\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., Genoscope Technical Team, Batisse, J., Beluche, O., Bertrand, L., Bohers, C., Bordelais, I., Brun, E., Dubois, M., Dumont, C., Zineb, E. H., Estrada, B., Ettedgui, E., Fernandez, P., Garidi, S., Guérin, T., Gorrichon, K., Hamon, C., Kientzel, L., Lebled, S., Legrain, C., Lenoble, P., Lepretre, M., Louesse, C., Magdelenat, G., Mahieu, E., Martins, N., Milani, C., Orvain, C., Oztas, S., Payen, E., Petit, E., Rio, G., Robert, D., Ronsin, M., Vacherie, B., 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., & Wincker, P.\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\n\n\n Scientific Data, 10(1): 326. June 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Integrative$ 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 9 downloads\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@article{belser_integrative_2023,\n\ttitle = {Integrative omics framework for characterization of coral reef ecosystems from the {Tara} {Pacific} expedition},\n\tvolume = {10},\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 = {Abstract\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,\n              i.e\n              . 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 = {2023-06-12},\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 {Genoscope Technical Team} and Batisse, Julie and Beluche, Odette and Bertrand, Laurie and Bohers, Chloé and Bordelais, Isabelle and Brun, Elodie and Dubois, Maria and Dumont, Corinne and Zineb, El Hajji and Estrada, Barbara and Ettedgui, Evelyne and Fernandez, Patricia and Garidi, Sonia and Guérin, Thomas and Gorrichon, Kevin and Hamon, Chadia and Kientzel, Lucille and Lebled, Sandrine and Legrain, Chloé and Lenoble, Patricia and Lepretre, Marine and Louesse, Claudine and Magdelenat, Ghislaine and Mahieu, Eric and Martins, Nathalie and Milani, Claire and Orvain, Céline and Oztas, Sophie and Payen, Emilie and Petit, Emmanuelle and Rio, Guillaume and Robert, Dominique and Ronsin, Muriel and Vacherie, Benoit 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\tpages = {326},\n}\n\n

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\n \n\n \n \n Cornwall, C. E., Carlot, J., Branson, O., Courtney, T. A., Harvey, B. P., Perry, C. T., Andersson, A. J., Diaz-Pulido, G., Johnson, M. D., Kennedy, E., Krieger, E. C., Mallela, J., McCoy, S. J., Nugues, M. M., Quinter, E., Ross, C. L., Ryan, E., Saderne, V., & Comeau, S.\n\n\n \n \n \n \n \n Crustose coralline algae can contribute more than corals to coral reef carbonate production.\n \n \n \n \n\n\n \n\n\n\n Communications Earth & Environment, 4(1): 105. April 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Crustose$ 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

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@article{cornwall_crustose_2023,\n\ttitle = {Crustose coralline algae can contribute more than corals to coral reef carbonate production},\n\tvolume = {4},\n\tissn = {2662-4435},\n\turl = {https://doi.org/10.1038/s43247-023-00766-w},\n\tdoi = {10.1038/s43247-023-00766-w},\n\tabstract = {Understanding the drivers of net coral reef calcium carbonate production is increasingly important as ocean warming, acidification, and other anthropogenic stressors threaten the maintenance of coral reef structures and the services these ecosystems provide. Despite intense research effort on coral reef calcium carbonate production, the inclusion of a key reef forming/accreting calcifying group, the crustose coralline algae, remains challenging both from a theoretical and practical standpoint. While corals are typically the primary reef builders of contemporary reefs, crustose coralline algae can contribute equally. Here, we combine several sets of data with numerical and theoretical modelling to demonstrate that crustose coralline algae carbonate production can match or even exceed the contribution of corals to reef carbonate production. Despite their importance, crustose coralline algae are often inaccurately recorded in benthic surveys or even entirely missing from coral reef carbonate budgets. We outline several recommendations to improve the inclusion of crustose coralline algae into such carbonate budgets under the ongoing climate crisis.},\n\tnumber = {1},\n\tjournal = {Communications Earth \\& Environment},\n\tauthor = {Cornwall, Christopher E. and Carlot, Jérémy and Branson, Oscar and Courtney, Travis A. and Harvey, Ben P. and Perry, Chris T. and Andersson, Andreas J. and Diaz-Pulido, Guillermo and Johnson, Maggie D. and Kennedy, Emma and Krieger, Erik C. and Mallela, Jennie and McCoy, Sophie J. and Nugues, Maggy M. and Quinter, Evan and Ross, Claire L. and Ryan, Emma and Saderne, Vincent and Comeau, Steeve},\n\tmonth = apr,\n\tyear = {2023},\n\tpages = {105},\n}\n\n

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\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., & Planes, S.\n\n\n \n \n \n \n \n Diversity of the Pacific Ocean coral reef microbiome.\n \n \n \n \n\n\n \n\n\n\n Nature Communications, 14(1): 3039. June 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Diversity$ 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 10 downloads\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@article{galand_diversity_2023,\n\ttitle = {Diversity of the {Pacific} {Ocean} coral reef microbiome},\n\tvolume = {14},\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 = {Abstract\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\n              Tara\n              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 = {2023-06-12},\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\tpages = {3039},\n}\n\n

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\n \n\n \n \n Hasegawa, M., Inaba, K., Nagakura, Y., Noda, H., & Kawai, N.\n\n\n \n \n \n \n \n Development of an extender solution for short-term sperm storage to promote seed production in alfonsino Beryx splendens.\n \n \n \n \n\n\n \n\n\n\n NIPPON SUISAN GAKKAISHI,22–00062. 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Development$ 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\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@article{hasegawa_development_2023,\n\ttitle = {Development of an extender solution for short-term sperm storage to promote seed production in alfonsino \\textit{{Beryx} splendens}},\n\tissn = {0021-5392, 1349-998X},\n\turl = {https://www.jstage.jst.go.jp/article/suisan/advpub/0/advpub_22-00062/_article/-char/ja/},\n\tdoi = {10.2331/suisan.22-00062},\n\tlanguage = {en},\n\turldate = {2023-05-10},\n\tjournal = {NIPPON SUISAN GAKKAISHI},\n\tauthor = {Hasegawa, Masatoshi and Inaba, Kazuo and Nagakura, Yasuhiro and Noda, Hiroyuki and Kawai, Noriaki},\n\tyear = {2023},\n\tpages = {22--00062},\n}\n\n

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\n \n\n \n \n Hayashi, Y., Wada, S., Seto, M., & Adachi, Y.\n\n\n \n \n \n \n \n Cohesive bond strength of marine aggregates and its role in fragmentation.\n \n \n \n \n\n\n \n\n\n\n Frontiers in Marine Science, 10: 1167169. August 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Cohesive$ 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

