {2023},\n\tnote = {5 citations (Semantic Scholar/DOI) [2024-02-09]\n4 citations (Crossref) [2024-02-09]\nNumber: 1\nPublisher: Nature Publishing Group},\n\tkeywords = {Conservation biology, Ecological genetics, Evolutionary genetics, Genetic variation, Population genetics},\n\tpages = {1--16},\n}\n\n\n\n Tropical coral reefs are among the most affected ecosystems by climate change and face increasing loss in the coming decades. Effective conservation strategies that maximize ecosystem resilience must be informed by the accurate characterization of extant genetic diversity and population structure together with an understanding of the adaptive potential of keystone species. Here we analyzed samples from the Tara Pacific Expedition (2016–2018) that completed an 18,000 km longitudinal transect of the Pacific Ocean sampling three widespread corals—Pocillopora meandrina, Porites lobata, and Millepora cf. platyphylla—across 33 sites from 11 islands. Using deep metagenomic sequencing of 269 colonies in conjunction with morphological analyses and climate variability data, we can show that despite a targeted sampling the transect encompasses multiple cryptic species. These species exhibit disparate biogeographic patterns and, most importantly, distinct evolutionary patterns in identical environmental regimes. Our findings demonstrate on a basin scale that evolutionary trajectories are species-specific and can only in part be predicted from the environment. This highlights that conservation strategies must integrate multi-species investigations to discern the distinct genomic footprints shaped by selection as well as the genetic potential for adaptive change.\n
\n\n\n\n \n\n \n \n \n \n \n \n Ocean acidification stunts molluscan growth at CO2 seeps.\n \n \n \n \n\n\n \n Zhao, L.; Harvey, B. P.; Higuchi, T.; Agostini, S.; Tanaka, K.; Murakami-Sugihara, N.; Morgan, H.; Baker, P.; Hall-Spencer, J. M.; and Shirai, K.\n\n\n \n\n\n\n Science of The Total Environment, 873: 162293. May 2023.\n 3 citations (Semantic Scholar/DOI) [2024-02-09] 3 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n\n@article{zhao_ocean_2023,\n\ttitle = {Ocean acidification stunts molluscan growth at {CO2} seeps},\n\tvolume = {873},\n\tissn = {00489697},\n\turl = {https://linkinghub.elsevier.com/retrieve/pii/S0048969723009099},\n\tdoi = {10.1016/j.scitotenv.2023.162293},\n\tlanguage = {en},\n\turldate = {2023-03-03},\n\tjournal = {Science of The Total Environment},\n\tauthor = {Zhao, Liqiang and Harvey, Ben P. and Higuchi, Tomihiko and Agostini, Sylvain and Tanaka, Kentaro and Murakami-Sugihara, Naoko and Morgan, Holly and Baker, Phoebe and Hall-Spencer, Jason M. and Shirai, Kotaro},\n\tmonth = may,\n\tyear = {2023},\n\tnote = {3 citations (Semantic Scholar/DOI) [2024-02-09]\n3 citations (Crossref) [2024-02-09]},\n\tpages = {162293},\n}\n\n\n\n
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\n \n \n\n \n \n \n \n \n \n Decreased Diversity and Abundance of Marine Invertebrates at CO2 Seeps in Warm-Temperate Japan.\n \n \n \n \n\n\n \n Hall-Spencer, J. M.; Belfiore, G.; Tomatsuri, M.; Porzio, L.; Harvey, B. P.; Agostini, S.; and Kon, K.\n\n\n \n\n\n\n Zoological Science, 39(1): 41–51. January 2022.\n 6 citations (Semantic Scholar/DOI) [2024-02-09] 5 citations (Crossref) [2024-02-09] Publisher: Zoological Society of Japan\n\n\n\n
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\n\n\n@article{hall-spencer_decreased_2022,\n\ttitle = {Decreased {Diversity} and {Abundance} of {Marine} {Invertebrates} at {CO2} {Seeps} in {Warm}-{Temperate} {Japan}},\n\tvolume = {39},\n\tissn = {0289-0003},\n\turl = {https://bioone.org/journals/zoological-science/volume-39/issue-1/zs210061/Decreased-Diversity-and-Abundance-of-Marine-Invertebrates-at-CO2-Seeps/10.2108/zs210061.full},\n\tdoi = {10.2108/zs210061},\n\tabstract = {Japan has many coastal carbon dioxide seeps as it is one of the most volcanically active parts of the world. These shallow seeps do not have the spectacular aggregations of specialist fauna seen in deep-sea vent systems but they do have gradients in seawater carbonate chemistry that are useful as natural analogues of the effects of ocean acidification on marine biodiversity, ecosystem function and fisheries. Here, we compare macroinvertebrate diversity and abundance on rocky habitats at ambient (mean ≤ 410 µatm) and high (mean 971–1484 µatm) levels of seawater pCO2 in the warm-temperate region of Japan, avoiding areas with toxic sulphur or warm-water conditions. We show that although 70\\% of intertidal taxa and 40\\% of shallow subtidal taxa were able to tolerate the high CO2 conditions, there was a marked reduction in the abundance of corals, bivalves and gastropods in acidified conditions. A narrower range of filter feeders, grazers, detritivores, scavengers and carnivores were present at high CO2 resulting in a simplified coastal system that was unable to retain the high standing stocks of marine carbon biomass found in ambient conditions. It is clear that cuts in CO2 emissions would reduce the risks of climate change and ocean acidification impacts on marine biodiversity, shellfish production and biomass in the rocky coastal shores of this region.},\n\tnumber = {1},\n\turldate = {2022-11-01},\n\tjournal = {Zoological Science},\n\tauthor = {Hall-Spencer, Jason M. and Belfiore, Giuseppe and Tomatsuri, Morihiko and Porzio, Lucia and Harvey, Ben P. and Agostini, Sylvain and Kon, Koetsu},\n\tmonth = jan,\n\tyear = {2022},\n\tnote = {6 citations (Semantic Scholar/DOI) [2024-02-09]\n5 citations (Crossref) [2024-02-09]\nPublisher: Zoological Society of Japan},\n\tpages = {41--51},\n}\n\n\n\n Japan has many coastal carbon dioxide seeps as it is one of the most volcanically active parts of the world. These shallow seeps do not have the spectacular aggregations of specialist fauna seen in deep-sea vent systems but they do have gradients in seawater carbonate chemistry that are useful as natural analogues of the effects of ocean acidification on marine biodiversity, ecosystem function and fisheries. Here, we compare macroinvertebrate diversity and abundance on rocky habitats at ambient (mean ≤ 410 µatm) and high (mean 971–1484 µatm) levels of seawater pCO2 in the warm-temperate region of Japan, avoiding areas with toxic sulphur or warm-water conditions. We show that although 70% of intertidal taxa and 40% of shallow subtidal taxa were able to tolerate the high CO2 conditions, there was a marked reduction in the abundance of corals, bivalves and gastropods in acidified conditions. A narrower range of filter feeders, grazers, detritivores, scavengers and carnivores were present at high CO2 resulting in a simplified coastal system that was unable to retain the high standing stocks of marine carbon biomass found in ambient conditions. It is clear that cuts in CO2 emissions would reduce the risks of climate change and ocean acidification impacts on marine biodiversity, shellfish production and biomass in the rocky coastal shores of this region.\n
\n\n\n\n \n\n \n \n \n \n \n \n Recurrent disease outbreak in a warm temperate marginal coral community.\n \n \n \n \n\n\n \n Heitzman, J. M.; Caputo, N.; Yang, S.; Harvey, B. P.; and Agostini, S.\n\n\n \n\n\n\n Marine Pollution Bulletin, 182: 113954. September 2022.\n 2 citations (Semantic Scholar/DOI) [2024-02-09] 0 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{heitzman_recurrent_2022,\n\ttitle = {Recurrent disease outbreak in a warm temperate marginal coral community},\n\tvolume = {182},\n\tissn = {0025-326X},\n\turl = {https://www.sciencedirect.com/science/article/pii/S0025326X22006361},\n\tdoi = {10.1016/j.marpolbul.2022.113954},\n\tabstract = {Coral diseases contribute to the rapid degradation of coral reefs on a global scale. Although widespread in tropical and subtropical reefs, disease outbreaks have not been described in warm temperate areas. Here, we report the outbreak of a new coral disease in a warm temperate marginal coral community in Japan. Outbreaks of the disease have been observed during the summer and autumn months since 2014. It affects the coral species Porites heronensis and was tentatively named “White Mat Syndrome” (WMS) as it consists of a white microbial mat dominated by Thiothrix sp., a sulfide oxidizing bacteria. Outbreaks followed high seasonal temperatures and were associated with the macroalga Gelidium elegans, which acts as a pathogen reservoir. With ocean warming and the anticipated increase in novel coral-algae interactions as some coral species shift poleward, WMS and emerging diseases could hinder the role of temperate areas as a future coral refuge.},\n\tlanguage = {en},\n\turldate = {2022-08-01},\n\tjournal = {Marine Pollution Bulletin},\n\tauthor = {Heitzman, Joshua M. and Caputo, Nicolè and Yang, Sung-Yin and Harvey, Ben P. and Agostini, Sylvain},\n\tmonth = sep,\n\tyear = {2022},\n\tnote = {2 citations (Semantic Scholar/DOI) [2024-02-09]\n0 citations (Crossref) [2024-02-09]},\n\tkeywords = {Coral disease, Marginal coral communities, Warm temperate, sp.},\n\tpages = {113954},\n}\n\n\n\n Coral diseases contribute to the rapid degradation of coral reefs on a global scale. Although widespread in tropical and subtropical reefs, disease outbreaks have not been described in warm temperate areas. Here, we report the outbreak of a new coral disease in a warm temperate marginal coral community in Japan. Outbreaks of the disease have been observed during the summer and autumn months since 2014. It affects the coral species Porites heronensis and was tentatively named “White Mat Syndrome” (WMS) as it consists of a white microbial mat dominated by Thiothrix sp., a sulfide oxidizing bacteria. Outbreaks followed high seasonal temperatures and were associated with the macroalga Gelidium elegans, which acts as a pathogen reservoir. With ocean warming and the anticipated increase in novel coral-algae interactions as some coral species shift poleward, WMS and emerging diseases could hinder the role of temperate areas as a future coral refuge.\n
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\n \n \n\n \n \n \n \n \n \n Simplification, not “tropicalization”, of temperate marine ecosystems under ocean warming and acidification.\n \n \n \n \n\n\n \n Agostini, S.; Harvey, B. P.; Milazzo, M.; Wada, S.; Kon, K.; Floc’h, N.; Komatsu, K.; Kuroyama, M.; and Hall‐Spencer, J. M.\n\n\n \n\n\n\n Global Change Biology,gcb.15749. July 2021.\n 19 citations (Semantic Scholar/DOI) [2024-02-09] 23 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n\n@article{agostini_simplification_2021,\n\ttitle = {Simplification, not “tropicalization”, of temperate marine ecosystems under ocean warming and acidification},\n\tissn = {1354-1013, 1365-2486},\n\turl = {https://onlinelibrary.wiley.com/doi/10.1111/gcb.15749},\n\tdoi = {10.1111/gcb.15749},\n\tlanguage = {en},\n\turldate = {2021-08-16},\n\tjournal = {Global Change Biology},\n\tauthor = {Agostini, Sylvain and Harvey, Ben P. and Milazzo, Marco and Wada, Shigeki and Kon, Koetsu and Floc’h, Nicolas and Komatsu, Kosei and Kuroyama, Mayumi and Hall‐Spencer, Jason M.},\n\tmonth = jul,\n\tyear = {2021},\n\tnote = {19 citations (Semantic Scholar/DOI) [2024-02-09]\n23 citations (Crossref) [2024-02-09]},\n\tkeywords = {biogeography, climate change, kelp forests, natural analogues, range shift, scleractinian corals, warm-temperate},\n\tpages = {gcb.15749},\n}\n\n\n\n \n\n \n \n \n \n \n \n Species turnover underpins the effect of elevated CO2 on biofilm communities through early succession.\n \n \n \n \n\n\n \n Allen, R. J.; Summerfield, T. C.; Harvey, B. P.; Agostini, S.; Rastrick, S. P. S.; Hall-Spencer, J. M.; and Hoffmann, L. J.\n\n\n \n\n\n\n Climate Change Ecology, 2: 100017. December 2021.\n 1 citations (Semantic Scholar/DOI) [2024-02-09] 1 citations (Crossref) [2024-02-09]\n\n\n\n
\n\n\n\n \n \nPaper\n \n \n\n \n \n doi\n \n \n\n \n link\n \n \n\n bibtex\n \n\n \n \n \n abstract \n \n\n \n \n \n 1 download\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n\n\n\n
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\n\n\n@article{allen_species_2021,\n\ttitle = {Species turnover underpins the effect of elevated {CO2} on biofilm communities through early succession},\n\tvolume = {2},\n\tissn = {2666-9005},\n\turl = {https://www.sciencedirect.com/science/article/pii/S2666900521000174},\n\tdoi = {10.1016/j.ecochg.2021.100017},\n\tabstract = {Biofilms harbour a wealth of microbial diversity and fulfil key functions in coastal marine ecosystems. Elevated carbon dioxide (CO2) conditions affect the structure and function of biofilm communities, yet the ecological patterns that underpin these effects remain unknown. We used high-throughput sequencing of the 16S and 18S rRNA genes to investigate the effect of elevated CO2 on the early successional stages of prokaryotic and eukaryotic biofilms at a CO2 seep system off Shikine Island, Japan. Elevated CO2 profoundly affected biofilm community composition throughout the early stages of succession, leading to greater compositional homogeneity between replicates and the proliferation of the potentially harmful algae Prymnesium sp. and Biddulphia biddulphiana. Species turnover was the main driver of differences between communities in reference and high CO2 conditions, rather than differences in richness or evenness. Our study indicates that species turnover is the primary ecological pattern that underpins the effect of elevated CO2 on both prokaryotic and eukaryotic components of biofilm communities, indicating that elevated CO2 conditions represent a distinct niche selecting for a distinct cohort of organisms without the loss of species richness.},\n\tlanguage = {en},\n\turldate = {2022-07-23},\n\tjournal = {Climate Change Ecology},\n\tauthor = {Allen, Ro J. and Summerfield, Tina C. and Harvey, Ben P. and Agostini, Sylvain and Rastrick, Samuel P. S. and Hall-Spencer, Jason M. and Hoffmann, Linn J.},\n\tmonth = dec,\n\tyear = {2021},\n\tnote = {1 citations (Semantic Scholar/DOI) [2024-02-09]\n1 citations (Crossref) [2024-02-09]},\n\tkeywords = {Biofilm, CO seeps, Harmful algae, Microbial ecology, Ocean acidification, Succession},\n\tpages = {100017},\n}\n\n\n\n Biofilms harbour a wealth of microbial diversity and fulfil key functions in coastal marine ecosystems. Elevated carbon dioxide (CO2) conditions affect the structure and function of biofilm communities, yet the ecological patterns that underpin these effects remain unknown. We used high-throughput sequencing of the 16S and 18S rRNA genes to investigate the effect of elevated CO2 on the early successional stages of prokaryotic and eukaryotic biofilms at a CO2 seep system off Shikine Island, Japan. Elevated CO2 profoundly affected biofilm community composition throughout the early stages of succession, leading to greater compositional homogeneity between replicates and the proliferation of the potentially harmful algae Prymnesium sp. and Biddulphia biddulphiana. Species turnover was the main driver of differences between communities in reference and high CO2 conditions, rather than differences in richness or evenness. Our study indicates that species turnover is the primary ecological pattern that underpins the effect of elevated CO2 on both prokaryotic and eukaryotic components of biofilm communities, indicating that elevated CO2 conditions represent a distinct niche selecting for a distinct cohort of organisms without the loss of species richness.\n