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@article{hayashi_cohesive_2023,\n\ttitle = {Cohesive bond strength of marine aggregates and its role in fragmentation},\n\tvolume = {10},\n\tissn = {2296-7745},\n\turl = {https://www.frontiersin.org/articles/10.3389/fmars.2023.1167169/full},\n\tdoi = {10.3389/fmars.2023.1167169},\n\tabstract = {Marine aggregates are one of the main contributors to carbon sequestration in the deep sea through the gravitational settling of biogenic particles formed from the photosynthetic products of phytoplankton. The formation of large particles due to aggregation processes has been the focus of studies in the past, but recent findings on the spatio-temporal distribution of particles suggests that the fragmentation of aggregates plays an important role in aggregate dynamics. Here, we assessed the yield strength of aggregates derived from natural planktonic communities in order to analyze the cohesive bond strength and further understand fragmentation. The experimental approach was designed around the use of a Couette device, which produces a constant laminar shear flow of water. Aggregates were found to have a higher yield strength ({\\textasciitilde}289 ± 64 nN) during phases of nutrient depletion than those of mineral particles such as montmorillonite. Based on an estimated cohesive bond strength of 96 nN a numerical model to predict the temporal variation of aggregate size was created. The output of this model indicates that cohesive bond strength is a major determinant of the size of aggregates in motion. Our findings suggest that the dynamics of marine aggregates are greatly influenced by cohesive bond strength and the role in fragmentation.},\n\turldate = {2024-05-01},\n\tjournal = {Frontiers in Marine Science},\n\tauthor = {Hayashi, Yasuhito and Wada, Shigeki and Seto, Mayumi and Adachi, Yasuhisa},\n\tmonth = aug,\n\tyear = {2023},\n\tpages = {1167169},\n}\n\n

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\n \n\n \n \n Heitzman, J. M., Mitushasi, G., Spatafora, D., & Agostini, S.\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\n\n\n Science of The Total Environment, 900: 166379. November 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Seasonal$ 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\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@article{heitzman_seasonal_2023,\n\ttitle = {Seasonal coral-algae interactions drive {White} {Mat} {Syndrome} coral disease outbreaks},\n\tvolume = {900},\n\tissn = {00489697},\n\turl = {https://linkinghub.elsevier.com/retrieve/pii/S0048969723050040},\n\tdoi = {10.1016/j.scitotenv.2023.166379},\n\tlanguage = {en},\n\turldate = {2023-10-31},\n\tjournal = {Science of The Total Environment},\n\tauthor = {Heitzman, Joshua M. and Mitushasi, Guinther and Spatafora, Davide and Agostini, Sylvain},\n\tmonth = nov,\n\tyear = {2023},\n\tpages = {166379},\n}\n\n

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\n \n\n \n \n Hemraj, D. A., Minuti, J. J., Harvey, B. P., & Russell, B. D.\n\n\n \n \n \n \n \n Marine Heatwaves: Impact on Physiology, Populations, and Communities of Coastal Marine Invertebrates.\n \n \n \n \n\n\n \n\n\n\n In Reference Module in Earth Systems and Environmental Sciences, pages B9780323907989000378. Elsevier, 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Marine$ 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\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@incollection{hemraj_marine_2023,\n\ttitle = {Marine {Heatwaves}: {Impact} on {Physiology}, {Populations}, and {Communities} of {Coastal} {Marine} {Invertebrates}},\n\tisbn = {978-0-12-409548-9},\n\tshorttitle = {Marine {Heatwaves}},\n\turl = {https://linkinghub.elsevier.com/retrieve/pii/B9780323907989000378},\n\tlanguage = {en},\n\turldate = {2023-09-13},\n\tbooktitle = {Reference {Module} in {Earth} {Systems} and {Environmental} {Sciences}},\n\tpublisher = {Elsevier},\n\tauthor = {Hemraj, Deevesh A. and Minuti, Jay J. and Harvey, Ben P. and Russell, Bayden D.},\n\tyear = {2023},\n\tdoi = {10.1016/B978-0-323-90798-9.00037-8},\n\tpages = {B9780323907989000378},\n}\n\n

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\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., & Galand, P. E.\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\n\n\n Nature Communications, 14(1): 3037. June 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Ecology$ 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 2 downloads\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@article{hochart_ecology_2023,\n\ttitle = {Ecology of {Endozoicomonadaceae} in three coral genera across the {Pacific} {Ocean}},\n\tvolume = {14},\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 = {Abstract\n            \n              Health and resilience of the coral holobiont depend on diverse bacterial communities often dominated by key marine symbionts of the\n              Endozoicomonadaceae\n              family. The factors controlling their distribution and their functional diversity remain, however, poorly known. Here, we study the ecology of\n              Endozoicomonadaceae\n              at an ocean basin-scale by sampling specimens from three coral genera (\n              Pocillopora\n              ,\n              Porites\n              ,\n              Millepora\n              ) 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\n              Endozoicomonadaceae\n              . These species are composed of nine lineages that have distinct biogeographic patterns. The most common one, found in\n              Pocillopora\n              , 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\n              Pocillopora\n              and mainly by the geographic location in\n              Porites\n              .\n              Millepora\n              is more rarely associated to\n              Endozoicomonadaceae\n              . Our results show that different coral genera exhibit distinct strategies of host-\n              Endozoicomonadaceae\n              associations that are defined at the bacteria lineage level.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2023-06-12},\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\tpages = {3037},\n}\n\n

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\n \n\n \n \n Hudson, C. J., Agostini, S., Wada, S., Hall-Spencer, J. M., Connell, S. D., & Harvey, B. P.\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\n\n\n Science of The Total Environment,161269. December 2022.\n \n\n\n\n
\n\n\n\n \n \n $\"Ocean$ 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 \n \n 3 downloads\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@article{hudson_ocean_2022,\n\ttitle = {Ocean acidification increases the impact of typhoons on algal communities},\n\tissn = {00489697},\n\turl = {https://linkinghub.elsevier.com/retrieve/pii/S0048969722083735},\n\tdoi = {10.1016/j.scitotenv.2022.161269},\n\tlanguage = {en},\n\turldate = {2023-01-04},\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 = dec,\n\tyear = {2022},\n\tpages = {161269},\n}\n

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\n \n\n \n \n Iguchi, R., Nakayama, S., Sasakura, Y., Sekiguchi, T., & Ogasawara, M.\n\n\n \n \n \n \n \n Repetitive and zonal expression profiles of absorption-related genes in the gastrointestinal tract of ascidian Ciona intestinalis type A.\n \n \n \n \n\n\n \n\n\n\n Cell and Tissue Research, 394(2): 343–360. November 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Repetitive$ 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\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@article{iguchi_repetitive_2023,\n\ttitle = {Repetitive and zonal expression profiles of absorption-related genes in the gastrointestinal tract of ascidian \\textit{{Ciona} intestinalis} type {A}},\n\tvolume = {394},\n\tissn = {0302-766X, 1432-0878},\n\turl = {https://link.springer.com/10.1007/s00441-023-03828-9},\n\tdoi = {10.1007/s00441-023-03828-9},\n\tlanguage = {en},\n\tnumber = {2},\n\turldate = {2024-04-04},\n\tjournal = {Cell and Tissue Research},\n\tauthor = {Iguchi, Rin and Nakayama, Satoshi and Sasakura, Yasunori and Sekiguchi, Toshio and Ogasawara, Michio},\n\tmonth = nov,\n\tyear = {2023},\n\tpages = {343--360},\n}\n\n

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\n \n\n \n \n Iguchi, R., Usui, K., Nakayama, S., Sasakura, Y., Sekiguchi, T., & Ogasawara, M.\n\n\n \n \n \n \n \n Multi-regional expression of pancreas-related digestive enzyme genes in the intestinal chamber of the ascidian Ciona intestinalis type A.\n \n \n \n \n\n\n \n\n\n\n Cell and Tissue Research, 394(3): 423–430. December 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Multi-regional$ 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\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@article{iguchi_multi-regional_2023,\n\ttitle = {Multi-regional expression of pancreas-related digestive enzyme genes in the intestinal chamber of the ascidian \\textit{{Ciona} intestinalis} type {A}},\n\tvolume = {394},\n\tissn = {0302-766X, 1432-0878},\n\turl = {https://link.springer.com/10.1007/s00441-023-03839-6},\n\tdoi = {10.1007/s00441-023-03839-6},\n\tlanguage = {en},\n\tnumber = {3},\n\turldate = {2024-04-04},\n\tjournal = {Cell and Tissue Research},\n\tauthor = {Iguchi, Rin and Usui, Kanae and Nakayama, Satoshi and Sasakura, Yasunori and Sekiguchi, Toshio and Ogasawara, Michio},\n\tmonth = dec,\n\tyear = {2023},\n\tpages = {423--430},\n}\n\n