\n\n\n\n \n\n \n \n \n \n \n \n Major loss of coralline algal diversity in response to ocean acidification.\n \n \n \n \n\n\n \n Peña, V.; Harvey, B. P.; Agostini, S.; Porzio, L.; Milazzo, M.; Horta, P.; Le Gall, L.; and Hall‐Spencer, J. M.\n\n\n \n\n\n\n Global Change Biology, 27(19): 4785–4798. October 2021.\n 22 citations (Semantic Scholar/DOI) [2024-02-09] 22 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n\n@article{pena_major_2021,\n\ttitle = {Major loss of coralline algal diversity in response to ocean acidification},\n\tvolume = {27},\n\tissn = {1354-1013, 1365-2486},\n\turl = {https://onlinelibrary.wiley.com/doi/10.1111/gcb.15757},\n\tdoi = {10.1111/gcb.15757},\n\tlanguage = {en},\n\tnumber = {19},\n\turldate = {2021-09-13},\n\tjournal = {Global Change Biology},\n\tauthor = {Peña, Viviana and Harvey, Ben P. and Agostini, Sylvain and Porzio, Lucia and Milazzo, Marco and Horta, Paulo and Le Gall, Line and Hall‐Spencer, Jason M.},\n\tmonth = oct,\n\tyear = {2021},\n\tnote = {22 citations (Semantic Scholar/DOI) [2024-02-09]\n22 citations (Crossref) [2024-02-09]},\n\tkeywords = {adaptation, biodiversity, climate change, ecosystem engineers, evolutionary history, macroalgae, psbA, seaweeds},\n\tpages = {4785--4798},\n}\n\n\n\n \n\n \n \n \n \n \n \n Feedback mechanisms stabilise degraded turf algal systems at a CO2 seep site.\n \n \n \n \n\n\n \n Harvey, B. P.; Allen, R.; Agostini, S.; Hoffmann, L. J.; Kon, K.; Summerfield, T. C.; Wada, S.; and Hall-Spencer, J. M.\n\n\n \n\n\n\n Communications Biology, 4(1): 219. December 2021.\n 0 citations (Semantic Scholar/DOI) [2024-02-09] 11 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{harvey_feedback_2021,\n\ttitle = {Feedback mechanisms stabilise degraded turf algal systems at a {CO2} seep site},\n\tvolume = {4},\n\tissn = {2399-3642},\n\turl = {http://www.nature.com/articles/s42003-021-01712-2},\n\tdoi = {10.1038/s42003-021-01712-2},\n\tabstract = {Abstract\n Human activities are rapidly changing the structure and function of coastal marine ecosystems. Large-scale replacement of kelp forests and coral reefs with turf algal mats is resulting in homogenous habitats that have less ecological and human value. Ocean acidification has strong potential to substantially favour turf algae growth, which led us to examine the mechanisms that stabilise turf algal states. Here we show that ocean acidification promotes turf algae over corals and macroalgae, mediating new habitat conditions that create stabilising feedback loops (altered physicochemical environment and microbial community, and an inhibition of recruitment) capable of locking turf systems in place. Such feedbacks help explain why degraded coastal habitats persist after being initially pushed past the tipping point by global and local anthropogenic stressors. An understanding of the mechanisms that stabilise degraded coastal habitats can be incorporated into adaptive management to better protect the contribution of coastal systems to human wellbeing.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2021-03-04},\n\tjournal = {Communications Biology},\n\tauthor = {Harvey, Ben P. and Allen, Ro and Agostini, Sylvain and Hoffmann, Linn J. and Kon, Koetsu and Summerfield, Tina C. and Wada, Shigeki and Hall-Spencer, Jason M.},\n\tmonth = dec,\n\tyear = {2021},\n\tnote = {0 citations (Semantic Scholar/DOI) [2024-02-09]\n11 citations (Crossref) [2024-02-09]},\n\tpages = {219},\n}\n\n\n\n Abstract Human activities are rapidly changing the structure and function of coastal marine ecosystems. Large-scale replacement of kelp forests and coral reefs with turf algal mats is resulting in homogenous habitats that have less ecological and human value. Ocean acidification has strong potential to substantially favour turf algae growth, which led us to examine the mechanisms that stabilise turf algal states. Here we show that ocean acidification promotes turf algae over corals and macroalgae, mediating new habitat conditions that create stabilising feedback loops (altered physicochemical environment and microbial community, and an inhibition of recruitment) capable of locking turf systems in place. Such feedbacks help explain why degraded coastal habitats persist after being initially pushed past the tipping point by global and local anthropogenic stressors. An understanding of the mechanisms that stabilise degraded coastal habitats can be incorporated into adaptive management to better protect the contribution of coastal systems to human wellbeing.\n
\n\n\n\n \n\n \n \n \n \n \n \n Ocean acidification locks algal communities in a species‐poor early successional stage.\n \n \n \n \n\n\n \n Harvey, B. P.; Kon, K.; Agostini, S.; Wada, S.; and Hall‐Spencer, J. M.\n\n\n \n\n\n\n Global Change Biology, 27(10): 2174–2187. May 2021.\n \n\n\n\n
\n\n\n\n \n \nPaper\n \n \n\n \n \n doi\n \n \n\n \n link\n \n \n\n bibtex\n \n\n \n\n \n \n \n 69 downloads\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n\n\n\n
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\n\n\n\n@article{harvey_ocean_2021,\n\ttitle = {Ocean acidification locks algal communities in a species‐poor early successional stage},\n\tvolume = {27},\n\tissn = {1354-1013, 1365-2486},\n\turl = {https://onlinelibrary.wiley.com/doi/10.1111/gcb.15455},\n\tdoi = {10.1111/gcb.15455},\n\tlanguage = {en},\n\tnumber = {10},\n\turldate = {2021-08-18},\n\tjournal = {Global Change Biology},\n\tauthor = {Harvey, Ben P. and Kon, Koetsu and Agostini, Sylvain and Wada, Shigeki and Hall‐Spencer, Jason M.},\n\tmonth = may,\n\tyear = {2021},\n\tkeywords = {CO2 seeps, community dynamics, competition, ecosystem function, global change ecology, inhibition, turf algae},\n\tpages = {2174--2187},\n}\n\n\n\n \n\n \n \n \n \n \n \n Greater Mitochondrial Energy Production Provides Resistance to Ocean Acidification in “Winning” Hermatypic Corals.\n \n \n \n \n\n\n \n Agostini, S.; Houlbrèque, F.; Biscéré, T.; Harvey, B. P.; Heitzman, J. M.; Takimoto, R.; Yamazaki, W.; Milazzo, M.; and Rodolfo-Metalpa, R.\n\n\n \n\n\n\n Frontiers in Marine Science, 7: 600836. January 2021.\n 6 citations (Semantic Scholar/DOI) [2024-02-09] 8 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{agostini_greater_2021,\n\ttitle = {Greater {Mitochondrial} {Energy} {Production} {Provides} {Resistance} to {Ocean} {Acidification} in “{Winning}” {Hermatypic} {Corals}},\n\tvolume = {7},\n\tissn = {2296-7745},\n\turl = {https://www.frontiersin.org/articles/10.3389/fmars.2020.600836/full},\n\tdoi = {10.3389/fmars.2020.600836},\n\tabstract = {Coral communities around the world are projected to be negatively affected by ocean acidification. Not all coral species will respond in the same manner to rising CO\n 2\n levels. Evidence from naturally acidified areas such as CO\n 2\n seeps have shown that although a few species are resistant to elevated CO\n 2\n , most lack sufficient resistance resulting in their decline. This has led to the simple grouping of coral species into “winners” and “losers,” but the physiological traits supporting this ecological assessment are yet to be fully understood. Here using CO\n 2\n seeps, in two biogeographically distinct regions, we investigated whether physiological traits related to energy production [mitochondrial electron transport systems (ETSAs) activities] and biomass (protein contents) differed between winning and losing species in order to identify possible physiological traits of resistance to ocean acidification and whether they can be acquired during short-term transplantations. We show that winning species had a lower biomass (protein contents per coral surface area) resulting in a higher potential for energy production (biomass specific ETSA: ETSA per protein contents) compared to losing species. We hypothesize that winning species inherently allocate more energy toward inorganic growth (calcification) compared to somatic (tissue) growth. In contrast, we found that losing species that show a higher biomass under reference\n p\n CO\n 2\n experienced a loss in biomass and variable response in area-specific ETSA that did not translate in an increase in biomass-specific ETSA following either short-term (4–5 months) or even life-long acclimation to elevated\n p\n CO\n 2\n conditions. Our results suggest that resistance to ocean acidification in corals may not be acquired within a single generation or through the selection of physiologically resistant individuals. This reinforces current evidence suggesting that ocean acidification will reshape coral communities around the world, selecting species that have an inherent resistance to elevated\n p\n CO\n 2\n .},\n\turldate = {2022-11-01},\n\tjournal = {Frontiers in Marine Science},\n\tauthor = {Agostini, Sylvain and Houlbrèque, Fanny and Biscéré, Tom and Harvey, Ben P. and Heitzman, Joshua M. and Takimoto, Risa and Yamazaki, Wataru and Milazzo, Marco and Rodolfo-Metalpa, Riccardo},\n\tmonth = jan,\n\tyear = {2021},\n\tnote = {6 citations (Semantic Scholar/DOI) [2024-02-09]\n8 citations (Crossref) [2024-02-09]},\n\tkeywords = {Hermatypic corals, Mitochondrial electron transport activity, Resistance, biomass, ocean acidfication},\n\tpages = {600836},\n}\n\n\n\n Coral communities around the world are projected to be negatively affected by ocean acidification. Not all coral species will respond in the same manner to rising CO 2 levels. Evidence from naturally acidified areas such as CO 2 seeps have shown that although a few species are resistant to elevated CO 2 , most lack sufficient resistance resulting in their decline. This has led to the simple grouping of coral species into “winners” and “losers,” but the physiological traits supporting this ecological assessment are yet to be fully understood. Here using CO 2 seeps, in two biogeographically distinct regions, we investigated whether physiological traits related to energy production [mitochondrial electron transport systems (ETSAs) activities] and biomass (protein contents) differed between winning and losing species in order to identify possible physiological traits of resistance to ocean acidification and whether they can be acquired during short-term transplantations. We show that winning species had a lower biomass (protein contents per coral surface area) resulting in a higher potential for energy production (biomass specific ETSA: ETSA per protein contents) compared to losing species. We hypothesize that winning species inherently allocate more energy toward inorganic growth (calcification) compared to somatic (tissue) growth. In contrast, we found that losing species that show a higher biomass under reference p CO 2 experienced a loss in biomass and variable response in area-specific ETSA that did not translate in an increase in biomass-specific ETSA following either short-term (4–5 months) or even life-long acclimation to elevated p CO 2 conditions. Our results suggest that resistance to ocean acidification in corals may not be acquired within a single generation or through the selection of physiologically resistant individuals. This reinforces current evidence suggesting that ocean acidification will reshape coral communities around the world, selecting species that have an inherent resistance to elevated p CO 2 .\n
\n\n\n\n \n\n \n \n \n \n \n \n Ocean acidification increases phytobenthic carbon fixation and export in a warm-temperate system.\n \n \n \n \n\n\n \n Wada, S.; Agostini, S.; Harvey, B. P.; Omori, Y.; and Hall-Spencer, J. M.\n\n\n \n\n\n\n Estuarine, Coastal and Shelf Science, 250: 107113. March 2021.\n 5 citations (Semantic Scholar/DOI) [2024-02-09] 7 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{wada_ocean_2021,\n\ttitle = {Ocean acidification increases phytobenthic carbon fixation and export in a warm-temperate system},\n\tvolume = {250},\n\tissn = {0272-7714},\n\turl = {http://www.sciencedirect.com/science/article/pii/S0272771420308441},\n\tdoi = {10.1016/j.ecss.2020.107113},\n\tabstract = {The response of photosynthetic organisms to rising CO2 levels is a key topic in ocean acidification research. Most of the work in this field has focused on physiological responses in laboratory conditions which lack ecological realism. Studies using seeps as natural analogues for ocean acidification have demonstrated shifts in algal community composition, but the effect of CO2 on carbon fixation and export remains unclear. Here, we deployed artificial substrata in a warm-temperate region of Japan to collect algal communities using a CO2 seep off Shikine Island. Diatoms became dominant on settlement substrata in areas with elevated CO2 levels, whereas macroalgae dominated at present-day levels of CO2 (reference site). This was supported by pigment composition; fucoxanthin content, characteristic of diatoms, was higher at the high CO2 site, while more Chlorophyll b, which is characteristic of Chlorophyta, was found in the reference site. Algal communities that recruited in water with high levels of CO2 had elevated rates of photosynthesis. Algal biomass was similar on all settlement panels, regardless of CO2 concentration. Much of the carbon that was fixed by algae in the high CO2 conditions was exported, likely due to detachment from the substratum. Diatoms that dominated under high CO2 conditions are more easily transported away as they have no holdfast, whereas newly settled macroalgae became firmly attached at present-day levels of CO2. These results show that ocean acidification may fundamentally alter coastal carbon cycling, increasing photosynthesis and carbon export from coastal ecosystems in warm-temperate biogeographic regions due to a shift in community composition from perennial to ephemeral algae.},\n\tlanguage = {en},\n\turldate = {2020-12-13},\n\tjournal = {Estuarine, Coastal and Shelf Science},\n\tauthor = {Wada, Shigeki and Agostini, Sylvain and Harvey, Ben P. and Omori, Yuko and Hall-Spencer, Jason M.},\n\tmonth = mar,\n\tyear = {2021},\n\tnote = {5 citations (Semantic Scholar/DOI) [2024-02-09]\n7 citations (Crossref) [2024-02-09]},\n\tkeywords = {CO seep, Carbon cycle, Diatoms, Macroalgae, Marine productivity},\n\tpages = {107113},\n}\n\n\n\n The response of photosynthetic organisms to rising CO2 levels is a key topic in ocean acidification research. Most of the work in this field has focused on physiological responses in laboratory conditions which lack ecological realism. Studies using seeps as natural analogues for ocean acidification have demonstrated shifts in algal community composition, but the effect of CO2 on carbon fixation and export remains unclear. Here, we deployed artificial substrata in a warm-temperate region of Japan to collect algal communities using a CO2 seep off Shikine Island. Diatoms became dominant on settlement substrata in areas with elevated CO2 levels, whereas macroalgae dominated at present-day levels of CO2 (reference site). This was supported by pigment composition; fucoxanthin content, characteristic of diatoms, was higher at the high CO2 site, while more Chlorophyll b, which is characteristic of Chlorophyta, was found in the reference site. Algal communities that recruited in water with high levels of CO2 had elevated rates of photosynthesis. Algal biomass was similar on all settlement panels, regardless of CO2 concentration. Much of the carbon that was fixed by algae in the high CO2 conditions was exported, likely due to detachment from the substratum. Diatoms that dominated under high CO2 conditions are more easily transported away as they have no holdfast, whereas newly settled macroalgae became firmly attached at present-day levels of CO2. These results show that ocean acidification may fundamentally alter coastal carbon cycling, increasing photosynthesis and carbon export from coastal ecosystems in warm-temperate biogeographic regions due to a shift in community composition from perennial to ephemeral algae.\n