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\n \n\n \n \n Kamata, M., Taniguchi, Y., Yaguchi, J., Tanaka, H., & Yaguchi, S.\n\n\n \n \n \n \n \n Nonmuscular Troponin‐I is required for gastrulation in sea urchin embryos.\n \n \n \n \n\n\n \n\n\n\n Developmental Dynamics,dvdy.680. December 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Nonmuscular$ 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

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@article{kamata_nonmuscular_2023,\n\ttitle = {Nonmuscular {Troponin}‐{I} is required for gastrulation in sea urchin embryos},\n\tissn = {1058-8388, 1097-0177},\n\turl = {https://anatomypubs.onlinelibrary.wiley.com/doi/10.1002/dvdy.680},\n\tdoi = {10.1002/dvdy.680},\n\tabstract = {Abstract\n            \n              Background\n              \n                Gastrulation is one of the most important events in our lives (Barresi and Gilbert, 2020,\n                Developmental Biology\n                , 12th ed.). The molecular mechanisms of gastrulation in multicellular organisms are not yet fully understood, since many molecular, physical, and chemical factors are involved in the event.\n              \n            \n            \n              Results\n              \n                Here, we found that one of muscle components, Troponin‐I (TnI), is expressed in future gut cells, which are not muscular cells at all, and regulates gastrulation in embryos of a sea urchin,\n                Hemicentrotus pulcherrimus\n                . When we block the function of TnI, the invagination was inhibited in spite that the gut‐cell specifier gene is normally expressed. In addition, blocking myosin activity also induced incomplete gastrulation.\n              \n            \n            \n              Conclusion\n              \n                These results strongly suggested that TnI regulates nonmuscular actin–myosin interactions during sea urchin gastrulation. So far, Troponin system is treated as specific only for muscle components, especially for striated muscle, but our data clearly show that TnI is involved in nonmuscular event. It is also reported that recent sensitive gene expression analysis revealed that Troponin genes are expressed in nonmuscular tissues in mammals (Ono et al.,\n                Sci Data\n                , 2017;4:170105). These evidences propose the new evolutionary and functional scenario of the involvement of Troponin system in nonmuscular cell behaviors using actin‐myosin system in bilaterians including human being.},\n\tlanguage = {en},\n\turldate = {2024-04-04},\n\tjournal = {Developmental Dynamics},\n\tauthor = {Kamata, Mai and Taniguchi, Yuri and Yaguchi, Junko and Tanaka, Hiroyuki and Yaguchi, Shunsuke},\n\tmonth = dec,\n\tyear = {2023},\n\tpages = {dvdy.680},\n}\n\n

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\n \n\n \n \n Kijima, T., Kurokawa, D., Sasakura, Y., Ogasawara, M., Aratake, S., Yoshida, K., & Yoshida, M.\n\n\n \n \n \n \n \n CatSper mediates not only chemotactic behavior but also the motility of ascidian sperm.\n \n \n \n \n\n\n \n\n\n\n Frontiers in Cell and Developmental Biology, 11: 1136537. November 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"CatSper$ 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

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@article{kijima_catsper_2023,\n\ttitle = {{CatSper} mediates not only chemotactic behavior but also the motility of ascidian sperm},\n\tvolume = {11},\n\tissn = {2296-634X},\n\turl = {https://www.frontiersin.org/articles/10.3389/fcell.2023.1136537/full},\n\tdoi = {10.3389/fcell.2023.1136537},\n\tabstract = {Introduction:\n              Sperm motility, including chemotactic behavior, is regulated by changes in the intracellular Ca\n              2+\n              concentration, and the sperm-specific Ca\n              2+\n              channel CatSper has been shown to play an important role in the regulation of intracellular Ca\n              2+\n              . In particular, in mammals, CatSper is the only functional Ca\n              2+\n              channel in the sperm, and mice deficient in the genes comprising the pore region of the Ca\n              2+\n              channel are infertile due to the inhibition of sperm hyperactivation. CatSper is also thought to be involved in sea urchin chemotaxis. In contrast, in ascidian\n              Ciona intestinalis\n              , SAAF, a sperm attractant, interacts with Ca\n              2+\n              /ATPase, a Ca\n              2+\n              pump. Although the existence of\n              CatSper\n              genes has been reported, it is not clear whether CatSper is a functional Ca\n              2+\n              channel in sperm.\n            \n            \n              Results:\n              We showed that CatSper is present in the sperm flagella of\n              C. intestinalis\n              as in mammalian species, although a small level of gene expression was found in other tissues. The spermatozoa of\n              CatSper3\n              KO animals were significantly less motile, and some motile sperms did not show any chemotactic behavior. These results suggest that CatSper plays an important role in ascidians and mammals, and is involved in spermatogenesis and basic motility mechanisms.},\n\turldate = {2024-04-04},\n\tjournal = {Frontiers in Cell and Developmental Biology},\n\tauthor = {Kijima, Taiga and Kurokawa, Daisuke and Sasakura, Yasunori and Ogasawara, Michio and Aratake, Satoe and Yoshida, Kaoru and Yoshida, Manabu},\n\tmonth = nov,\n\tyear = {2023},\n\tpages = {1136537},\n}\n\n

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\n \n\n \n \n Kinoshita‐Terauchi, N., Shiba, K., Umezawa, T., & Inaba, K.\n\n\n \n \n \n \n \n Distinct regulation of two flagella by calcium during chemotaxis of male gametes in the brown alga Mutimo cylindricus (Cutleriaceae, Tilopteridales).\n \n \n \n \n\n\n \n\n\n\n Journal of Phycology,jpy.13422. December 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Distinct$ 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 1 download\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@article{kinoshitaterauchi_distinct_2023,\n\ttitle = {Distinct regulation of two flagella by calcium during chemotaxis of male gametes in the brown alga \\textit{{Mutimo} cylindricus} ({Cutleriaceae}, {Tilopteridales})},\n\tissn = {0022-3646, 1529-8817},\n\turl = {https://onlinelibrary.wiley.com/doi/10.1111/jpy.13422},\n\tdoi = {10.1111/jpy.13422},\n\tabstract = {Abstract\n            \n              Brown algal male gametes show chemotaxis to the sex pheromone that is released from female gametes. The chemotactic behavior of the male gametes is controlled by the changes in the beating of two flagella known as the anterior and posterior flagellum. Our previous study using\n              Mutimo cylindricus\n              showed that the sex pheromone induced an increment in both the deflection angle of the anterior flagellum and sustained unilateral bend of the posterior flagellum, but the mechanisms regulating these two flagellar waveforms were not fully revealed. In this study, we analyzed the changes in swimming path and flagellar waveforms with a high‐speed recording system under different calcium conditions. The extracellular Ca\n              2+\n              concentration at 10\n              −3\n               M caused an increment in the deflection angle of the anterior flagellum only when ionomycin was absent. No sustained unilateral bend of the posterior flagellum was induced either in the absence or presence of ionomycin in extracellular Ca\n              2+\n              concentrations below 10\n              −2\n               M. Real‐time Ca\n              2+\n              imaging revealed that there is a spot near the basal part of anterior flagellum showing higher Ca\n              2+\n              than in the other parts of the cell. The intensity of the spot slightly decreased when male gametes were treated with the sex pheromone. These results suggest that Ca\n              2+\n              ‐dependent changes in the anterior and posterior flagellum are regulated by distinct mechanisms and that the increase in the anterior flagellar deflection angle and sustained unilateral bend of the posterior flagellum may not be primarily induced by the Ca\n              2+\n              concentration.},\n\tlanguage = {en},\n\turldate = {2024-04-03},\n\tjournal = {Journal of Phycology},\n\tauthor = {Kinoshita‐Terauchi, Nana and Shiba, Kogiku and Umezawa, Taiki and Inaba, Kazuo},\n\tmonth = dec,\n\tyear = {2023},\n\tpages = {jpy.13422},\n}\n\n

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\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., & Gorsky, G.\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\n\n\n Scientific Data, 10(1): 324. June 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Open$ 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 2 downloads\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@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\tissn = {2052-4463},\n\turl = {https://www.nature.com/articles/s41597-022-01757-w},\n\tdoi = {10.1038/s41597-022-01757-w},\n\tabstract = {Abstract\n            \n              The\n              Tara\n              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 = {2023-06-12},\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\tpages = {324},\n}\n\n

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\n \n\n \n \n Morita, M., Kitanobo, S., Ohki, S., Shiba, K., & Inaba, K.\n\n\n \n \n \n \n \n Positive selection on ADAM10 builds species recognition in the synchronous spawning coral Acropora.\n \n \n \n \n\n\n \n\n\n\n Frontiers in Cell and Developmental Biology, 11: 1171495. April 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Positive$ 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

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@article{morita_positive_2023,\n\ttitle = {Positive selection on {ADAM10} builds species recognition in the synchronous spawning coral \\textit{{Acropora}}},\n\tvolume = {11},\n\tissn = {2296-634X},\n\turl = {https://www.frontiersin.org/articles/10.3389/fcell.2023.1171495/full},\n\tdoi = {10.3389/fcell.2023.1171495},\n\tabstract = {The reef-building coral\n              Acropora\n              is a broadcast spawning hermaphrodite including more than 110 species in the Indo-Pacific. In addition, many sympatric species show synchronous spawning. The released gametes need to mate with conspecifics in the mixture of the gametes of many species for their species boundaries. However, the mechanism underlying the species recognition of conspecifics at fertilization remains unknown. We hypothesized that rapid molecular evolution (positive selection) in genes encoding gamete-composing proteins generates polymorphic regions that recognize conspecifics in the mixture of gametes from many species. We identified gamete proteins of\n              Acropora digitifera\n              using mass spectrometry and screened the genes that support branch site models that set the “foreground” branches showing strict fertilization specificity. ADAM10, ADAM17, Integrin α9, and Tetraspanin4 supported branch-site model and had positively selected site(s) that produced polymorphic regions. Therefore, we prepared antibodies against the proteins of\n              A. digitifera\n              that contained positively selected site(s) to analyze their functions in fertilization. The ADAM10 antibody reacted only with egg proteins of\n              A. digitifera\n              , and immunohistochemistry showed ADAM10 localized around the egg surface. Moreover, the ADAM10 antibody inhibited only\n              A. digitifera\n              fertilization but not the relative synchronous spawning species\n              A. papillare\n              . This study indicates that ADAM10 has evolved to gain fertilization specificity during speciation and contributes to species boundaries in this multi-species, synchronous-spawning, and species-rich genus.},\n\turldate = {2023-05-10},\n\tjournal = {Frontiers in Cell and Developmental Biology},\n\tauthor = {Morita, Masaya and Kitanobo, Seiya and Ohki, Shun and Shiba, Kogiku and Inaba, Kazuo},\n\tmonth = apr,\n\tyear = {2023},\n\tpages = {1171495},\n}\n\n

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\n \n\n \n \n Nakano, H., Nakano, A., Maeno, A., & Thorndyke, M. C.\n\n\n \n \n \n \n \n Induced spawning with gamete release from body ruptures during reproduction of Xenoturbella bocki.\n \n \n \n \n\n\n \n\n\n\n Communications Biology, 6(1): 172. February 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Induced$ 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

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@article{nakano_induced_2023,\n\ttitle = {Induced spawning with gamete release from body ruptures during reproduction of \\textit{{Xenoturbella} bocki}},\n\tvolume = {6},\n\tissn = {2399-3642},\n\turl = {https://www.nature.com/articles/s42003-023-04549-z},\n\tdoi = {10.1038/s42003-023-04549-z},\n\tabstract = {Abstract\n            \n              Xenoturbella\n              is a marine invertebrate with a simple body plan, with recent phylogenomic studies suggesting that it forms the phylum Xenacoelomorpha together with the acoelomorphs. The phylogenetic position of the phylum is still under debate, whether it is an early branching bilaterian or a sister group to the Ambulacraria. Phylogenetic traits often appear during development, and larva resembling the cnidarian planula has been reported for\n              Xenoturbella\n              . However, subsequent developmental studies on\n              Xenoturbella\n              have been scarce. This is mainly due to the difficulties in collecting and keeping adult animals, resulting in the lack of data on the reproduction of the animal, such as the breeding season and the spawning pattern. Here we report on the reproduction of\n              X. bocki\n              and confirm that its breeding season is winter. Spawning induction resulted in gametes being released from body ruptures and not the mouth. No evidence supported the animal as a simultaneous hermaphrodite.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2023-02-20},\n\tjournal = {Communications Biology},\n\tauthor = {Nakano, Hiroaki and Nakano, Ako and Maeno, Akiteru and Thorndyke, Michael C.},\n\tmonth = feb,\n\tyear = {2023},\n\tpages = {172},\n}\n\n

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\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., & Aury, J.\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\n\n\n Genome Biology, 24(1): 123. June 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Pervasive$ 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

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@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://genomebiology.biomedcentral.com/articles/10.1186/s13059-023-02960-7},\n\tdoi = {10.1186/s13059-023-02960-7},\n\tabstract = {Abstract\n            \n              Background\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              Results\n              \n                In the frame of the Tara Pacific expedition, we assemble two coral genomes,\n                Porites lobata\n                and\n                Pocillopora\n                cf.\n                effusa,\n                with vastly improved contiguity that allows us to study the functional organization of these genomes. We annotate their gene catalog and report a relatively higher gene number than that found in other public coral genome sequences, 43,000 and 32,000 genes, respectively. This finding is explained by a high number of tandemly duplicated genes, accounting for almost a third of the predicted genes. We show that these duplicated genes originate from multiple and distinct duplication events throughout the coral lineage. They contribute to the amplification of gene families, mostly related to the immune system and disease resistance, which we suggest to be functionally linked to coral host resilience.\n              \n            \n            \n              Conclusions\n              At large, we show the importance of duplicated genes to inform the biology of reef-building corals and provide novel avenues to understand and screen for differences in stress resilience.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2023-06-12},\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\tpages = {123},\n}\n\n

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\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., & Rodolfo-Metalpa, R.\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\n\n\n Coral Reefs. April 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"High$ 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 1 download\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@article{reimer_high_2023,\n\ttitle = {High abundances of zooxanthellate zoantharians ({Palythoa} and {Zoanthus}) at multiple natural analogues: potential model anthozoans?},\n\tissn = {1432-0975},\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\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 = apr,\n\tyear = {2023},\n}\n\n