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\n \n \n\n \n \n \n \n \n \n Changes in fish communities due to benthic habitat shifts under ocean acidification conditions.\n \n \n \n \n\n\n \n Cattano, C.; Agostini, S.; Harvey, B. P.; Wada, S.; Quattrocchi, F.; Turco, G.; Inaba, K.; Hall-Spencer, J. M.; and Milazzo, M.\n\n\n \n\n\n\n Science of The Total Environment, 725: 138501. July 2020.\n 26 citations (Semantic Scholar/DOI) [2024-02-09] 28 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{cattano_changes_2020,\n\ttitle = {Changes in fish communities due to benthic habitat shifts under ocean acidification conditions},\n\tvolume = {725},\n\tcopyright = {All rights reserved},\n\tissn = {0048-9697},\n\turl = {http://www.sciencedirect.com/science/article/pii/S0048969720320143},\n\tdoi = {10.1016/j.scitotenv.2020.138501},\n\tabstract = {Ocean acidification will likely change the structure and function of coastal marine ecosystems over coming decades. Volcanic carbon dioxide seeps generate dissolved CO2 and pH gradients that provide realistic insights into the direction and magnitude of these changes. Here, we used fish and benthic community surveys to assess the spatio-temporal dynamics of fish community properties off CO2 seeps in Japan. Adding to previous evidence from ocean acidification ecosystem studies conducted elsewhere, our findings documented shifts from calcified to non-calcified habitats with reduced benthic complexity. In addition, we found that such habitat transition led to decreased diversity of associated fish and to selection of those fish species better adapted to simplified ecosystems dominated by algae. Our data suggest that near-future projected ocean acidification levels will oppose the ongoing range expansion of coral reef-associated fish due to global warming.},\n\tlanguage = {en},\n\turldate = {2020-04-23},\n\tjournal = {Science of The Total Environment},\n\tauthor = {Cattano, Carlo and Agostini, Sylvain and Harvey, Ben P. and Wada, Shigeki and Quattrocchi, Federico and Turco, Gabriele and Inaba, Kazuo and Hall-Spencer, Jason M. and Milazzo, Marco},\n\tmonth = jul,\n\tyear = {2020},\n\tnote = {26 citations (Semantic Scholar/DOI) [2024-02-09]\n28 citations (Crossref) [2024-02-09]},\n\tkeywords = {Biogenic habitat complexity, Carbon dioxide, Reef-associated fish, Scleractinian coral cover},\n\tpages = {138501},\n}\n\n\n\n Ocean acidification will likely change the structure and function of coastal marine ecosystems over coming decades. Volcanic carbon dioxide seeps generate dissolved CO2 and pH gradients that provide realistic insights into the direction and magnitude of these changes. Here, we used fish and benthic community surveys to assess the spatio-temporal dynamics of fish community properties off CO2 seeps in Japan. Adding to previous evidence from ocean acidification ecosystem studies conducted elsewhere, our findings documented shifts from calcified to non-calcified habitats with reduced benthic complexity. In addition, we found that such habitat transition led to decreased diversity of associated fish and to selection of those fish species better adapted to simplified ecosystems dominated by algae. Our data suggest that near-future projected ocean acidification levels will oppose the ongoing range expansion of coral reef-associated fish due to global warming.\n
\n\n\n\n \n\n \n \n \n \n \n \n Tara Pacific Expedition’s Atmospheric Measurements of Marine Aerosols across the Atlantic and Pacific Oceans: Overview and Preliminary Results.\n \n \n \n \n\n\n \n Flores, J. M.; Bourdin, G.; Altaratz, O.; Trainic, M.; Lang-Yona, N.; Dzimban, E.; Steinau, S.; Tettich, F.; Planes, S.; Allemand, D.; Agostini, S.; Banaigs, B.; Boissin, E.; Boss, E.; Douville, E.; Forcioli, D.; Furla, P.; Galand, P. E.; Sullivan, M. B.; Gilson, É; Lombard, F.; Moulin, C.; Pesant, S.; Poulain, J.; Reynaud, S.; Romac, S.; Sunagawa, S.; Thomas, O. P.; Troublé, R.; Vargas, C. d.; Thurber, R. V.; Voolstra, C. R.; Wincker, P.; Zoccola, D.; Bowler, C.; Gorsky, G.; Rudich, Y.; Vardi, A.; and Koren, I.\n\n\n \n\n\n\n Bulletin of the American Meteorological Society, 101(5): E536–E554. May 2020.\n 10 citations (Semantic Scholar/DOI) [2024-02-09] 9 citations (Crossref) [2024-02-09] Publisher: American Meteorological Society Section: Bulletin of the American Meteorological Society\n\n\n\n
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\n\n\n@article{flores_tara_2020,\n\ttitle = {Tara {Pacific} {Expedition}’s {Atmospheric} {Measurements} of {Marine} {Aerosols} across the {Atlantic} and {Pacific} {Oceans}: {Overview} and {Preliminary} {Results}},\n\tvolume = {101},\n\tissn = {0003-0007, 1520-0477},\n\tshorttitle = {Tara {Pacific} {Expedition}’s {Atmospheric} {Measurements} of {Marine} {Aerosols} across the {Atlantic} and {Pacific} {Oceans}},\n\turl = {https://journals.ametsoc.org/view/journals/bams/101/5/bams-d-18-0224.1.xml},\n\tdoi = {10.1175/BAMS-D-18-0224.1},\n\tabstract = {{\\textless}section class="abstract"{\\textgreater}{\\textless}h2 class="abstractTitle text-title my-1" id="d104291624e458"{\\textgreater}Abstract{\\textless}/h2{\\textgreater}{\\textless}p{\\textgreater}Marine aerosols play a significant role in the global radiative budget, in clouds’ processes, and in the chemistry of the marine atmosphere. There is a critical need to better understand their production mechanisms, composition, chemical properties, and the contribution of ocean-derived biogenic matter to their mass and number concentration. Here we present an overview of a new dataset of in situ measurements of marine aerosols conducted over the 2.5-yr {\\textless}em{\\textgreater}Tara{\\textless}/em{\\textgreater} Pacific Expedition over 110,000 km across the Atlantic and Pacific Oceans. Preliminary results are presented here to describe the new dataset that will be built using this novel set of measurements. It will characterize marine aerosols properties in detail and will open a new window to study the marine aerosol link to the water properties and environmental conditions.{\\textless}/p{\\textgreater}{\\textless}/section{\\textgreater}},\n\tlanguage = {EN},\n\tnumber = {5},\n\turldate = {2021-06-10},\n\tjournal = {Bulletin of the American Meteorological Society},\n\tauthor = {Flores, J. M. and Bourdin, G. and Altaratz, O. and Trainic, M. and Lang-Yona, N. and Dzimban, E. and Steinau, S. and Tettich, F. and Planes, S. and Allemand, D. and Agostini, S. and Banaigs, B. and Boissin, E. and Boss, E. and Douville, E. and Forcioli, D. and Furla, P. and Galand, P. E. and Sullivan, M. B. and Gilson, É and Lombard, F. and Moulin, C. and Pesant, S. and Poulain, J. and Reynaud, S. and Romac, S. and Sunagawa, S. and Thomas, O. P. and Troublé, R. and Vargas, C. de and Thurber, R. Vega and Voolstra, C. R. and Wincker, P. and Zoccola, D. and Bowler, C. and Gorsky, G. and Rudich, Y. and Vardi, A. and Koren, I.},\n\tmonth = may,\n\tyear = {2020},\n\tnote = {10 citations (Semantic Scholar/DOI) [2024-02-09]\n9 citations (Crossref) [2024-02-09]\nPublisher: American Meteorological Society\nSection: Bulletin of the American Meteorological Society},\n\tpages = {E536--E554},\n}\n\n\n\n \\textlesssection class=\"abstract\"\\textgreater\\textlessh2 class=\"abstractTitle text-title my-1\" id=\"d104291624e458\"\\textgreaterAbstract\\textless/h2\\textgreater\\textlessp\\textgreaterMarine aerosols play a significant role in the global radiative budget, in clouds’ processes, and in the chemistry of the marine atmosphere. There is a critical need to better understand their production mechanisms, composition, chemical properties, and the contribution of ocean-derived biogenic matter to their mass and number concentration. Here we present an overview of a new dataset of in situ measurements of marine aerosols conducted over the 2.5-yr \\textlessem\\textgreaterTara\\textless/em\\textgreater Pacific Expedition over 110,000 km across the Atlantic and Pacific Oceans. Preliminary results are presented here to describe the new dataset that will be built using this novel set of measurements. It will characterize marine aerosols properties in detail and will open a new window to study the marine aerosol link to the water properties and environmental conditions.\\textless/p\\textgreater\\textless/section\\textgreater\n
\n\n\n\n \n\n \n \n \n \n \n \n The Origin of the Subtropical Coral Alveopora japonica (Scleractinia: Acroporidae) in High-Latitude Environments.\n \n \n \n \n\n\n \n Kang, J. H.; Jang, J. E.; Kim, J. H.; Kim, S.; Keshavmurthy, S.; Agostini, S.; Reimer, J. D.; Chen, C. A.; Choi, K.; Park, S. R.; and Lee, H. J.\n\n\n \n\n\n\n Frontiers in Ecology and Evolution, 8. February 2020.\n 12 citations (Semantic Scholar/DOI) [2024-02-09] 15 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{kang_origin_2020,\n\ttitle = {The {Origin} of the {Subtropical} {Coral} {Alveopora} japonica ({Scleractinia}: {Acroporidae}) in {High}-{Latitude} {Environments}},\n\tvolume = {8},\n\tcopyright = {All rights reserved},\n\tissn = {2296-701X},\n\tshorttitle = {The {Origin} of the {Subtropical} {Coral} {Alveopora} japonica ({Scleractinia}},\n\turl = {https://www.frontiersin.org/articles/10.3389/fevo.2020.00012/full?&utm_source=Email_to_authors_&utm_medium=Email&utm_content=T1_11.5e1_author&utm_campaign=Email_publication&field=&journalName=Frontiers_in_Ecology_and_Evolution&id=490594},\n\tdoi = {10.3389/fevo.2020.00012},\n\tabstract = {Marine ecosystems in temperate regions have been significantly affected by rising seawater temperatures due to climate change. Alveopora japonica, a small zooxanthellate scleractinian coral, occurs in the northwestern Pacific including Taiwan, Japan, and Jeju Island in Korea. The northern populations around Jeju Island have recently undergone rapid growth in numbers, with negative impacts on local biodiversity. However, it is unclear whether these Korean populations occurred historically and where they originate from. In this study, we investigated the phylogenetic relationships of A. japonica along with its endosymbiont Symbiodiniaceae across five geographic regions, including Jeju Island in Korea, Taiwan, and Japan. Nuclear internal transcribed spacer (ITS) sequences revealed unexpected species-level divergence among three distinct phylogenetic clusters (Korea, Taiwan, Japan) with no sharing of haplotypes among lineages, suggesting these may each represent cryptic species in Alveopora. 23S ribosomal DNA of Symbiodiniaceae showed two well-separated phylogenetic clusters, in which Korean and Japanese symbionts shared the same clade and Taiwanese ones formed a distinct clade. Given the deep phylogenetic divergences among the lineages for both corals and Symbiodiniaceae, the Korean populations appear to have existed for a long evolutionary time period rather than representing a poleward migration from subtropical environments following recent climate change. Our study highlights cryptic species diversity in Alveopora at high-latitude environments.},\n\tlanguage = {English},\n\turldate = {2020-02-04},\n\tjournal = {Frontiers in Ecology and Evolution},\n\tauthor = {Kang, Ji Hyoun and Jang, Ji Eun and Kim, Jae Hwan and Kim, Sangil and Keshavmurthy, Shashank and Agostini, Sylvain and Reimer, James D. and Chen, Chaolun Allen and Choi, Kwang-Sik and Park, Sang Rul and Lee, Hyuk Je},\n\tmonth = feb,\n\tyear = {2020},\n\tnote = {12 citations (Semantic Scholar/DOI) [2024-02-09]\n15 citations (Crossref) [2024-02-09]},\n\tkeywords = {Climate Change, Jeju Island (South Korea), Subtropical corals, hidden diversity, northward migration, phylogenetic concordance, symbiont Symbiodiniaceae},\n}\n\n\n\n Marine ecosystems in temperate regions have been significantly affected by rising seawater temperatures due to climate change. Alveopora japonica, a small zooxanthellate scleractinian coral, occurs in the northwestern Pacific including Taiwan, Japan, and Jeju Island in Korea. The northern populations around Jeju Island have recently undergone rapid growth in numbers, with negative impacts on local biodiversity. However, it is unclear whether these Korean populations occurred historically and where they originate from. In this study, we investigated the phylogenetic relationships of A. japonica along with its endosymbiont Symbiodiniaceae across five geographic regions, including Jeju Island in Korea, Taiwan, and Japan. Nuclear internal transcribed spacer (ITS) sequences revealed unexpected species-level divergence among three distinct phylogenetic clusters (Korea, Taiwan, Japan) with no sharing of haplotypes among lineages, suggesting these may each represent cryptic species in Alveopora. 23S ribosomal DNA of Symbiodiniaceae showed two well-separated phylogenetic clusters, in which Korean and Japanese symbionts shared the same clade and Taiwanese ones formed a distinct clade. Given the deep phylogenetic divergences among the lineages for both corals and Symbiodiniaceae, the Korean populations appear to have existed for a long evolutionary time period rather than representing a poleward migration from subtropical environments following recent climate change. Our study highlights cryptic species diversity in Alveopora at high-latitude environments.\n
\n\n\n\n \n\n \n \n \n \n \n \n Responses of Intertidal Bacterial Biofilm Communities to Increasing p CO$_{\\textrm{2}}$.\n \n \n \n \n\n\n \n Kerfahi, D.; Harvey, B. P.; Agostini, S.; Kon, K.; Huang, R.; Adams, J. M.; and Hall-Spencer, J. M.\n\n\n \n\n\n\n Marine Biotechnology. March 2020.\n 8 citations (Semantic Scholar/DOI) [2024-02-09] 10 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{kerfahi_responses_2020,\n\ttitle = {Responses of {Intertidal} {Bacterial} {Biofilm} {Communities} to {Increasing} p {CO}$_{\\textrm{2}}$},\n\tcopyright = {All rights reserved},\n\tissn = {1436-2236},\n\turl = {https://doi.org/10.1007/s10126-020-09958-3},\n\tdoi = {10.1007/s10126-020-09958-3},\n\tabstract = {The effects of ocean acidification on ecosystems remain poorly understood, because it is difficult to simulate the effects of elevated CO2 on entire marine communities. Natural systems enriched in CO2 are being used to help understand the long-term effects of ocean acidification in situ. Here, we compared biofilm bacterial communities on intertidal cobbles/boulders and bedrock along a seawater CO2 gradient off Japan. Samples sequenced for 16S rRNA showed differences in bacterial communities with different pCO2 and between habitat types. In both habitats, bacterial diversity increased in the acidified conditions. Differences in pCO2 were associated with differences in the relative abundance of the dominant phyla. However, despite the differences in community composition, there was no indication that these changes would be significant for nutrient cycling and ecosystem function. As well as direct effects of seawater chemistry on the biofilm, increased microalgal growth and decreased grazing may contribute to the shift in bacterial composition at high CO2, as documented by other studies. Thus, the effects of changes in bacterial community composition due to globally increasing pCO2 levels require further investigation to assess the implications for marine ecosystem function. However, the apparent lack of functional shifts in biofilms along the pCO2 gradient is a reassuring indicator of stability of their ecosystem functions in shallow ocean margins.},\n\tlanguage = {en},\n\turldate = {2020-04-23},\n\tjournal = {Marine Biotechnology},\n\tauthor = {Kerfahi, Dorsaf and Harvey, Ben P. and Agostini, Sylvain and Kon, Koetsu and Huang, Ruiping and Adams, Jonathan M. and Hall-Spencer, Jason M.},\n\tmonth = mar,\n\tyear = {2020},\n\tnote = {8 citations (Semantic Scholar/DOI) [2024-02-09]\n10 citations (Crossref) [2024-02-09]},\n}\n\n\n\n The effects of ocean acidification on ecosystems remain poorly understood, because it is difficult to simulate the effects of elevated CO2 on entire marine communities. Natural systems enriched in CO2 are being used to help understand the long-term effects of ocean acidification in situ. Here, we compared biofilm bacterial communities on intertidal cobbles/boulders and bedrock along a seawater CO2 gradient off Japan. Samples sequenced for 16S rRNA showed differences in bacterial communities with different pCO2 and between habitat types. In both habitats, bacterial diversity increased in the acidified conditions. Differences in pCO2 were associated with differences in the relative abundance of the dominant phyla. However, despite the differences in community composition, there was no indication that these changes would be significant for nutrient cycling and ecosystem function. As well as direct effects of seawater chemistry on the biofilm, increased microalgal growth and decreased grazing may contribute to the shift in bacterial composition at high CO2, as documented by other studies. Thus, the effects of changes in bacterial community composition due to globally increasing pCO2 levels require further investigation to assess the implications for marine ecosystem function. However, the apparent lack of functional shifts in biofilms along the pCO2 gradient is a reassuring indicator of stability of their ecosystem functions in shallow ocean margins.\n
\n\n\n\n \n\n \n \n \n \n \n Physiology of Winter Coral Bleaching in Temperate Zone.\n \n \n \n\n\n \n Higuchi, T.; Yuyama, I.; and Agostini, S.\n\n\n \n\n\n\n In Ceccaldi, H.; Hénocque, Y.; Komatsu, T.; Prouzet, P.; Sautour, B.; and Yoshida, J., editor(s), Evolution of Marine Coastal Ecosystems under the Pressure of Global Changes: Proceedings of Coast Bordeaux Symposium and of the 17th French-Japanese Oceanography Symposium, pages 147–162. Springer International Publishing, August 2020.\n \n\n\n\n