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\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., & Gilson, E.\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\n\n\n Nature Communications, 14(1): 3038. June 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Telomere$ 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 5 downloads\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@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\tissn = {2041-1723},\n\turl = {https://www.nature.com/articles/s41467-023-38499-1},\n\tdoi = {10.1038/s41467-023-38499-1},\n\tabstract = {Abstract\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\n              Pocillopora\n              spp. colonies were largely determined by seasonal temperature variation, whereas those of the long-lived, more stress-resistant\n              Porites\n              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 = {2023-06-12},\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\tpages = {3038},\n}\n\n

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\n \n\n \n \n Sakai, T., Yamamoto, T., Watanabe, T., Hozumi, A., Shiraishi, A., Osugi, T., Matsubara, S., Kawada, T., Sasakura, Y., Takahashi, T., & Satake, H.\n\n\n \n \n \n \n \n Characterization of a novel species-specific 51-amino acid peptide, PEP51, as a caspase-3/7 activator in ovarian follicles of the ascidian, Ciona intestinalis Type A.\n \n \n \n \n\n\n \n\n\n\n Frontiers in Endocrinology, 14: 1260600. September 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Characterization$ 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

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@article{sakai_characterization_2023,\n\ttitle = {Characterization of a novel species-specific 51-amino acid peptide, {PEP51}, as a caspase-3/7 activator in ovarian follicles of the ascidian, \\textit{{Ciona} intestinalis} {Type} {A}},\n\tvolume = {14},\n\tissn = {1664-2392},\n\turl = {https://www.frontiersin.org/articles/10.3389/fendo.2023.1260600/full},\n\tdoi = {10.3389/fendo.2023.1260600},\n\tabstract = {Invertebrates lack hypothalamic-pituitary-gonadal axis, and have acquired species-specific regulatory systems for ovarian follicle development. Ascidians are marine invertebrates that are the phylogenetically closest living relatives to vertebrates, and we have thus far substantiated the molecular mechanisms underlying neuropeptidergic follicle development of the cosmopolitan species,\n              Ciona intestinalis\n              Type A. However, no ovarian factor has so far been identified in\n              Ciona\n              . In the present study, we identified a novel\n              Ciona\n              -specific peptide, termed PEP51, in the ovary. Immunohistochemical analysis demonstrated the specific expression of PEP51 in oocyte-associated accessory cells, test cells, of post-vitellogenic (stage III) follicles. Immunoelectron microscopy revealed that PEP51 was localized in the cytosol of test cells in early stage III follicles, which lack secretory granules. These results indicate that PEP51 acts as an intracellular factor within test cells rather than as a secretory peptide. Confocal laser microscopy verified that activation of caspase-3/7, the canonical apoptosis marker, was detected in most PEP51-positive test cells of early stage III. This colocalization of PEP51 and the apoptosis marker was consistent with immunoelectron microscopy observations demonstrating that a few normal (PEP51-negative) test cells reside in the aggregates of PEP51-positive apoptotic test cells of early stage III follicles. Furthermore, transfection of the PEP51 gene into COS-7 cells and HEK293MSR cells resulted in activation of caspase-3/7, providing evidence that PEP51 induces apoptotic signaling. Collectively, these results showed the existence of species-specific ovarian peptide-driven cell metabolism in\n              Ciona\n              follicle development. Consistent with the phylogenetic position of\n              Ciona\n              as the closest sister group of vertebrates, the present study sheds new light on the molecular and functional diversity of the regulatory systems of follicle development in the Chordata.},\n\turldate = {2024-04-04},\n\tjournal = {Frontiers in Endocrinology},\n\tauthor = {Sakai, Tsubasa and Yamamoto, Tatsuya and Watanabe, Takehiro and Hozumi, Akiko and Shiraishi, Akira and Osugi, Tomohiro and Matsubara, Shin and Kawada, Tsuyoshi and Sasakura, Yasunori and Takahashi, Toshio and Satake, Honoo},\n\tmonth = sep,\n\tyear = {2023},\n\tpages = {1260600},\n}\n\n

\n

\n\n\n

\n Invertebrates lack hypothalamic-pituitary-gonadal axis, and have acquired species-specific regulatory systems for ovarian follicle development. Ascidians are marine invertebrates that are the phylogenetically closest living relatives to vertebrates, and we have thus far substantiated the molecular mechanisms underlying neuropeptidergic follicle development of the cosmopolitan species, Ciona intestinalis Type A. However, no ovarian factor has so far been identified in Ciona . In the present study, we identified a novel Ciona -specific peptide, termed PEP51, in the ovary. Immunohistochemical analysis demonstrated the specific expression of PEP51 in oocyte-associated accessory cells, test cells, of post-vitellogenic (stage III) follicles. Immunoelectron microscopy revealed that PEP51 was localized in the cytosol of test cells in early stage III follicles, which lack secretory granules. These results indicate that PEP51 acts as an intracellular factor within test cells rather than as a secretory peptide. Confocal laser microscopy verified that activation of caspase-3/7, the canonical apoptosis marker, was detected in most PEP51-positive test cells of early stage III. This colocalization of PEP51 and the apoptosis marker was consistent with immunoelectron microscopy observations demonstrating that a few normal (PEP51-negative) test cells reside in the aggregates of PEP51-positive apoptotic test cells of early stage III follicles. Furthermore, transfection of the PEP51 gene into COS-7 cells and HEK293MSR cells resulted in activation of caspase-3/7, providing evidence that PEP51 induces apoptotic signaling. Collectively, these results showed the existence of species-specific ovarian peptide-driven cell metabolism in Ciona follicle development. Consistent with the phylogenetic position of Ciona as the closest sister group of vertebrates, the present study sheds new light on the molecular and functional diversity of the regulatory systems of follicle development in the Chordata.\n

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\n \n\n \n \n Sasakura, Y., & Horie, T.\n\n\n \n \n \n \n \n Improved Genome Editing in the Ascidian Ciona with CRISPR/Cas9 and TALEN.\n \n \n \n \n\n\n \n\n\n\n In Hatada, I., editor(s), Genome Editing in Animals, volume 2637, pages 375–388. Springer US, New York, NY, 2023.\n Series Title: Methods in Molecular Biology\n\n\n\n
\n\n\n\n \n \n $\"Improved$ 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 \n \n 1 download\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@incollection{hatada_improved_2023,\n\taddress = {New York, NY},\n\ttitle = {Improved {Genome} {Editing} in the {Ascidian} \\textit{{Ciona}} with {CRISPR}/{Cas9} and {TALEN}},\n\tvolume = {2637},\n\tisbn = {978-1-07-163015-0 978-1-07-163016-7},\n\turl = {https://link.springer.com/10.1007/978-1-0716-3016-7_28},\n\tlanguage = {en},\n\turldate = {2023-05-11},\n\tbooktitle = {Genome {Editing} in {Animals}},\n\tpublisher = {Springer US},\n\tauthor = {Sasakura, Yasunori and Horie, Takeo},\n\teditor = {Hatada, Izuho},\n\tyear = {2023},\n\tdoi = {10.1007/978-1-0716-3016-7_28},\n\tnote = {Series Title: Methods in Molecular Biology},\n\tpages = {375--388},\n}\n\n

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\n \n\n \n \n Sensui, N., Itoh, Y., Okura, N., Shiba, K., Baba, S. A., Inaba, K., & Yoshida, M.\n\n\n \n \n \n \n \n Spawning-induced pH increase activates sperm attraction and fertilization abilities in eggs of the Ascidian, Phallusia philippinensis and Ciona intestinalis.\n \n \n \n \n\n\n \n\n\n\n International Journal of Molecular Sciences, 24(3): 2666. January 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Spawning-induced$ 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

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@article{sensui_spawning-induced_2023,\n\ttitle = {Spawning-induced {pH} increase activates sperm attraction and fertilization abilities in eggs of the {Ascidian}, \\textit{{Phallusia} philippinensis} and \\textit{{Ciona} intestinalis}},\n\tvolume = {24},\n\tissn = {1422-0067},\n\turl = {https://www.mdpi.com/1422-0067/24/3/2666},\n\tdoi = {10.3390/ijms24032666},\n\tabstract = {In Phlebobranchiata ascidians, oocytes and spermatozoa are stored in the oviduct and spermiduct, respectively, until spawning occurs. Gametes in the gonoducts are mature and fertilizable; however, it was found that the gametes of the ascidians Phallusia philippinensis and Ciona intestinalis could not undergo fertilization in the gonoductal fluids. The body fluids of the ascidians, especially in the gonoducts, were much more acidic (pH 5.5–6.8) than seawater (pH 8.2), and the fertilization rate was low under such acidic conditions. Hence, we examined the effect of pH on gametes. Pre-incubation of gonoductal eggs at pH 8.2 prior to insemination increased fertilization rates, even when insemination was performed under low pH conditions. Furthermore, an increase in ambient pH induced an increase in the intracellular pH of the eggs. It was also found that an increase in ambient pH triggered the release of sperm attractants from the egg and is therefore necessary for sperm chemotaxis. Hence, acidic conditions in the gonoductal fluids keep the gametes, especially eggs, infertile, and the release of eggs into seawater upon spawning induces an increase in ambient pH, which enables egg fertilization.},\n\tlanguage = {en},\n\tnumber = {3},\n\turldate = {2023-05-10},\n\tjournal = {International Journal of Molecular Sciences},\n\tauthor = {Sensui, Noburu and Itoh, Yosinori and Okura, Nobuhiko and Shiba, Kogiku and Baba, Shoji A. and Inaba, Kazuo and Yoshida, Manabu},\n\tmonth = jan,\n\tyear = {2023},\n\tpages = {2666},\n}\n\n

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\n \n\n \n \n Seto, M., Harvey, B. P., Wada, S., & Agostini, S.\n\n\n \n \n \n \n \n Potential ecosystem regime shift resulting from elevated CO$_{\\textrm{2}}$ and inhibition of macroalgal recruitment by turf algae.\n \n \n \n \n\n\n \n\n\n\n Theoretical Ecology, 16: 1–12. January 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Potential$ 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 \n \n 3 downloads\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@article{seto_potential_2023,\n\ttitle = {Potential ecosystem regime shift resulting from elevated {CO}$_{\\textrm{2}}$ and inhibition of macroalgal recruitment by turf algae},\n\tvolume = {16},\n\tissn = {1874-1738, 1874-1746},\n\turl = {https://link.springer.com/10.1007/s12080-022-00550-0},\n\tdoi = {10.1007/s12080-022-00550-0},\n\tlanguage = {en},\n\turldate = {2023-01-04},\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\tpages = {1--12},\n}\n\n

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\n \n\n \n \n Shiba, K.\n\n\n \n \n \n \n \n Regulatory mechanisms for sperm chemotaxis and flagellar motility.\n \n \n \n \n\n\n \n\n\n\n genesis, 61(6): e23549. November 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Regulatory$ 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\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@article{shiba_regulatory_2023,\n\ttitle = {Regulatory mechanisms for sperm chemotaxis and flagellar motility},\n\tvolume = {61},\n\tissn = {1526-954X, 1526-968X},\n\turl = {https://onlinelibrary.wiley.com/doi/10.1002/dvg.23549},\n\tdoi = {10.1002/dvg.23549},\n\tlanguage = {en},\n\tnumber = {6},\n\turldate = {2024-04-03},\n\tjournal = {genesis},\n\tauthor = {Shiba, Kogiku},\n\tmonth = nov,\n\tyear = {2023},\n\tpages = {e23549},\n}\n\n

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\n \n\n \n \n Shiba, K., Baba, S. A., Fujiwara, E., & Inaba, K.\n\n\n \n \n \n \n \n Calaxin is required for asymmetric bend initiation and propagation in sperm flagella.\n \n \n \n \n\n\n \n\n\n\n Frontiers in Cell and Developmental Biology, 11: 1136404. March 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Calaxin$ 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

@article{shiba_calaxin_2023,\n\ttitle = {Calaxin is required for asymmetric bend initiation and propagation in sperm flagella},\n\tvolume = {11},\n\tissn = {2296-634X},\n\turl = {https://www.frontiersin.org/articles/10.3389/fcell.2023.1136404/full},\n\tdoi = {10.3389/fcell.2023.1136404},\n\tabstract = {Regulation of waveform asymmetry in flagella is critical for changes in direction when sperm are swimming, as seen during the chemotaxis of sperm towards eggs. Ca\n              2+\n              is an important regulator of asymmetry in flagellar waveforms. A calcium sensor protein, calaxin, is associated with the outer arm dynein and plays a key role in the regulation of flagellar motility in a Ca\n              2+\n              -dependent manner. However, the underlying mechanism of regulating asymmetric waves by means of Ca\n              2+\n              and calaxin remains unclear. To clarify the calaxin-dependent mechanism for generating Ca\n              2+\n              -dependent asymmetric flagellar waveforms, we analyzed the initial step of flagellar bend formation and propagation in the sperm of the ascidian\n              Ciona intestinalis\n              . Our experiment used demembranated sperm cells, which were then reactivated by UV flash photolysis of caged ATP under both high and low Ca\n              2+\n              concentrations. Here, we show that initial bends in the flagella are formed at the base of the sperm and propagate towards the tip during waveform generation. However, the direction of the initial bend differed between asymmetric and symmetric waves. When a calaxin inhibitor (repaglinide) was applied, it resulted in the failure of asymmetric wave formation and propagation. This was because repaglinide had no effect on initial bend formation, but it significantly inhibited the generation of the subsequent bend in the reverse direction. Switching of dynein sliding activity by mechanical feedback is crucial for flagellar oscillation. Our results suggest that the Ca\n              2+\n              /calaxin mechanism plays an important role in the switching of dynein activity from microtubule sliding in the principal bend into the suppressed sliding in the reverse bend, thereby allowing the sperm to successfully change direction.},\n\turldate = {2023-05-10},\n\tjournal = {Frontiers in Cell and Developmental Biology},\n\tauthor = {Shiba, Kogiku and Baba, Shoji A. and Fujiwara, Eiji and Inaba, Kazuo},\n\tmonth = mar,\n\tyear = {2023},\n\tpages = {1136404},\n}\n\n

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\n \n\n \n \n Shiba, K., & Inaba, K.\n\n\n \n \n \n \n \n The Role of Soluble Adenylyl Cyclase in the Regulation of Flagellar Motility in Ascidian Sperm.\n \n \n \n \n\n\n \n\n\n\n Biomolecules, 13(11): 1594. October 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"The$ 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