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\n\n\n@incollection{ceccaldi_physiology_2020,\n\ttitle = {Physiology of {Winter} {Coral} {Bleaching} in {Temperate} {Zone}},\n\tisbn = {978-3-030-43483-0},\n\tabstract = {Coastal and estuarine environments at the interface of terrestrial and marine areas are among the most productive in the world. However, since the beginning of the industrial era, these ecosystems have been subjected to strong anthropogenic pressures intensified from the second half of the 20th century, when there was a marked acceleration in the warming (climate change) of the continents, particularly at high latitudes. Coastal ecosystems are highly vulnerable to alteration of their physical, chemical and biological characteristics (marine intrusion, acidification of marine environments, changes in ecosystems, evolution and artificialization of the coastline, etc.).In contact with heavily populated areas, these environments are often the receptacle of a lot of chemical and biological pollution sources that significantly diminish their resilience. In this context of accelerated evolution and degradation of these areas important for food security of many populations around the world, it is necessary to better identify the factors of pressure and understand, at different scales of observation, their effects and impacts on the biodiversity and on the socio-eco-systems, in order to determine the degree of vulnerability of these coastal ecosystems and the risks they face. A transdisciplinary and integrated approach is required to prevent risks. Within this framework, operational coastal oceanography occupies an important place but also the implementation of a true socio-eco-system approach in order to set up an environmentally friendly development.},\n\tlanguage = {en},\n\tbooktitle = {Evolution of {Marine} {Coastal} {Ecosystems} under the {Pressure} of {Global} {Changes}: {Proceedings} of {Coast} {Bordeaux} {Symposium} and of the 17th {French}-{Japanese} {Oceanography} {Symposium}},\n\tpublisher = {Springer International Publishing},\n\tauthor = {Higuchi, Tomihiko and Yuyama, Ikuko and Agostini, Sylvain},\n\teditor = {Ceccaldi, Hubert-Jean and Hénocque, Yves and Komatsu, Teruhisa and Prouzet, Patrick and Sautour, Benoit and Yoshida, Jiro},\n\tmonth = aug,\n\tyear = {2020},\n\tkeywords = {Science / Earth Sciences / General, Science / Earth Sciences / Hydrology, Science / Earth Sciences / Oceanography, Science / Environmental Science, Science / Life Sciences / Ecology},\n\tpages = {147--162},\n}\n\n\n Coastal and estuarine environments at the interface of terrestrial and marine areas are among the most productive in the world. However, since the beginning of the industrial era, these ecosystems have been subjected to strong anthropogenic pressures intensified from the second half of the 20th century, when there was a marked acceleration in the warming (climate change) of the continents, particularly at high latitudes. Coastal ecosystems are highly vulnerable to alteration of their physical, chemical and biological characteristics (marine intrusion, acidification of marine environments, changes in ecosystems, evolution and artificialization of the coastline, etc.).In contact with heavily populated areas, these environments are often the receptacle of a lot of chemical and biological pollution sources that significantly diminish their resilience. In this context of accelerated evolution and degradation of these areas important for food security of many populations around the world, it is necessary to better identify the factors of pressure and understand, at different scales of observation, their effects and impacts on the biodiversity and on the socio-eco-systems, in order to determine the degree of vulnerability of these coastal ecosystems and the risks they face. A transdisciplinary and integrated approach is required to prevent risks. Within this framework, operational coastal oceanography occupies an important place but also the implementation of a true socio-eco-system approach in order to set up an environmentally friendly development.\n
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\n \n \n\n \n \n \n \n \n \n Expanding Tara Oceans Protocols for Underway, Ecosystemic Sampling of the Ocean-Atmosphere Interface During Tara Pacific Expedition (2016–2018).\n \n \n \n \n\n\n \n Gorsky, G.; Bourdin, G.; Lombard, F.; Pedrotti, M. L.; Audrain, S.; Bin, N.; Boss, E.; Bowler, C.; Cassar, N.; Caudan, L.; Chabot, G.; Cohen, N. R.; Cron, D.; De Vargas, C.; Dolan, J. R.; Douville, E.; Elineau, A.; Flores, J. M.; Ghiglione, J. F.; Haëntjens, N.; Hertau, M.; John, S. G.; Kelly, R. L.; Koren, I.; Lin, Y.; Marie, D.; Moulin, C.; Moucherie, Y.; Pesant, S.; Picheral, M.; Poulain, J.; Pujo-Pay, M.; Reverdin, G.; Romac, S.; Sullivan, M. B.; Trainic, M.; Tressol, M.; Troublé, R.; Vardi, A.; Voolstra, C. R.; Wincker, P.; Agostini, S.; Banaigs, B.; Boissin, E.; Forcioli, D.; Furla, P.; Galand, P. E.; Gilson, E.; Reynaud, S.; Sunagawa, S.; Thomas, O. P.; Thurber, R. L. V.; Zoccola, D.; Planes, S.; Allemand, D.; and Karsenti, E.\n\n\n \n\n\n\n Frontiers in Marine Science, 6. 2019.\n 39 citations (Semantic Scholar/DOI) [2024-02-09] 38 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{gorsky_expanding_2019,\n\ttitle = {Expanding {Tara} {Oceans} {Protocols} for {Underway}, {Ecosystemic} {Sampling} of the {Ocean}-{Atmosphere} {Interface} {During} {Tara} {Pacific} {Expedition} (2016–2018)},\n\tvolume = {6},\n\tcopyright = {All rights reserved},\n\tissn = {2296-7745},\n\turl = {https://www.frontiersin.org/articles/10.3389/fmars.2019.00750/full#supplementary-material},\n\tdoi = {10.3389/fmars.2019.00750},\n\tabstract = {Interactions between the ocean and the atmosphere occur at the air-sea interface through the transfer of momentum, heat, gases and particulate matter and through the impact of the upper-ocean biology on the composition and radiative properties of this boundary layer. The Tara Pacific expedition, launched in May 2016 aboard the schooner Tara, was a 29-month exploration with the dual goals to study the ecology of coral systems along ecological gradients in the Pacific Ocean and to assess inter-island and open ocean surface plankton and neuston community structures. In addition, key atmospheric properties were measured to study links between the two boundary layer properties. A major challenge for the open ocean sampling was the lack of ship-time available for work at “stations”. This required development of underway sampling approaches to optimize physical, chemical, optical and genomic methods to capture the entire community structure of the surface layers, from viruses 81 through metazoans in their oceanographic and atmospheric physicochemical context. An international scientific consortium was put together to analyze the samples, generate data, and develop datasets in coherence with the existing Tara Oceans database. Beyond adapting the extensive Tara Oceans sampling protocols for high-resolution underway sampling, the key novelties compared to Tara Oceans’ global assessment of plankton include the measurement of (i) surface plankton and neuston biogeography and functional diversity; (ii) bioactive trace metals distribution at the ocean surface and metal-dependent ecosystem structures; (iii) marine aerosols, including biological entities, (iv) geography, nature and colonization of microplastic, and (iv) high-resolution underway assessment of net community production via equilibrator inlet mass spectrometry. We are committed to sharing the data collected during this expedition, making it an important resource to address a variety of scientific questions.nnkton-taxonomy/assemblage/genomics},\n\tlanguage = {English},\n\turldate = {2020-01-20},\n\tjournal = {Frontiers in Marine Science},\n\tauthor = {Gorsky, Gabriel and Bourdin, Guillaume and Lombard, Fabien and Pedrotti, Maria Luiza and Audrain, Samuel and Bin, Nicolas and Boss, Emmanuel and Bowler, Chris and Cassar, Nicolas and Caudan, Loic and Chabot, Genevieve and Cohen, Natalie R. and Cron, Daniel and De Vargas, Colomban and Dolan, John R. and Douville, Eric and Elineau, Amanda and Flores, J. Michel and Ghiglione, Jean Francois and Haëntjens, Nils and Hertau, Martin and John, Seth G. and Kelly, Rachel L. and Koren, Ilan and Lin, Yajuan and Marie, Dominique and Moulin, Clémentine and Moucherie, Yohann and Pesant, Stéphane and Picheral, Marc and Poulain, Julie and Pujo-Pay, Mireille and Reverdin, Gilles and Romac, Sarah and Sullivan, Mathew B. and Trainic, Miri and Tressol, Marc and Troublé, Romain and Vardi, Assaf and Voolstra, Christian R. and Wincker, Patrick and Agostini, Sylvain and Banaigs, Bernard and Boissin, Emilie and Forcioli, Didier and Furla, Paola and Galand, Pierre E. and Gilson, Eric and Reynaud, Stéphanie and Sunagawa, Shinichi and Thomas, Olivier P. and Thurber, Rebecca Lisette Vega and Zoccola, Didier and Planes, Serge and Allemand, Denis and Karsenti, Eric},\n\tyear = {2019},\n\tnote = {39 citations (Semantic Scholar/DOI) [2024-02-09]\n38 citations (Crossref) [2024-02-09]},\n\tkeywords = {Aerosols, Inherent optical properties (IOPs), Microplastic distribution colonization, Net community production (NCP), Neuston-taxonomy/assemblage/genomics, North Atlantic, Pacific Ocean, Plankton taxonomy/assemblage/genomics, Tara Oceans expedition, Tara Pacific expedition, Trace metals},\n}\n\n\n\n Interactions between the ocean and the atmosphere occur at the air-sea interface through the transfer of momentum, heat, gases and particulate matter and through the impact of the upper-ocean biology on the composition and radiative properties of this boundary layer. The Tara Pacific expedition, launched in May 2016 aboard the schooner Tara, was a 29-month exploration with the dual goals to study the ecology of coral systems along ecological gradients in the Pacific Ocean and to assess inter-island and open ocean surface plankton and neuston community structures. In addition, key atmospheric properties were measured to study links between the two boundary layer properties. A major challenge for the open ocean sampling was the lack of ship-time available for work at “stations”. This required development of underway sampling approaches to optimize physical, chemical, optical and genomic methods to capture the entire community structure of the surface layers, from viruses 81 through metazoans in their oceanographic and atmospheric physicochemical context. An international scientific consortium was put together to analyze the samples, generate data, and develop datasets in coherence with the existing Tara Oceans database. Beyond adapting the extensive Tara Oceans sampling protocols for high-resolution underway sampling, the key novelties compared to Tara Oceans’ global assessment of plankton include the measurement of (i) surface plankton and neuston biogeography and functional diversity; (ii) bioactive trace metals distribution at the ocean surface and metal-dependent ecosystem structures; (iii) marine aerosols, including biological entities, (iv) geography, nature and colonization of microplastic, and (iv) high-resolution underway assessment of net community production via equilibrator inlet mass spectrometry. We are committed to sharing the data collected during this expedition, making it an important resource to address a variety of scientific questions.nnkton-taxonomy/assemblage/genomics\n
\n\n\n\n \n\n \n \n \n \n \n \n Diatoms dominate and alter marine food-webs when CO$_{\\textrm{2}}$ rises.\n \n \n \n \n\n\n \n Harvey, B. P.; Agostini, S.; Kon, K.; Wada, S.; and Hall-Spencer, J. M.\n\n\n \n\n\n\n Diversity, 11(12): 242. December 2019.\n 27 citations (Semantic Scholar/DOI) [2024-02-09] 30 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{harvey_diatoms_2019,\n\ttitle = {Diatoms dominate and alter marine food-webs when {CO}$_{\\textrm{2}}$ rises},\n\tvolume = {11},\n\tcopyright = {http://creativecommons.org/licenses/by/3.0/},\n\turl = {https://www.mdpi.com/1424-2818/11/12/242},\n\tdoi = {10.3390/d11120242},\n\tabstract = {Diatoms are so important in ocean food-webs that any human induced changes in their abundance could have major effects on the ecology of our seas. The large chain-forming diatom Biddulphia biddulphiana greatly increases in abundance as pCO2 increases along natural seawater CO2 gradients in the north Pacific Ocean. In areas with reference levels of pCO2, it was hard to find, but as seawater carbon dioxide levels rose, it replaced seaweeds and became the main habitat-forming species on the seabed. This diatom algal turf supported a marine invertebrate community that was much less diverse and completely differed from the benthic communities found at present-day levels of pCO2. Seawater CO2 enrichment stimulated the growth and photosynthetic efficiency of benthic diatoms, but reduced the abundance of calcified grazers such as gastropods and sea urchins. These observations suggest that ocean acidification will shift photic zone community composition so that coastal food-web structure and ecosystem function are homogenised, simplified, and more strongly affected by seasonal algal blooms.},\n\tlanguage = {en},\n\tnumber = {12},\n\turldate = {2019-12-25},\n\tjournal = {Diversity},\n\tauthor = {Harvey, Ben P. and Agostini, Sylvain and Kon, Koetsu and Wada, Shigeki and Hall-Spencer, Jason M.},\n\tmonth = dec,\n\tyear = {2019},\n\tnote = {27 citations (Semantic Scholar/DOI) [2024-02-09]\n30 citations (Crossref) [2024-02-09]},\n\tkeywords = {CO$_{\\textrm{2}}$ fertilisation, algal blooms, benthic diatoms, ecological shift, habitat-forming, marine food-webs, ocean acidification, turf algae},\n\tpages = {242},\n}\n\n\n\n Diatoms are so important in ocean food-webs that any human induced changes in their abundance could have major effects on the ecology of our seas. The large chain-forming diatom Biddulphia biddulphiana greatly increases in abundance as pCO2 increases along natural seawater CO2 gradients in the north Pacific Ocean. In areas with reference levels of pCO2, it was hard to find, but as seawater carbon dioxide levels rose, it replaced seaweeds and became the main habitat-forming species on the seabed. This diatom algal turf supported a marine invertebrate community that was much less diverse and completely differed from the benthic communities found at present-day levels of pCO2. Seawater CO2 enrichment stimulated the growth and photosynthetic efficiency of benthic diatoms, but reduced the abundance of calcified grazers such as gastropods and sea urchins. These observations suggest that ocean acidification will shift photic zone community composition so that coastal food-web structure and ecosystem function are homogenised, simplified, and more strongly affected by seasonal algal blooms.\n
\n\n\n\n \n\n \n \n \n \n \n \n The potential role of temperate Japanese regions as refugia for the coral Acropora hyacinthus in the face of climate change.\n \n \n \n \n\n\n \n Nakabayashi, A.; Yamakita, T.; Nakamura, T.; Aizawa, H.; Kitano, Y. F.; Iguchi, A.; Yamano, H.; Nagai, S.; Agostini, S.; Teshima, K. M.; and Yasuda, N.\n\n\n \n\n\n\n Scientific Reports, 9(1): 1892. February 2019.\n 43 citations (Semantic Scholar/DOI) [2024-02-09] 45 citations (Crossref) [2024-02-09]\n\n\n\n
\n\n\n\n \n \nPaper\n \n \n\n \n \n doi\n \n \n\n \n link\n \n \n\n bibtex\n \n\n \n \n \n abstract \n \n\n \n\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n
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Paper\n \n \n\n \n \n doi\n \n \n\n \n link\n \n \n\n bibtex\n \n\n \n \n \n abstract \n \n\n \n\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n\n