@article{shiba_role_2023,\n\ttitle = {The {Role} of {Soluble} {Adenylyl} {Cyclase} in the {Regulation} of {Flagellar} {Motility} in {Ascidian} {Sperm}},\n\tvolume = {13},\n\tcopyright = {https://creativecommons.org/licenses/by/4.0/},\n\tissn = {2218-273X},\n\turl = {https://www.mdpi.com/2218-273X/13/11/1594},\n\tdoi = {10.3390/biom13111594},\n\tabstract = {Flagellar motility in sperm is activated and regulated by factors related to the eggs at fertilization. In the ascidian Ciona intestinalis, a sulfated steroid called the SAAF (sperm activating and attracting factor) induces both sperm motility activation and chemotaxis. Cyclic AMP (cAMP) is one of the most important intracellular factors in the sperm signaling pathway. Adenylyl cyclase (AC) is the key enzyme that synthesizes cAMP at the onset of the signaling pathway in all cellular functions. We previously reported that both transmembrane AC (tmAC) and soluble AC (sAC) play important roles in sperm motility in Ciona. The tmAC plays a major role in the SAAF-induced activation of sperm motility. On the other hand, sAC is involved in the regulation of flagellar beat frequency and the Ca2+-dependent chemotactic movement of sperm. In this study, we focused on the role of sAC in the regulation of flagellar motility in Ciona sperm chemotaxis. The immunochemical analysis revealed that several isoforms of sAC protein were expressed in Ciona sperm, as reported in mammals and sea urchins. We demonstrated that sAC inhibition caused strong and transient asymmetrization during the chemotactic turn, and then sperm failed to turn toward the SAAF. In addition, real-time Ca2+ imaging in sperm flagella revealed that sAC inhibition induced an excessive and prolonged Ca2+ influx to flagella. These results indicate that sAC plays a key role in sperm chemotaxis by regulating the clearance of [Ca2+]i and by modulating Ca2+-dependent flagellar waveform conversion.},\n\tlanguage = {en},\n\tnumber = {11},\n\turldate = {2024-04-03},\n\tjournal = {Biomolecules},\n\tauthor = {Shiba, Kogiku and Inaba, Kazuo},\n\tmonth = oct,\n\tyear = {2023},\n\tpages = {1594},\n}\n\n

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\n \n\n \n \n Totsuka, N. M., Kuwana, S., Sawai, S., Oka, K., Sasakura, Y., & Hotta, K.\n\n\n \n \n \n \n \n Distribution changes of non‐self‐test cells and self‐tunic cells surrounding the outer body during Ciona metamorphosis.\n \n \n \n \n\n\n \n\n\n\n Developmental Dynamics, 252(11): 1363–1374. November 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Distribution$ 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

@article{totsuka_distribution_2023,\n\ttitle = {Distribution changes of non‐self‐test cells and self‐tunic cells surrounding the outer body during \\textit{{Ciona}} metamorphosis},\n\tvolume = {252},\n\tissn = {1058-8388, 1097-0177},\n\turl = {https://anatomypubs.onlinelibrary.wiley.com/doi/10.1002/dvdy.636},\n\tdoi = {10.1002/dvdy.636},\n\tabstract = {Abstract\n            \n              Background\n              : Ascidians significantly change their body structure through metamorphosis, but the spatio‐temporal cell dynamics in the early metamorphosis stage has not been clarified. A natural\n              Ciona\n              embryo is surrounded by maternally derived non‐self‐test cells before metamorphosis. However, after metamorphosis, the juvenile is surrounded by self‐tunic cells derived from mesenchymal cell lineages. Both test cells and tunic cells are thought to be changed their distributions during metamorphosis, but the precise timing is unknown.\n            \n            \n              Results\n              : Using a metamorphosis induction by mechanical stimulation, we investigated the dynamics of mesenchymal cells during metamorphosis in a precise time course. After the stimulation, two‐round Ca\n              2+\n              transients were observed. Migrating mesenchymal cells came out through the epidermis within 10 min after the second phase. We named this event “cell extravasation.” The cell extravasation occurred at the same time as the backward movement of posterior trunk epidermal cells. Timelapse imaging of transgenic‐line larva revealed that non‐self‐test cells and self‐tunic cells temporarily coexist outside the body until the test cells are eliminated. At the juvenile stage, only extravasated self‐tunic cells remained outside the body.\n            \n            \n              Conclusions\n              : We found that mesenchymal cells extravasated following two‐round Ca\n              2+\n              transients, and distributions of test cells and tunic cells changed in the outer body after tail regression.\n            \n          , \n            Key Findings\n            \n              \n                \n                  We found mesenchymal cells were released from multiple points in the epidermis of the trunk (extravasation) after mechanical stimulation.\n                \n                \n                  Extravasation occurs simultaneously with backward movement of the epidermis.\n                \n                \n                  Before metamorphosis, mesenchymal cells already migrated beneath the epidermis.\n                \n                \n                  Three‐dimensional timelapse imaging revealed that extravasated cells were divided into two groups: faster migrating cell groups than before metamorphosis and slower cell groups.\n                \n                \n                  After extravasation, non‐self‐external cells are eliminated and self‐extravasated cells surrounded the outer body. Both cells are thought to be responsible for defense.},\n\tlanguage = {en},\n\tnumber = {11},\n\turldate = {2024-04-04},\n\tjournal = {Developmental Dynamics},\n\tauthor = {Totsuka, Nozomu M. and Kuwana, Satoshi and Sawai, Satoshi and Oka, Kotaro and Sasakura, Yasunori and Hotta, Kohji},\n\tmonth = nov,\n\tyear = {2023},\n\tpages = {1363--1374},\n}\n\n

\n

\n\n\n

\n Abstract Background : Ascidians significantly change their body structure through metamorphosis, but the spatio‐temporal cell dynamics in the early metamorphosis stage has not been clarified. A natural Ciona embryo is surrounded by maternally derived non‐self‐test cells before metamorphosis. However, after metamorphosis, the juvenile is surrounded by self‐tunic cells derived from mesenchymal cell lineages. Both test cells and tunic cells are thought to be changed their distributions during metamorphosis, but the precise timing is unknown. Results : Using a metamorphosis induction by mechanical stimulation, we investigated the dynamics of mesenchymal cells during metamorphosis in a precise time course. After the stimulation, two‐round Ca 2+ transients were observed. Migrating mesenchymal cells came out through the epidermis within 10 min after the second phase. We named this event “cell extravasation.” The cell extravasation occurred at the same time as the backward movement of posterior trunk epidermal cells. Timelapse imaging of transgenic‐line larva revealed that non‐self‐test cells and self‐tunic cells temporarily coexist outside the body until the test cells are eliminated. At the juvenile stage, only extravasated self‐tunic cells remained outside the body. Conclusions : We found that mesenchymal cells extravasated following two‐round Ca 2+ transients, and distributions of test cells and tunic cells changed in the outer body after tail regression. , Key Findings We found mesenchymal cells were released from multiple points in the epidermis of the trunk (extravasation) after mechanical stimulation. Extravasation occurs simultaneously with backward movement of the epidermis. Before metamorphosis, mesenchymal cells already migrated beneath the epidermis. Three‐dimensional timelapse imaging revealed that extravasated cells were divided into two groups: faster migrating cell groups than before metamorphosis and slower cell groups. After extravasation, non‐self‐external cells are eliminated and self‐extravasated cells surrounded the outer body. Both cells are thought to be responsible for defense.\n

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\n \n\n \n \n Treen, N., Konishi, S., Nishida, H., Onuma, T. A., & Sasakura, Y.\n\n\n \n \n \n \n \n Zic-r.b controls cell numbers in Ciona embryos by activating CDKN1B.\n \n \n \n \n\n\n \n\n\n\n Developmental Biology, 498: 26–34. June 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Zic-r.b$ 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\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@article{treen_zic-rb_2023,\n\ttitle = {Zic-r.b controls cell numbers in \\textit{{Ciona}} embryos by activating {CDKN1B}},\n\tvolume = {498},\n\tissn = {00121606},\n\turl = {https://linkinghub.elsevier.com/retrieve/pii/S0012160623000489},\n\tdoi = {10.1016/j.ydbio.2023.03.005},\n\tlanguage = {en},\n\turldate = {2023-05-11},\n\tjournal = {Developmental Biology},\n\tauthor = {Treen, Nicholas and Konishi, Shohei and Nishida, Hiroki and Onuma, Takeshi A. and Sasakura, Yasunori},\n\tmonth = jun,\n\tyear = {2023},\n\tpages = {26--34},\n}\n\n