\n\n\n@article{nakabayashi_potential_2019,\n\ttitle = {The potential role of temperate {Japanese} regions as refugia for the coral {Acropora} hyacinthus in the face of climate change},\n\tvolume = {9},\n\tcopyright = {2019 The Author(s)},\n\tissn = {2045-2322},\n\turl = {https://www.nature.com/articles/s41598-018-38333-5},\n\tdoi = {10.1038/s41598-018-38333-5},\n\tabstract = {As corals in tropical regions are threatened by increasing water temperatures, poleward range expansion of reef-building corals has been observed, and temperate regions are expected to serve as refugia in the face of climate change. To elucidate the important indicators of the sustainability of coral populations, we examined the genetic diversity and connectivity of the common reef-building coral Acropora hyacinthus along the Kuroshio Current, including recently expanded ({\\textless}50 years) populations. Among the three cryptic lineages found, only one was distributed in temperate regions, which could indicate the presence of Kuroshio-associated larval dispersal barriers between temperate and subtropical regions, as shown by oceanographic simulations as well as differences in environmental factors. The level of genetic diversity gradually decreased towards the edge of the species distribution. This study provides an example of the reduced genetic diversity in recently expanded marginal populations, thus indicating the possible vulnerability of these populations to environmental changes. This finding underpins the importance of assessing the genetic diversity of newly colonized populations associated with climate change for conservation purposes. In addition, this study highlights the importance of pre-existing temperate regions as coral refugia, which has been rather underappreciated in local coastal management.},\n\tlanguage = {En},\n\tnumber = {1},\n\turldate = {2019-02-19},\n\tjournal = {Scientific Reports},\n\tauthor = {Nakabayashi, Aki and Yamakita, Takehisa and Nakamura, Takashi and Aizawa, Hiroaki and Kitano, Yuko F. and Iguchi, Akira and Yamano, Hiroya and Nagai, Satoshi and Agostini, Sylvain and Teshima, Kosuke M. and Yasuda, Nina},\n\tmonth = feb,\n\tyear = {2019},\n\tnote = {43 citations (Semantic Scholar/DOI) [2024-02-09]\n45 citations (Crossref) [2024-02-09]},\n\tpages = {1892},\n}\n\n\n\n As corals in tropical regions are threatened by increasing water temperatures, poleward range expansion of reef-building corals has been observed, and temperate regions are expected to serve as refugia in the face of climate change. To elucidate the important indicators of the sustainability of coral populations, we examined the genetic diversity and connectivity of the common reef-building coral Acropora hyacinthus along the Kuroshio Current, including recently expanded (\\textless50 years) populations. Among the three cryptic lineages found, only one was distributed in temperate regions, which could indicate the presence of Kuroshio-associated larval dispersal barriers between temperate and subtropical regions, as shown by oceanographic simulations as well as differences in environmental factors. The level of genetic diversity gradually decreased towards the edge of the species distribution. This study provides an example of the reduced genetic diversity in recently expanded marginal populations, thus indicating the possible vulnerability of these populations to environmental changes. This finding underpins the importance of assessing the genetic diversity of newly colonized populations associated with climate change for conservation purposes. In addition, this study highlights the importance of pre-existing temperate regions as coral refugia, which has been rather underappreciated in local coastal management.\n
\n\n\n\n \n\n \n \n \n \n \n \n The Tara Pacific expedition—A pan-ecosystemic approach of the “-omics” complexity of coral reef holobionts across the Pacific Ocean.\n \n \n \n \n\n\n \n Planes, S.; Allemand, D.; Agostini, S.; Banaigs, B.; Boissin, E.; Boss, E.; Bourdin, G.; Bowler, C.; Douville, E.; Flores, J. M.; Forcioli, D.; Furla, P.; Galand, P. E.; Ghiglione, J.; Gilson, E.; Lombard, F.; Moulin, C.; Pesant, S.; Poulain, J.; Reynaud, S.; Romac, S.; Sullivan, M. B.; Sunagawa, S.; Thomas, O. P.; Troublé, R.; Vargas, C. d.; Thurber, R. V.; Voolstra, C. R.; Wincker, P.; Zoccola, D.; and Consortium, t. T. P.\n\n\n \n\n\n\n PLOS Biology, 17(9): e3000483. September 2019.\n 43 citations (Semantic Scholar/DOI) [2024-02-09] 44 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{planes_tara_2019,\n\ttitle = {The {Tara} {Pacific} expedition—{A} pan-ecosystemic approach of the “-omics” complexity of coral reef holobionts across the {Pacific} {Ocean}},\n\tvolume = {17},\n\tcopyright = {All rights reserved},\n\tissn = {1545-7885},\n\turl = {https://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.3000483},\n\tdoi = {10.1371/journal.pbio.3000483},\n\tabstract = {Coral reefs are the most diverse habitats in the marine realm. Their productivity, structural complexity, and biodiversity critically depend on ecosystem services provided by corals that are threatened because of climate change effects—in particular, ocean warming and acidification. The coral holobiont is composed of the coral animal host, endosymbiotic dinoflagellates, associated viruses, bacteria, and other microeukaryotes. In particular, the mandatory photosymbiosis with microalgae of the family Symbiodiniaceae and its consequences on the evolution, physiology, and stress resilience of the coral holobiont have yet to be fully elucidated. The functioning of the holobiont as a whole is largely unknown, although bacteria and viruses are presumed to play roles in metabolic interactions, immunity, and stress tolerance. In the context of climate change and anthropogenic threats on coral reef ecosystems, the Tara Pacific project aims to provide a baseline of the “-omics” complexity of the coral holobiont and its ecosystem across the Pacific Ocean and for various oceanographically distinct defined areas. Inspired by the previous Tara Oceans expeditions, the Tara Pacific expedition (2016–2018) has applied a pan-ecosystemic approach on coral reefs throughout the Pacific Ocean, drawing an east–west transect from Panama to Papua New Guinea and a south–north transect from Australia to Japan, sampling corals throughout 32 island systems with local replicates. Tara Pacific has developed and applied state-of-the-art technologies in very-high-throughput genetic sequencing and molecular analysis to reveal the entire microbial and chemical diversity as well as functional traits associated with coral holobionts, together with various measures on environmental forcing. This ambitious project aims at revealing a massive amount of novel biodiversity, shedding light on the complex links between genomes, transcriptomes, metabolomes, organisms, and ecosystem functions in coral reefs and providing a reference of the biological state of modern coral reefs in the Anthropocene.},\n\tlanguage = {en},\n\tnumber = {9},\n\turldate = {2019-10-08},\n\tjournal = {PLOS Biology},\n\tauthor = {Planes, Serge and Allemand, Denis and Agostini, Sylvain and Banaigs, Bernard and Boissin, Emilie and Boss, Emmanuel and Bourdin, Guillaume and Bowler, Chris and Douville, Eric and Flores, J. Michel and Forcioli, Didier and Furla, Paola and Galand, Pierre E. and Ghiglione, Jean-François and Gilson, Eric and Lombard, Fabien and Moulin, Clémentine and Pesant, Stephane and Poulain, Julie and Reynaud, Stéphanie and Romac, Sarah and Sullivan, Matthew B. and Sunagawa, Shinichi and Thomas, Olivier P. and Troublé, Romain and Vargas, Colomban de and Thurber, Rebecca Vega and Voolstra, Christian R. and Wincker, Patrick and Zoccola, Didier and Consortium, the Tara Pacific},\n\tmonth = sep,\n\tyear = {2019},\n\tnote = {43 citations (Semantic Scholar/DOI) [2024-02-09]\n44 citations (Crossref) [2024-02-09]},\n\tkeywords = {Biodiversity, Coral reefs, Corals, Islands, Marine ecosystems, Oceans, Plankton, Reef ecosystems},\n\tpages = {e3000483},\n}\n\n\n\n Coral reefs are the most diverse habitats in the marine realm. Their productivity, structural complexity, and biodiversity critically depend on ecosystem services provided by corals that are threatened because of climate change effects—in particular, ocean warming and acidification. The coral holobiont is composed of the coral animal host, endosymbiotic dinoflagellates, associated viruses, bacteria, and other microeukaryotes. In particular, the mandatory photosymbiosis with microalgae of the family Symbiodiniaceae and its consequences on the evolution, physiology, and stress resilience of the coral holobiont have yet to be fully elucidated. The functioning of the holobiont as a whole is largely unknown, although bacteria and viruses are presumed to play roles in metabolic interactions, immunity, and stress tolerance. In the context of climate change and anthropogenic threats on coral reef ecosystems, the Tara Pacific project aims to provide a baseline of the “-omics” complexity of the coral holobiont and its ecosystem across the Pacific Ocean and for various oceanographically distinct defined areas. Inspired by the previous Tara Oceans expeditions, the Tara Pacific expedition (2016–2018) has applied a pan-ecosystemic approach on coral reefs throughout the Pacific Ocean, drawing an east–west transect from Panama to Papua New Guinea and a south–north transect from Australia to Japan, sampling corals throughout 32 island systems with local replicates. Tara Pacific has developed and applied state-of-the-art technologies in very-high-throughput genetic sequencing and molecular analysis to reveal the entire microbial and chemical diversity as well as functional traits associated with coral holobionts, together with various measures on environmental forcing. This ambitious project aims at revealing a massive amount of novel biodiversity, shedding light on the complex links between genomes, transcriptomes, metabolomes, organisms, and ecosystem functions in coral reefs and providing a reference of the biological state of modern coral reefs in the Anthropocene.\n
\n\n\n\n \n\n \n \n \n \n \n \n Validation of carbon isotope fractionation in algal lipids as a PCO$_{\\textrm{2}}$ proxy using a natural CO$_{\\textrm{2}}$ seep (Shikine Island, Japan).\n \n \n \n \n\n\n \n Witkowski, C. R.; Agostini, S.; Harvey, B. P.; Meer, M. T. J. v. d.; Sinninghe Damste, J. S.; and Schouten, S.\n\n\n \n\n\n\n Biogeosciences Discussions,1–18. May 2019.\n 0 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{witkowski_validation_2019,\n\ttitle = {Validation of carbon isotope fractionation in algal lipids as a \\textit{{P}}{CO}$_{\\textrm{2}}$ proxy using a natural {CO}$_{\\textrm{2}}$ seep ({Shikine} {Island}, {Japan})},\n\tcopyright = {All rights reserved},\n\tissn = {1726-4170},\n\turl = {https://www.biogeosciences-discuss.net/bg-2019-158/},\n\tdoi = {https://doi.org/10.5194/bg-2019-158},\n\tabstract = {{\\textless}p{\\textgreater}{\\textless}strong{\\textgreater}Abstract.{\\textless}/strong{\\textgreater} Carbon dioxide concentrations in the atmosphere play an integral role in many earth system dynamics, including its influence on global temperature. Long-term trends can provide insights into these dynamics though reconstructing long-term trends of atmospheric carbon dioxide (expressed in partial pressure; \\textit{P}CO$_{\\textrm{2}}$) remains a challenge in paleoclimatology. One promising approach for reconstructing past \\textit{P}CO$_{\\textrm{2}}$ utilizes isotopic fractionation associated with CO$_{\\textrm{2}}$-fixation during photosynthesis into organic matter (Ɛ$_{\\textrm{p}}$). Previous studies have focused primarily on testing estimates of Ɛ$_{\\textrm{p}}$ derived from species-specific alkenone compounds in laboratory cultures and mesocosm experiments. Here, we analyze Ɛ$_{\\textrm{p}}$ derived from general algal compounds from sites at a CO$_{\\textrm{2}}$ seep near Shikine Island (Japan), a natural environment with CO$_{\\textrm{2}}$ concentrations ranging from ambient (ca. 310\\ µatm) to elevated (ca. 770\\ µatm). We observed strong, consistent δ$^{\\textrm{13}}$C shifts in several algal biomarkers from a variety of sample matrices over the steep CO$_{\\textrm{2}}$ gradient. Of the three general algal biomarkers explored here, namely loliolide, phytol, and cholesterol, Ɛ$_{\\textrm{p}}$ positively correlates with \\textit{P}CO$_{\\textrm{2}}$ in agreement with Ɛ$_{\\textrm{p}}$ theory and previous culture studies. \\textit{P}CO$_{\\textrm{2}}$ reconstructed from the Ɛ$_{\\textrm{p}}$ of general algal biomarkers show the same trends throughout, as well as the correct control values, but with lower absolute reconstructed values than the measured values at the elevated \\textit{P}CO$_{\\textrm{2}}$ sites. Our results show that naturally-occurring CO$_{\\textrm{2}}$ seeps may provide useful testing grounds for \\textit{P}CO$_{\\textrm{2}}$ proxies and that general algal biomarkers show promise for reconstructing past \\textit{P}CO$_{\\textrm{2}}$.{\\textless}/p{\\textgreater}},\n\tlanguage = {English},\n\turldate = {2019-10-15},\n\tjournal = {Biogeosciences Discussions},\n\tauthor = {Witkowski, Caitlyn R. and Agostini, Sylvain and Harvey, Ben P. and Meer, Marcel T. J. van der and Sinninghe Damste, Jaap S. and Schouten, Stefan},\n\tmonth = may,\n\tyear = {2019},\n\tnote = {0 citations (Crossref) [2024-02-09]},\n\tpages = {1--18},\n}\n\n\n\n \\textlessp\\textgreater\\textlessstrong\\textgreaterAbstract.\\textless/strong\\textgreater Carbon dioxide concentrations in the atmosphere play an integral role in many earth system dynamics, including its influence on global temperature. Long-term trends can provide insights into these dynamics though reconstructing long-term trends of atmospheric carbon dioxide (expressed in partial pressure; PCO$_{\\textrm{2}}$) remains a challenge in paleoclimatology. One promising approach for reconstructing past PCO$_{\\textrm{2}}$ utilizes isotopic fractionation associated with CO$_{\\textrm{2}}$-fixation during photosynthesis into organic matter (Ɛ$_{\\textrm{p}}$). Previous studies have focused primarily on testing estimates of Ɛ$_{\\textrm{p}}$ derived from species-specific alkenone compounds in laboratory cultures and mesocosm experiments. Here, we analyze Ɛ$_{\\textrm{p}}$ derived from general algal compounds from sites at a CO$_{\\textrm{2}}$ seep near Shikine Island (Japan), a natural environment with CO$_{\\textrm{2}}$ concentrations ranging from ambient (ca. 310 µatm) to elevated (ca. 770 µatm). We observed strong, consistent δ$^{\\textrm{13}}$C shifts in several algal biomarkers from a variety of sample matrices over the steep CO$_{\\textrm{2}}$ gradient. Of the three general algal biomarkers explored here, namely loliolide, phytol, and cholesterol, Ɛ$_{\\textrm{p}}$ positively correlates with PCO$_{\\textrm{2}}$ in agreement with Ɛ$_{\\textrm{p}}$ theory and previous culture studies. PCO$_{\\textrm{2}}$ reconstructed from the Ɛ$_{\\textrm{p}}$ of general algal biomarkers show the same trends throughout, as well as the correct control values, but with lower absolute reconstructed values than the measured values at the elevated PCO$_{\\textrm{2}}$ sites. Our results show that naturally-occurring CO$_{\\textrm{2}}$ seeps may provide useful testing grounds for PCO$_{\\textrm{2}}$ proxies and that general algal biomarkers show promise for reconstructing past PCO$_{\\textrm{2}}$.\\textless/p\\textgreater\n
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\n \n \n\n \n \n \n \n \n \n Ocean acidification drives community shifts towards simplified non-calcified habitats in a subtropical−temperate transition zone.\n \n \n \n \n\n\n \n Agostini, S.; Harvey, B. P.; Wada, S.; Kon, K.; Milazzo, M.; Inaba, K.; and Hall-Spencer, J. M.\n\n\n \n\n\n\n Scientific Reports, 8(1): 11354. December 2018.\n 0 citations (Semantic Scholar/DOI) [2024-02-09] 82 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n\n@article{agostini_ocean_2018,\n\ttitle = {Ocean acidification drives community shifts towards simplified non-calcified habitats in a subtropical−temperate transition zone},\n\tvolume = {8},\n\tcopyright = {All rights reserved},\n\tissn = {2045-2322},\n\turl = {http://www.nature.com/articles/s41598-018-29251-7},\n\tdoi = {10.1038/s41598-018-29251-7},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2018-07-25},\n\tjournal = {Scientific Reports},\n\tauthor = {Agostini, Sylvain and Harvey, Ben P. and Wada, Shigeki and Kon, Koetsu and Milazzo, Marco and Inaba, Kazuo and Hall-Spencer, Jason M.},\n\tmonth = dec,\n\tyear = {2018},\n\tnote = {0 citations (Semantic Scholar/DOI) [2024-02-09]\n82 citations (Crossref) [2024-02-09]},\n\tpages = {11354},\n}\n\n\n\n \n\n \n \n \n \n \n \n Dissolution: The Achilles’ Heel of the Triton Shell in an Acidifying Ocean.\n \n \n \n \n\n\n \n Harvey, B. P.; Agostini, S.; Wada, S.; Inaba, K.; and Hall-Spencer, J. M.\n\n\n \n\n\n\n Frontiers in Marine Science, 5: 371. October 2018.\n 40 citations (Semantic Scholar/DOI) [2024-02-09] 35 citations (Crossref) [2024-02-09]\n\n\n\n
\n\n\n\n \n \nPaper\n \n \n\n \n \n doi\n \n \n\n \n link\n \n \n\n bibtex\n \n\n \n \n \n abstract \n \n\n \n \n \n 31 downloads\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n\n\n\n
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\n\n\n@article{harvey_dissolution_2018,\n\ttitle = {Dissolution: {The} {Achilles}’ {Heel} of the {Triton} {Shell} in an {Acidifying} {Ocean}},\n\tvolume = {5},\n\tissn = {2296-7745},\n\tshorttitle = {Dissolution},\n\turl = {https://www.frontiersin.org/article/10.3389/fmars.2018.00371/full},\n\tdoi = {10.3389/fmars.2018.00371},\n\tabstract = {Ocean acidification is expected to negatively impact many calcifying marine organisms by impairing their ability to build their protective shells and skeletons, and by causing dissolution and erosion. Here we investigated the large predatory ‘Triton shell’ gastropod Charonia lampas in acidified conditions near CO2 seeps off Shikine-jima (Japan) and compared them with individuals from an adjacent bay with seawater pH at present-day levels (outside the influence of the CO2 seep). By using computed tomography we show that acidification negatively impacts their thickness, density and shell structure, causing visible deterioration to the shell surface. Periods of aragonite undersaturation caused the loss of the apex region, exposing body tissues. While gross calcification rates were likely reduced near CO2 seeps, the corrosive effects of acidification were far more pronounced around the oldest parts of the shell. As a result, the capacity of C. lampas to maintain their shells under ocean acidification may be strongly driven by abiotic dissolution and erosion, and not under biological control of the calcification process. Understanding the response of marine calcifying organisms and their ability to build and maintain their protective shells and skeletons will be important for our understanding of future marine ecosystems.},\n\turldate = {2021-06-21},\n\tjournal = {Frontiers in Marine Science},\n\tauthor = {Harvey, Ben P. and Agostini, Sylvain and Wada, Shigeki and Inaba, Kazuo and Hall-Spencer, Jason M.},\n\tmonth = oct,\n\tyear = {2018},\n\tnote = {40 citations (Semantic Scholar/DOI) [2024-02-09]\n35 citations (Crossref) [2024-02-09]},\n\tkeywords = {CO2 seeps, CT-scanning, Calcifying organisms, Charonia lampas, Triton Shell, dissolution, ocean acidification},\n\tpages = {371},\n}\n\n\n\n Ocean acidification is expected to negatively impact many calcifying marine organisms by impairing their ability to build their protective shells and skeletons, and by causing dissolution and erosion. Here we investigated the large predatory ‘Triton shell’ gastropod Charonia lampas in acidified conditions near CO2 seeps off Shikine-jima (Japan) and compared them with individuals from an adjacent bay with seawater pH at present-day levels (outside the influence of the CO2 seep). By using computed tomography we show that acidification negatively impacts their thickness, density and shell structure, causing visible deterioration to the shell surface. Periods of aragonite undersaturation caused the loss of the apex region, exposing body tissues. While gross calcification rates were likely reduced near CO2 seeps, the corrosive effects of acidification were far more pronounced around the oldest parts of the shell. As a result, the capacity of C. lampas to maintain their shells under ocean acidification may be strongly driven by abiotic dissolution and erosion, and not under biological control of the calcification process. Understanding the response of marine calcifying organisms and their ability to build and maintain their protective shells and skeletons will be important for our understanding of future marine ecosystems.\n
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\n\n \n \n 2016\n \n \n (1)\n \n \n
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\n \n \n\n \n \n \n \n \n \n Mitochondrial electron transport activity and metabolism of experimentally bleached hermatypic corals.\n \n \n \n \n\n\n \n Agostini, S.; Fujimura, H.; Hayashi, H.; and Fujita, K.\n\n\n \n\n\n\n Journal of Experimental Marine Biology and Ecology, 475: 100–107. 2016.\n 6 citations (Semantic Scholar/DOI) [2024-02-09] 6 citations (Crossref) [2024-02-09]\n\n\n\n
\n\n\n\n \n \nPaper\n \n \n\n \n \n doi\n \n \n\n \n link\n \n \n\n bibtex\n \n\n \n \n \n abstract \n \n\n \n \n \n 6 downloads\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n \n \n \n \n \n \n \n \n \n \n\n\n\n
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\n\n\n@article{agostini_mitochondrial_2016,\n\ttitle = {Mitochondrial electron transport activity and metabolism of experimentally bleached hermatypic corals},\n\tvolume = {475},\n\tcopyright = {All rights reserved},\n\tissn = {0022-0981},\n\turl = {http://www.sciencedirect.com/science/article/pii/S0022098115300629},\n\tdoi = {10.1016/j.jembe.2015.11.012},\n\tabstract = {Bleached corals (Porites cylindrica and Galaxea fascicularis) were obtained through extended incubation (over 45 days) under light depletion and privation: low light and dark conditions, and heat stress (32 °C). The colonies in the different treatments became bleached and had reduced metabolic rates, photosynthesis, calcification and respiration; reduced biomass, zooxanthellae density, and chlorophyll a concentrations; and reduced mitochondrial electron transport system activity, which represent potential respiration rates. The most important reduction in mitochondrial electron transport activity was shown when the activities were normalized by the unit of surface and not by the unit of host protein. This result indicates that the reduction in activity could be mainly explained by the reduction of biomass and tissue thickness. However, increased Manganese Superoxide dismutase (Mn SOD) activity, a mitochondrial SOD, suggests that ROS production occurs in the mitochondria under heat stress with the consequence of potentially damaging the electron transport system. The reduced calcification rates observed are hypothesized to be the results of a decrease in the energy available for calcification due to the reduced photosynthetic rates, limiting the availability of substrates for respiration and therefore the energy production, and the decreased in the number of active mitochondrial electron transport system. Electron transport system activity associated with respiration is the basis of all metabolic processes and is not biased by incubation like traditional measurements of respiration in an aquarium. Therefore, ETSA could be used as an overall indicator of coral health, especially for host animal health.},\n\turldate = {2015-12-07},\n\tjournal = {Journal of Experimental Marine Biology and Ecology},\n\tauthor = {Agostini, Sylvain and Fujimura, Hiroyuki and Hayashi, Hiroyuki and Fujita, Kazuhiko},\n\tyear = {2016},\n\tnote = {6 citations (Semantic Scholar/DOI) [2024-02-09]\n6 citations (Crossref) [2024-02-09]},\n\tkeywords = {Bleaching, Coral, Mitochondrial activities, Oxidative stress, calcification},\n\tpages = {100--107},\n}\n\n\n\n Bleached corals (Porites cylindrica and Galaxea fascicularis) were obtained through extended incubation (over 45 days) under light depletion and privation: low light and dark conditions, and heat stress (32 °C). The colonies in the different treatments became bleached and had reduced metabolic rates, photosynthesis, calcification and respiration; reduced biomass, zooxanthellae density, and chlorophyll a concentrations; and reduced mitochondrial electron transport system activity, which represent potential respiration rates. The most important reduction in mitochondrial electron transport activity was shown when the activities were normalized by the unit of surface and not by the unit of host protein. This result indicates that the reduction in activity could be mainly explained by the reduction of biomass and tissue thickness. However, increased Manganese Superoxide dismutase (Mn SOD) activity, a mitochondrial SOD, suggests that ROS production occurs in the mitochondria under heat stress with the consequence of potentially damaging the electron transport system. The reduced calcification rates observed are hypothesized to be the results of a decrease in the energy available for calcification due to the reduced photosynthetic rates, limiting the availability of substrates for respiration and therefore the energy production, and the decreased in the number of active mitochondrial electron transport system. Electron transport system activity associated with respiration is the basis of all metabolic processes and is not biased by incubation like traditional measurements of respiration in an aquarium. Therefore, ETSA could be used as an overall indicator of coral health, especially for host animal health.\n
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\n\n \n \n 2015\n \n \n (2)\n \n \n
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\n \n \n\n \n \n \n \n \n \n Geochemistry of two shallow CO$_{\\textrm{2}}$ seeps in Shikine Island (Japan) and their potential for ocean acidification research.\n \n \n \n \n\n\n \n Agostini, S.; Wada, S.; Kon, K.; Omori, A.; Kohtsuka, H.; Fujimura, H.; Tsuchiya, Y.; Sato, T.; Shinagawa, H.; Yamada, Y.; and Inaba, K.\n\n\n \n\n\n\n Regional Studies in Marine Science, 2: 45–53. November 2015.\n 35 citations (Semantic Scholar/DOI) [2024-02-09] 25 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{agostini_geochemistry_2015,\n\ttitle = {Geochemistry of two shallow {CO}$_{\\textrm{2}}$ seeps in {Shikine} {Island} ({Japan}) and their potential for ocean acidification research},\n\tvolume = {2},\n\tcopyright = {All rights reserved},\n\tissn = {23524855},\n\turl = {http://linkinghub.elsevier.com/retrieve/pii/S2352485515000298},\n\tdoi = {10.1016/j.rsma.2015.07.004},\n\tabstract = {Shallow CO2 seeps, where CO2 gas is venting underwater, offer great potential for studies into the effects of ocean acidification at the ecosystem level. To our knowledge, only two tropical system and two temperate systems of such seeps have been described worldwide. Here we describe two new temperate systems: the Mikama Bay and Ashitsuke sites, located on Shikine Island, Japan. The Mikama Bay site is located in a shallow bay. Investigation of the gas and water chemistry showed that the gas contained 98\\% CO2 and up to 90 ppm H2S. Total alkalinity was constant in time and space with an average of 2265±10 μ mol kg−1. Mapping of Eh and pH showed that the low pH zones were the largest when currents were moderate. Under moderate currents, Eh values were globally higher and total sulfides concentration lower, supporting that a longer residence time of the bay water allow the oxidation of the sulfides to sulfates. Zones suitable for acidification studies: with a pH lower than 8.0, low saturation state of calcite and aragonite, and non-detectable sulfide concentration, can be defined a few meters from the main venting zone. The second site, Ashitsuke, is located in the inter-tidal zone on a shore composed of boulders. Several areas showed reduced pH sometimes restricted to a few meters and up to 20 m long along the shoreline. Temperature was higher in some of the reduced pH zones suggesting the presence of hot springs in addition to vents. This paper also highlights the need for discovering additional CO2 seeps, which by their nature often lack comparable replicates and can be confounded by factors other than CO2. In this regard, Japan offers great potential as it is home to numerous active volcanoes, representing potential venting sites in climates ranging from tropical to sub-polar.},\n\tlanguage = {en},\n\turldate = {2016-10-13},\n\tjournal = {Regional Studies in Marine Science},\n\tauthor = {Agostini, Sylvain and Wada, Shigeki and Kon, Koetsu and Omori, Akihito and Kohtsuka, Hisanori and Fujimura, Hiroyuki and Tsuchiya, Yasutaka and Sato, Toshihiko and Shinagawa, Hideo and Yamada, Yutaro and Inaba, Kazuo},\n\tmonth = nov,\n\tyear = {2015},\n\tnote = {35 citations (Semantic Scholar/DOI) [2024-02-09]\n25 citations (Crossref) [2024-02-09]},\n\tkeywords = {CO2 seep, Geochemistry, Japan, Ocean acidification, Temperate Pacific Ocean},\n\tpages = {45--53},\n}\n\n\n\n Shallow CO2 seeps, where CO2 gas is venting underwater, offer great potential for studies into the effects of ocean acidification at the ecosystem level. To our knowledge, only two tropical system and two temperate systems of such seeps have been described worldwide. Here we describe two new temperate systems: the Mikama Bay and Ashitsuke sites, located on Shikine Island, Japan. The Mikama Bay site is located in a shallow bay. Investigation of the gas and water chemistry showed that the gas contained 98% CO2 and up to 90 ppm H2S. Total alkalinity was constant in time and space with an average of 2265±10 μ mol kg−1. Mapping of Eh and pH showed that the low pH zones were the largest when currents were moderate. Under moderate currents, Eh values were globally higher and total sulfides concentration lower, supporting that a longer residence time of the bay water allow the oxidation of the sulfides to sulfates. Zones suitable for acidification studies: with a pH lower than 8.0, low saturation state of calcite and aragonite, and non-detectable sulfide concentration, can be defined a few meters from the main venting zone. The second site, Ashitsuke, is located in the inter-tidal zone on a shore composed of boulders. Several areas showed reduced pH sometimes restricted to a few meters and up to 20 m long along the shoreline. Temperature was higher in some of the reduced pH zones suggesting the presence of hot springs in addition to vents. This paper also highlights the need for discovering additional CO2 seeps, which by their nature often lack comparable replicates and can be confounded by factors other than CO2. In this regard, Japan offers great potential as it is home to numerous active volcanoes, representing potential venting sites in climates ranging from tropical to sub-polar.\n
\n\n\n\n \n\n \n \n \n \n \n \n The northern limit of corals of the genus Acropora in temperate zones is determined by their resilience to cold bleaching.\n \n \n \n \n\n\n \n Higuchi, T.; Agostini, S.; Casareto, B. E.; Suzuki, Y.; and Yuyama, I.\n\n\n \n\n\n\n Scientific Reports, 5: 18467. December 2015.\n 22 citations (Semantic Scholar/DOI) [2024-02-09] 19 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{higuchi_northern_2015,\n\ttitle = {The northern limit of corals of the genus {Acropora} in temperate zones is determined by their resilience to cold bleaching},\n\tvolume = {5},\n\tcopyright = {All rights reserved},\n\tissn = {2045-2322},\n\turl = {http://www.nature.com/articles/srep18467},\n\tdoi = {10.1038/srep18467},\n\tabstract = {The distribution of corals in Japan covers a wide range of latitudes, encompassing tropical to temperate zones. However, coral communities in temperate zones contain only a small subset of species. Among the parameters that determine the distribution of corals, temperature plays an important role. We tested the resilience to cold stress of three coral species belonging to the genus Acropora in incubation experiments. Acropora pruinosa, which is the northernmost of the three species, bleached at 13 °C, but recovered once temperatures were increased. The two other species, A. hyacinthus and A. solitaryensis, which has a more southerly range than A. pruinosa, died rapidly after bleaching at 13 °C. The physiological effects of cold bleaching on the corals included decreased rates of photosynthesis, respiration, and calcification, similar to the physiological effects observed with bleaching due to high temperature stress. Contrasting hot bleaching, no increases in antioxidant enzyme activities were observed, suggesting that reactive oxygen species play a less important role in bleaching under cold stress. These results confirmed the importance of resilience to cold stress in determining the distribution and northern limits of coral species, as cold events causing coral bleaching and high mortality occur regularly in temperate zones.},\n\turldate = {2015-12-28},\n\tjournal = {Scientific Reports},\n\tauthor = {Higuchi, Tomihiko and Agostini, Sylvain and Casareto, Beatriz Estela and Suzuki, Yoshimi and Yuyama, Ikuko},\n\tmonth = dec,\n\tyear = {2015},\n\tnote = {22 citations (Semantic Scholar/DOI) [2024-02-09]\n19 citations (Crossref) [2024-02-09]},\n\tpages = {18467},\n}\n\n\n\n The distribution of corals in Japan covers a wide range of latitudes, encompassing tropical to temperate zones. However, coral communities in temperate zones contain only a small subset of species. Among the parameters that determine the distribution of corals, temperature plays an important role. We tested the resilience to cold stress of three coral species belonging to the genus Acropora in incubation experiments. Acropora pruinosa, which is the northernmost of the three species, bleached at 13 °C, but recovered once temperatures were increased. The two other species, A. hyacinthus and A. solitaryensis, which has a more southerly range than A. pruinosa, died rapidly after bleaching at 13 °C. The physiological effects of cold bleaching on the corals included decreased rates of photosynthesis, respiration, and calcification, similar to the physiological effects observed with bleaching due to high temperature stress. Contrasting hot bleaching, no increases in antioxidant enzyme activities were observed, suggesting that reactive oxygen species play a less important role in bleaching under cold stress. These results confirmed the importance of resilience to cold stress in determining the distribution and northern limits of coral species, as cold events causing coral bleaching and high mortality occur regularly in temperate zones.\n
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\n\n \n \n 2014\n \n \n (1)\n \n \n
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\n \n \n\n \n \n \n \n \n \n Biotic control of skeletal growth by scleractinian corals in aragonite–calcite seas.\n \n \n \n \n\n\n \n Higuchi, T.; Fujimura, H.; Yuyama, I.; Harii, S.; Agostini, S.; and Oomori, T.\n\n\n \n\n\n\n PLoS ONE, 9(3): e91021. March 2014.\n 18 citations (Semantic Scholar/DOI) [2024-02-09] 20 citations (Crossref) [2024-02-09]\n\n\n\n
\n\n\n\n \n \nPaper\n \n \n\n \n \n doi\n \n \n\n \n link\n \n \n\n bibtex\n \n\n \n \n \n abstract \n \n\n \n \n \n 7 downloads\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n
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\n\n\n@article{higuchi_biotic_2014,\n\ttitle = {Biotic control of skeletal growth by scleractinian corals in aragonite–calcite seas},\n\tvolume = {9},\n\tcopyright = {All rights reserved},\n\tissn = {1932-6203},\n\turl = {http://dx.plos.org/10.1371/journal.pone.0091021},\n\tdoi = {10.1371/journal.pone.0091021},\n\tabstract = {Modern scleractinian coral skeletons are commonly composed of aragonite, the orthorhombic form of CaCO3. Under certain conditions, modern corals produce calcite as a secondary precipitate to fill pore space. However, coral construction of primary skeletons from calcite has yet to be demonstrated. We report a calcitic primary skeleton produced by the modern scleractinian coral Acropora tenuis. When uncalcified juveniles were incubated from the larval stage in seawater with low mMg/Ca levels, the juveniles constructed calcitic crystals in parts of the primary skeleton such as the septa; the deposits were observable under Raman microscopy. Using scanning electron microscopy, we observed different crystal morphologies of aragonite and calcite in a single juvenile skeleton. Quantitative analysis using X-ray diffraction showed that the majority of the skeleton was composed of aragonite even though we had exposed the juveniles to manipulated seawater before their initial crystal nucleation and growth processes. Our results indicate that the modern scleractinian coral Acropora mainly produces aragonite skeletons in both aragonite and calcite seas, but also has the ability to use calcite for part of its skeletal growth when incubated in calcite seas.},\n\tnumber = {3},\n\tjournal = {PLoS ONE},\n\tauthor = {Higuchi, Tomihiko and Fujimura, Hiroyuki and Yuyama, Ikuko and Harii, Saki and Agostini, Sylvain and Oomori, Tamotsu},\n\teditor = {Roberts, John Murray},\n\tmonth = mar,\n\tyear = {2014},\n\tnote = {18 citations (Semantic Scholar/DOI) [2024-02-09]\n20 citations (Crossref) [2024-02-09]},\n\tpages = {e91021},\n}\n\n\n\n Modern scleractinian coral skeletons are commonly composed of aragonite, the orthorhombic form of CaCO3. Under certain conditions, modern corals produce calcite as a secondary precipitate to fill pore space. However, coral construction of primary skeletons from calcite has yet to be demonstrated. We report a calcitic primary skeleton produced by the modern scleractinian coral Acropora tenuis. When uncalcified juveniles were incubated from the larval stage in seawater with low mMg/Ca levels, the juveniles constructed calcitic crystals in parts of the primary skeleton such as the septa; the deposits were observable under Raman microscopy. Using scanning electron microscopy, we observed different crystal morphologies of aragonite and calcite in a single juvenile skeleton. Quantitative analysis using X-ray diffraction showed that the majority of the skeleton was composed of aragonite even though we had exposed the juveniles to manipulated seawater before their initial crystal nucleation and growth processes. Our results indicate that the modern scleractinian coral Acropora mainly produces aragonite skeletons in both aragonite and calcite seas, but also has the ability to use calcite for part of its skeletal growth when incubated in calcite seas.\n
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\n\n \n \n 2013\n \n \n (3)\n \n \n
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\n \n \n\n \n \n \n \n \n \n Respiratory electron transport system activity in symbiotic corals and its link to calcification.\n \n \n \n \n\n\n \n Agostini, S.; Fujimura, H; Fujita, K; Suzuki, Y; and Nakano, Y\n\n\n \n\n\n\n Aquatic Biology, 18(2): 125–139. April 2013.\n 10 citations (Semantic Scholar/DOI) [2024-02-09] 9 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{agostini_respiratory_2013,\n\ttitle = {Respiratory electron transport system activity in symbiotic corals and its link to calcification},\n\tvolume = {18},\n\tcopyright = {All rights reserved},\n\tissn = {1864-7782},\n\turl = {http://www.int-res.com/prepress/b00496.html http://www.int-res.com/abstracts/ab/v18/n2/p125-139/},\n\tdoi = {10.3354/ab00496},\n\tabstract = {Scleractinian corals host photosynthetic endosymbionts, making direct measurement of the host respiration rate via incubation methods based on O2 consumption impossible. We tested the use of the respiratory electron transport system activity (ETSA) for measuring host potential respiration. The applied method, modified from a previous study, is based on the reduction of (4-iodophenyl)-3-(4-nitrophenyl)-5-phenyl-2H-tetrazolium chloride (INT) to formazan. After the development of a protocol suitable for corals, the method was tested on 5 different species. Metabolism, including photosynthesis, dark respiration and light and dark calcification, was measured through incubation. Host and zooxanthellae fractions were separated and their ETSAs, protein contents and zooxanthellae densities were measured. Mean ETSA/dark respiration (ETSA/R) ratios for host corals ranged from 1.7 ± 0.2 to 3.5 ± 0.6, while ratios for zooxanthellae ranged from 3.7 to 7.8. The high ratios observed for zooxanthellae indicate that their respiration may be 5 times higher under light conditions than in the dark. Considering the obtained ratios, host respiration in light could increase at most by a factor of 3.5 compared with dark respiration rates. Ratios close to 1 were found for some specimens, which suggests that higher respiration rates under light compared with dark conditions are not possible. Therefore, increased respiration in light cannot explain the observed enhancement of calcification under light conditions. ETSA was correlated with zooxanthellae density, suggesting adaptation of the levels of host ETS enzymes to the amount of translocated photosynthetates under optimal conditions. Estimated dark host respiration was correlated with photosynthesis, which suggests that it is determined mainly by the amount of energy available but also the amount of electron transport system enzymes. This constrains the amount of ATP available for calcification. Hence, we propose a mechanism by which respiration limits the calcification rate.},\n\tnumber = {2},\n\tjournal = {Aquatic Biology},\n\tauthor = {Agostini, Sylvain and Fujimura, H and Fujita, K and Suzuki, Y and Nakano, Y},\n\tmonth = apr,\n\tyear = {2013},\n\tnote = {10 citations (Semantic Scholar/DOI) [2024-02-09]\n9 citations (Crossref) [2024-02-09]},\n\tpages = {125--139},\n}\n\n\n\n Scleractinian corals host photosynthetic endosymbionts, making direct measurement of the host respiration rate via incubation methods based on O2 consumption impossible. We tested the use of the respiratory electron transport system activity (ETSA) for measuring host potential respiration. The applied method, modified from a previous study, is based on the reduction of (4-iodophenyl)-3-(4-nitrophenyl)-5-phenyl-2H-tetrazolium chloride (INT) to formazan. After the development of a protocol suitable for corals, the method was tested on 5 different species. Metabolism, including photosynthesis, dark respiration and light and dark calcification, was measured through incubation. Host and zooxanthellae fractions were separated and their ETSAs, protein contents and zooxanthellae densities were measured. Mean ETSA/dark respiration (ETSA/R) ratios for host corals ranged from 1.7 ± 0.2 to 3.5 ± 0.6, while ratios for zooxanthellae ranged from 3.7 to 7.8. The high ratios observed for zooxanthellae indicate that their respiration may be 5 times higher under light conditions than in the dark. Considering the obtained ratios, host respiration in light could increase at most by a factor of 3.5 compared with dark respiration rates. Ratios close to 1 were found for some specimens, which suggests that higher respiration rates under light compared with dark conditions are not possible. Therefore, increased respiration in light cannot explain the observed enhancement of calcification under light conditions. ETSA was correlated with zooxanthellae density, suggesting adaptation of the levels of host ETS enzymes to the amount of translocated photosynthetates under optimal conditions. Estimated dark host respiration was correlated with photosynthesis, which suggests that it is determined mainly by the amount of energy available but also the amount of electron transport system enzymes. This constrains the amount of ATP available for calcification. Hence, we propose a mechanism by which respiration limits the calcification rate.\n
\n\n\n\n \n\n \n \n \n \n \n \n The effects of thermal and high-CO$_{\\textrm{2}}$ stresses on the metabolism and surrounding microenvironment of the coral Galaxea fascicularis.\n \n \n \n \n\n\n \n Agostini, S.; Fujimura, H.; Higuchi, T.; Yuyama, I.; Casareto, B. E.; Suzuki, Y.; and Nakano, Y.\n\n\n \n\n\n\n Comptes Rendus Biologies, 336(8): 384–391. August 2013.\n 26 citations (Semantic Scholar/DOI) [2024-02-09] 23 citations (Crossref) [2024-02-09]\n\n\n\n
\n\n\n\n \n \nPaper\n \n \n\n \n \n doi\n \n \n\n \n link\n \n \n\n bibtex\n \n\n \n \n \n abstract \n \n\n \n \n \n 95 downloads\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n\n\n\n
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\n\n\n@article{agostini_effects_2013,\n\ttitle = {The effects of thermal and high-{CO}$_{\\textrm{2}}$ stresses on the metabolism and surrounding microenvironment of the coral \\textit{{Galaxea} fascicularis}},\n\tvolume = {336},\n\tcopyright = {All rights reserved},\n\tissn = {16310691},\n\turl = {http://www.sciencedirect.com/science/article/pii/S1631069113001455 http://linkinghub.elsevier.com/retrieve/pii/S1631069113001455},\n\tdoi = {10.1016/j.crvi.2013.07.003},\n\tabstract = {The effects of elevated temperature and high pCO2 on the metabolism of Galaxea fascicularis were studied with oxygen and pH microsensors. Photosynthesis and respiration rates were evaluated from the oxygen fluxes from and to the coral polyps. High-temperature alone lowered both photosynthetic and respiration rates. High pCO2 alone did not significantly affect either photosynthesis or respiration rates. Under a combination of high-temperature and high-CO2, the photosynthetic rate increased to values close to those of the controls. The same pH in the diffusion boundary layer was observed under light in both (400 and 750 ppm) CO2 treatments, but decreased significantly in the dark as a result of increased CO2. The ATP contents decreased with increasing temperature. The effects of temperature on the metabolism of corals were stronger than the effects of increased CO2. The effects of acidification were minimal without combined temperature stress. However, acidification combined with higher temperature may affect coral metabolism due to the amplification of diel variations in the microenvironment surrounding the coral and the decrease in ATP contents.},\n\tnumber = {8},\n\tjournal = {Comptes Rendus Biologies},\n\tauthor = {Agostini, Sylvain and Fujimura, Hiroyuki and Higuchi, Tomihiko and Yuyama, Ikuko and Casareto, Beatriz E. and Suzuki, Yoshimi and Nakano, Yoshikatsu},\n\tmonth = aug,\n\tyear = {2013},\n\tnote = {26 citations (Semantic Scholar/DOI) [2024-02-09]\n23 citations (Crossref) [2024-02-09]},\n\tkeywords = {Blanchissement, Bleaching, Microenvirronement, Stress, acidification, corail, corals, microenvironment, stresses},\n\tpages = {384--391},\n}\n\n\n\n The effects of elevated temperature and high pCO2 on the metabolism of Galaxea fascicularis were studied with oxygen and pH microsensors. Photosynthesis and respiration rates were evaluated from the oxygen fluxes from and to the coral polyps. High-temperature alone lowered both photosynthetic and respiration rates. High pCO2 alone did not significantly affect either photosynthesis or respiration rates. Under a combination of high-temperature and high-CO2, the photosynthetic rate increased to values close to those of the controls. The same pH in the diffusion boundary layer was observed under light in both (400 and 750 ppm) CO2 treatments, but decreased significantly in the dark as a result of increased CO2. The ATP contents decreased with increasing temperature. The effects of temperature on the metabolism of corals were stronger than the effects of increased CO2. The effects of acidification were minimal without combined temperature stress. However, acidification combined with higher temperature may affect coral metabolism due to the amplification of diel variations in the microenvironment surrounding the coral and the decrease in ATP contents.\n
\n\n\n\n \n\n \n \n \n \n \n \n Bacterial enhancement of bleaching and physiological impacts on the coral Montipora digitata.\n \n \n \n \n\n\n \n Higuchi, T.; Agostini, S.; Casareto, B. E.; Yoshinaga, K.; Suzuki, T.; Nakano, Y.; Fujimura, H.; and Suzuki, Y.\n\n\n \n\n\n\n Journal of Experimental Marine Biology and Ecology, 440: 54–60. February 2013.\n 21 citations (Semantic Scholar/DOI) [2024-02-09] 17 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{higuchi_bacterial_2013,\n\ttitle = {Bacterial enhancement of bleaching and physiological impacts on the coral {Montipora} digitata},\n\tvolume = {440},\n\tcopyright = {All rights reserved},\n\tissn = {00220981},\n\turl = {http://linkinghub.elsevier.com/retrieve/pii/S0022098112004030},\n\tdoi = {10.1016/j.jembe.2012.11.011},\n\tabstract = {Bleaching affects corals worldwide. We studied the effects of high seawater temperature and bacterial challenges on bleaching, metabolism, and antioxidant defenses of coral. The coral Montipora digitata and five bacterial strains (Vibrio coralliilyticus, Vibrio harveyi, Paracoccus carotinifaciens, Pseudoalteromonas sp., and Sulfitobacter sp.) were used in an inoculation experiment. The bacteria were isolated from the bleached corals and their surrounding seawater. At normal temperatures, the bacteria did not cause coral bleaching and did not affect metabolism or antioxidant enzyme activities. However, bacterial challenges in addition to high-temperature stress resulted in coral bleaching, with a 70\\% decrease in zooxanthellae density compared with the control, a 25\\% decrease in photosynthetic efficiency (Fv/Fm), a 66\\% decrease in photosynthesis, and a 101\\% reduction in calcification activity. Tissue necrosis was observed in the most compromised branches. Respiration and activity levels of antioxidant enzymes were not affected. Corals under thermal stress alone showed signs of bleaching, but the changes in zooxanthellae density and metabolic rates were less severe than those under synergistic thermal stress and bacterial challenge. Among the bacteria examined, Sulfitobacter sp. had a greater capacity to enhance and accelerate the bleaching process under thermal stress. The mechanisms by which bacteria affect corals are not yet understood. Direct actions include infection and production of toxic substances by bacteria; indirect effects due to changes in the bacterial community under the influence of added bacteria must also be considered. Our results suggest that bacterial challenges combined with thermal stress can synergistically lead to negative outcomes in corals.},\n\tjournal = {Journal of Experimental Marine Biology and Ecology},\n\tauthor = {Higuchi, Tomihiko and Agostini, Sylvain and Casareto, Beatriz Estela and Yoshinaga, Koichi and Suzuki, Toshiyuki and Nakano, Yoshikatsu and Fujimura, Hiroyuki and Suzuki, Yoshimi},\n\tmonth = feb,\n\tyear = {2013},\n\tnote = {21 citations (Semantic Scholar/DOI) [2024-02-09]\n17 citations (Crossref) [2024-02-09]},\n\tkeywords = {Antioxidant enzymes, Bacterial challenge, Calcification, Photosynthesis, coral bleaching},\n\tpages = {54--60},\n}\n\n\n\n Bleaching affects corals worldwide. We studied the effects of high seawater temperature and bacterial challenges on bleaching, metabolism, and antioxidant defenses of coral. The coral Montipora digitata and five bacterial strains (Vibrio coralliilyticus, Vibrio harveyi, Paracoccus carotinifaciens, Pseudoalteromonas sp., and Sulfitobacter sp.) were used in an inoculation experiment. The bacteria were isolated from the bleached corals and their surrounding seawater. At normal temperatures, the bacteria did not cause coral bleaching and did not affect metabolism or antioxidant enzyme activities. However, bacterial challenges in addition to high-temperature stress resulted in coral bleaching, with a 70% decrease in zooxanthellae density compared with the control, a 25% decrease in photosynthetic efficiency (Fv/Fm), a 66% decrease in photosynthesis, and a 101% reduction in calcification activity. Tissue necrosis was observed in the most compromised branches. Respiration and activity levels of antioxidant enzymes were not affected. Corals under thermal stress alone showed signs of bleaching, but the changes in zooxanthellae density and metabolic rates were less severe than those under synergistic thermal stress and bacterial challenge. Among the bacteria examined, Sulfitobacter sp. had a greater capacity to enhance and accelerate the bleaching process under thermal stress. The mechanisms by which bacteria affect corals are not yet understood. Direct actions include infection and production of toxic substances by bacteria; indirect effects due to changes in the bacterial community under the influence of added bacteria must also be considered. Our results suggest that bacterial challenges combined with thermal stress can synergistically lead to negative outcomes in corals.\n
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\n\n \n \n 2012\n \n \n (1)\n \n \n
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\n \n \n\n \n \n \n \n \n \n Biological and chemical characteristics of the coral gastric cavity.\n \n \n \n \n\n\n \n Agostini, S.; Suzuki, Y.; Higuchi, T.; Casareto, B. E; Yoshinaga, K.; Nakano, Y.; and Fujimura, H.\n\n\n \n\n\n\n Coral Reefs, 31(1): 147–156. October 2012.\n 0 citations (Semantic Scholar/DOI) [2024-02-09] 103 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{agostini_biological_2012,\n\ttitle = {Biological and chemical characteristics of the coral gastric cavity},\n\tvolume = {31},\n\tcopyright = {All rights reserved},\n\tissn = {0722-4028},\n\turl = {http://www.springerlink.com/index/10.1007/s00338-011-0831-6},\n\tdoi = {10.1007/s00338-011-0831-6},\n\tabstract = {All corals have a common structure: two tissue layers enclose a lumen, which forms the gastric cavity. Few studies have described the processes occurring inside the gastric cavity and its chemical and biological characteristics. Here, we show that the coral gastric cavity has distinct chemical characteristics with respect to dissolved oxygen, pH, alkalinity and nutrients (vitamin B12, nitrates, nitrites, ammonium, and phosphates) and also has a distinct bacterial community. From these results, the gastric cavity can be described as a semi-closed sub-environment within the coral. Dissolved oxygen shows very low constant levels in the deepest parts of the cavity, creating a compartmentalized, anoxic environment. The pH is lower in the cavity than in the surrounding water and, like alkalinity, shows day/night variations different from that of the surrounding water. Nutrient concentrations found in the cavity are greater than the concentrations found in reef waters, especially those for phosphate and vitamin B12. The source of these nutrients may be an internal production by symbiotic bacteria and/or the remineralization of organic matter ingested or produced by the corals. The importance of the bacteria inhabiting the gastric cavity is supported by the finding of a high bacterial abundance and a specific bacterial community with affiliation to bacteria found in other corals and in the guts of other organisms. The findings presented here open a new area of research that may help us to understand the processes that maintain coral health.},\n\tnumber = {1},\n\tjournal = {Coral Reefs},\n\tauthor = {Agostini, Sylvain and Suzuki, Yoshimi and Higuchi, Tomihiko and Casareto, Beatriz E and Yoshinaga, Koichi and Nakano, Yoshikatsu and Fujimura, H.},\n\tmonth = oct,\n\tyear = {2012},\n\tnote = {0 citations (Semantic Scholar/DOI) [2024-02-09]\n103 citations (Crossref) [2024-02-09]},\n\tpages = {147--156},\n}\n\n\n\n All corals have a common structure: two tissue layers enclose a lumen, which forms the gastric cavity. Few studies have described the processes occurring inside the gastric cavity and its chemical and biological characteristics. Here, we show that the coral gastric cavity has distinct chemical characteristics with respect to dissolved oxygen, pH, alkalinity and nutrients (vitamin B12, nitrates, nitrites, ammonium, and phosphates) and also has a distinct bacterial community. From these results, the gastric cavity can be described as a semi-closed sub-environment within the coral. Dissolved oxygen shows very low constant levels in the deepest parts of the cavity, creating a compartmentalized, anoxic environment. The pH is lower in the cavity than in the surrounding water and, like alkalinity, shows day/night variations different from that of the surrounding water. Nutrient concentrations found in the cavity are greater than the concentrations found in reef waters, especially those for phosphate and vitamin B12. The source of these nutrients may be an internal production by symbiotic bacteria and/or the remineralization of organic matter ingested or produced by the corals. The importance of the bacteria inhabiting the gastric cavity is supported by the finding of a high bacterial abundance and a specific bacterial community with affiliation to bacteria found in other corals and in the guts of other organisms. The findings presented here open a new area of research that may help us to understand the processes that maintain coral health.\n
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\n \n \n\n \n \n \n \n \n \n Growth anomalies on Acropora cytherea corals.\n \n \n \n \n\n\n \n Irikawa, A.; Casareto, B. E.; Suzuki, Y.; Agostini, S.; Hidaka, M.; and van Woesik, R.\n\n\n \n\n\n\n Marine pollution bulletin, 62(8): 1702–7. August 2011.\n 40 citations (Semantic Scholar/DOI) [2024-02-09] 37 citations (Crossref) [2024-02-09]\n\n\n\n
\n\n\n\n \n \nPaper\n \n \n\n \n \n doi\n \n \n\n \n link\n \n \n\n bibtex\n \n\n \n \n \n abstract \n \n\n \n \n \n 1 download\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n \n \n \n \n \n \n \n \n\n\n\n
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\n\n\n@article{irikawa_growth_2011,\n\ttitle = {Growth anomalies on \\textit{{Acropora} cytherea} corals.},\n\tvolume = {62},\n\tcopyright = {All rights reserved},\n\tissn = {1879-3363},\n\turl = {http://www.ncbi.nlm.nih.gov/pubmed/21704344},\n\tdoi = {10.1016/j.marpolbul.2011.05.033},\n\tabstract = {This ten-year study examined the morphological, physiological, and ecological characteristics of coral growth anomalies on Acropora cytherea on Amuro Island, Okinawa, Japan. The objectives of the study were to assess whether the growth anomalies, identified as diffuse disruptions on the skeleton: (i) were more prevalent on large colonies than on small colonies, (ii) were more common near the center of the colonies than peripherally, (iii) affected colony growth and mortality, and (iv) affected coral-colony fecundity and photosynthetic capacity. We hypothesized that the growth anomalies were signs of the onset of aging. The growth anomalies were more prevalent on colonies {\\textgreater}2m diameter, and were concentrated near the central (older) portions of the colonies. The growth anomalies were also associated with reduced productivity and dysfunctional gametogenesis. Still, the growth anomalies did not appear to affect colony survival. The contact experiments showed that the growth anomalies were not contagious, and were most likely a sign of aging that was exacerbated by thermal stress.},\n\tnumber = {8},\n\tjournal = {Marine pollution bulletin},\n\tauthor = {Irikawa, Akiyuki and Casareto, Beatriz E. and Suzuki, Yoshimi and Agostini, Sylvain and Hidaka, Michio and van Woesik, Robert},\n\tmonth = aug,\n\tyear = {2011},\n\tnote = {40 citations (Semantic Scholar/DOI) [2024-02-09]\n37 citations (Crossref) [2024-02-09]},\n\tkeywords = {Aging, Corals, Disease, Growth anomalies},\n\tpages = {1702--7},\n}\n\n\n\n This ten-year study examined the morphological, physiological, and ecological characteristics of coral growth anomalies on Acropora cytherea on Amuro Island, Okinawa, Japan. The objectives of the study were to assess whether the growth anomalies, identified as diffuse disruptions on the skeleton: (i) were more prevalent on large colonies than on small colonies, (ii) were more common near the center of the colonies than peripherally, (iii) affected colony growth and mortality, and (iv) affected coral-colony fecundity and photosynthetic capacity. We hypothesized that the growth anomalies were signs of the onset of aging. The growth anomalies were more prevalent on colonies \\textgreater2m diameter, and were concentrated near the central (older) portions of the colonies. The growth anomalies were also associated with reduced productivity and dysfunctional gametogenesis. Still, the growth anomalies did not appear to affect colony survival. The contact experiments showed that the growth anomalies were not contagious, and were most likely a sign of aging that was exacerbated by thermal stress.\n
\n\n\n\n \n\n \n \n \n \n \n \n Distribution of Synechococcus in the dark ocean.\n \n \n \n \n\n\n \n Sohrin, R; Isaji, M; Obara, Y; Agostini, S; Suzuki, Y; Hiroe, Y; Ichikawa, T; and Hidaka, K\n\n\n \n\n\n\n Aquatic Microbial Ecology, 64(1): 1–14. June 2011.\n 22 citations (Semantic Scholar/DOI) [2024-02-09] 22 citations (Crossref) [2024-02-09]\n\n\n\n
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\n\n\n@article{sohrin_distribution_2011,\n\ttitle = {Distribution of {Synechococcus} in the dark ocean},\n\tvolume = {64},\n\tcopyright = {All rights reserved},\n\tissn = {0948-3055},\n\turl = {http://www.int-res.com/prepress/a01508.html http://www.int-res.com/abstracts/ame/v64/n1/p1-14/},\n\tdoi = {10.3354/ame01508},\n\tabstract = {Synechococcus is widely distributed in the world’s ocean surfaces, and is often found in sediment traps. However, its distribution and ecological importance have not been well studied in meso- and bathypelagic waters. We measured Synechococcus abundance in the Suruga Bay (central Japan) and the subtropical NW Pacific. Synechococcus abundance at depths of 200 m and below var- ied from 2.4 to 190 cells ml–1, but was in proportion to the surface abundance, suggesting transport of epipelagic populations to greater depths. Surprisingly, Synechococcus was evenly distributed from 200 m down to 1420 m (Suruga Bay) or to 2000 m (subtropical NW Pacific), regardless of season. The contribution of deep Synechococcus to the total population was highest in spring in the Suruga Bay (36 to 77\\%), and lowest in summer in the Suruga Bay (1 to 9\\%) and in the subtropical NW Pacific (4 and 10\\%). These results suggest effective transport of Synechococcus cells down the water column during productive seasons by attachment to large particles and limited transport under oligotrophic and stratified conditions. Deep Synechococcus abundance decreased from fall to winter in the Suruga Bay, though in filtered deep seawater it did not significantly decrease for 30 d in the dark, and it increased in a light/dark cycle. Our investigations show that the standing stock of Synechococcus has been significantly underestimated in previous studies of epipelagic waters conducted during produc- tive seasons and that Synechococcus seems to be grazed and to contribute to biogeochemical cycles in the dark ocean.},\n\tnumber = {1},\n\tjournal = {Aquatic Microbial Ecology},\n\tauthor = {Sohrin, R and Isaji, M and Obara, Y and Agostini, S and Suzuki, Y and Hiroe, Y and Ichikawa, T and Hidaka, K},\n\tmonth = jun,\n\tyear = {2011},\n\tnote = {22 citations (Semantic Scholar/DOI) [2024-02-09]\n22 citations (Crossref) [2024-02-09]},\n\tkeywords = {Dark, Synechococcus, Vertical, distribution, ocean},\n\tpages = {1--14},\n}\n\n\n\n Synechococcus is widely distributed in the world’s ocean surfaces, and is often found in sediment traps. However, its distribution and ecological importance have not been well studied in meso- and bathypelagic waters. We measured Synechococcus abundance in the Suruga Bay (central Japan) and the subtropical NW Pacific. Synechococcus abundance at depths of 200 m and below var- ied from 2.4 to 190 cells ml–1, but was in proportion to the surface abundance, suggesting transport of epipelagic populations to greater depths. Surprisingly, Synechococcus was evenly distributed from 200 m down to 1420 m (Suruga Bay) or to 2000 m (subtropical NW Pacific), regardless of season. The contribution of deep Synechococcus to the total population was highest in spring in the Suruga Bay (36 to 77%), and lowest in summer in the Suruga Bay (1 to 9%) and in the subtropical NW Pacific (4 and 10%). These results suggest effective transport of Synechococcus cells down the water column during productive seasons by attachment to large particles and limited transport under oligotrophic and stratified conditions. Deep Synechococcus abundance decreased from fall to winter in the Suruga Bay, though in filtered deep seawater it did not significantly decrease for 30 d in the dark, and it increased in a light/dark cycle. Our investigations show that the standing stock of Synechococcus has been significantly underestimated in previous studies of epipelagic waters conducted during produc- tive seasons and that Synechococcus seems to be grazed and to contribute to biogeochemical cycles in the dark ocean.\n
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