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\n \n\n \n \n Tuya, F., Schubert, N., Aguirre, J., Basso, D., Bastos, E. O., Berchez, F., Bernardino, A. F., Bosch, N. E., Burdett, H. L., Espino, F., Fernández-Gárcia, C., Francini-Filho, R. B., Gagnon, P., Hall-Spencer, J. M., Haroun, R., Hofmann, L. C., Horta, P. A., Kamenos, N. A., Le Gall, L., Magris, R. A., Martin, S., Nelson, W. A., Neves, P., Olivé, I., Otero-Ferrer, F., Peña, V., Pereira-Filho, G. H., Ragazzola, F., Rebelo, A. C., Ribeiro, C., Rinde, E., Schoenrock, K., Silva, J., Sissini, M. N., & Tâmega, F. T.\n\n\n \n \n \n \n \n Levelling-up rhodolith-bed science to address global-scale conservation challenges.\n \n \n \n \n\n\n \n\n\n\n Science of The Total Environment,164818. June 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Levelling-up$ 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 \n \n 1 download\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@article{tuya_levelling-up_2023,\n\ttitle = {Levelling-up rhodolith-bed science to address global-scale conservation challenges},\n\tissn = {00489697},\n\turl = {https://linkinghub.elsevier.com/retrieve/pii/S0048969723034411},\n\tdoi = {10.1016/j.scitotenv.2023.164818},\n\tlanguage = {en},\n\turldate = {2023-06-14},\n\tjournal = {Science of The Total Environment},\n\tauthor = {Tuya, Fernando and Schubert, Nadine and Aguirre, Julio and Basso, Daniela and Bastos, Eduardo O. and Berchez, Flávio and Bernardino, Angelo F. and Bosch, Néstor E. and Burdett, Heidi L. and Espino, Fernando and Fernández-Gárcia, Cindy and Francini-Filho, Ronaldo B. and Gagnon, Patrick and Hall-Spencer, Jason M. and Haroun, Ricardo and Hofmann, Laurie C. and Horta, Paulo A. and Kamenos, Nicholas A. and Le Gall, Line and Magris, Rafael A. and Martin, Sophie and Nelson, Wendy A. and Neves, Pedro and Olivé, Irene and Otero-Ferrer, Francisco and Peña, Viviana and Pereira-Filho, Guilherme H. and Ragazzola, Federica and Rebelo, Ana Cristina and Ribeiro, Cláudia and Rinde, Eli and Schoenrock, Kathryn and Silva, João and Sissini, Marina N. and Tâmega, Frederico T.S.},\n\tmonth = jun,\n\tyear = {2023},\n\tpages = {164818},\n}\n\n

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\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., & Vega Thurber, R. L.\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\n\n\n Communications Biology, 6(1): 566. June 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Endogenous$ 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

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@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\tissn = {2399-3642},\n\turl = {https://www.nature.com/articles/s42003-023-04917-9},\n\tdoi = {10.1038/s42003-023-04917-9},\n\tabstract = {Abstract\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\n              Symbiodinium\n              ), 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 = {2023-06-12},\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\tpages = {566},\n}\n\n

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\n \n\n \n \n Yaguchi, J., & Yaguchi, S.\n\n\n \n \n \n \n \n Rx and its downstream factor, Musashi1, is required for establishment of the apical organ in sea urchin larvae.\n \n \n \n \n\n\n \n\n\n\n Frontiers in Cell and Developmental Biology, 11: 1240767. August 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Rx$ 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

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@article{yaguchi_rx_2023,\n\ttitle = {Rx and its downstream factor, {Musashi1}, is required for establishment of the apical organ in sea urchin larvae},\n\tvolume = {11},\n\tissn = {2296-634X},\n\turl = {https://www.frontiersin.org/articles/10.3389/fcell.2023.1240767/full},\n\tdoi = {10.3389/fcell.2023.1240767},\n\tabstract = {Acetylcholine, a vital neurotransmitter, plays a multifarious role in the brain and peripheral nervous system of various organisms. Previous research has demonstrated the proximity of cholinergic neurons to serotonergic neurons in the apical organ of sea urchin embryos. While several transcription factors have been identified as playing a role in the development of serotonergic neurons in this region of a sea urchin,\n              Hemicentrotus pulcherrimus\n              , comparatively little is known about the specific transcription factors and their spatiotemporal expression patterns that regulate the development of cholinergic neurons. In this study, we establish the requirement of the transcription factor Rx for the development of cholinergic neurons in the apical organ of the species. Furthermore, we investigate the role of the RNA-binding protein Musashi1, known to be involved in neurogenesis, including cholinergic neurons in other organisms, and demonstrate that it is a downstream factor of Rx, and that choline acetyltransferase expression is suppressed in Musashi1 downregulated embryos. Our research also highlights the intricate network formed by neurons and other cells in and around the apical organ of sea urchin larvae through axons and dendrites, providing possibility for a systematic and complexed neural pattern like those of the brain in other organisms.},\n\turldate = {2024-04-04},\n\tjournal = {Frontiers in Cell and Developmental Biology},\n\tauthor = {Yaguchi, Junko and Yaguchi, Shunsuke},\n\tmonth = aug,\n\tyear = {2023},\n\tpages = {1240767},\n}\n\n

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\n \n\n \n \n Yaguchi, S., & Yaguchi, J.\n\n\n \n \n \n \n \n Development and function of nervous systems of sea urchin larvae.\n \n \n \n \n\n\n \n\n\n\n Hikaku seiri seikagaku(Comparative Physiology and Biochemistry), 40(3): 137–148. December 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Development$ 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\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@article{yaguchi_development_2023,\n\ttitle = {Development and function of nervous systems of sea urchin larvae},\n\tvolume = {40},\n\tissn = {0916-3786, 1881-9346},\n\turl = {https://www.jstage.jst.go.jp/article/hikakuseiriseika/40/3/40_137/_article/-char/ja/},\n\tdoi = {10.3330/hikakuseiriseika.40.137},\n\tlanguage = {en},\n\tnumber = {3},\n\turldate = {2024-04-04},\n\tjournal = {Hikaku seiri seikagaku(Comparative Physiology and Biochemistry)},\n\tauthor = {Yaguchi, Shunsuke and Yaguchi, Junko},\n\tmonth = dec,\n\tyear = {2023},\n\tpages = {137--148},\n}\n\n

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\n \n\n \n \n Zhang, X., Zhang, P., Deng, Z., Huang, R., Zhang, D., Tian, Y., Wang, N., Li, H., Wang, X., Jiang, X., Sun, J., Fu, Q., Yi, X., Qu, L., Zhou, C., Rao, Y., Zeng, X., Hall‐Spencer, J. M., Gao, G., Gao, K., & Lin, X.\n\n\n \n \n \n \n \n Ocean acidification has a strong effect on communities living on plastic in mesocosms.\n \n \n \n \n\n\n \n\n\n\n Limnology and Oceanography Letters,lol2.10329. April 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Ocean$ 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\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@article{zhang_ocean_2023,\n\ttitle = {Ocean acidification has a strong effect on communities living on plastic in mesocosms},\n\tissn = {2378-2242, 2378-2242},\n\turl = {https://aslopubs.onlinelibrary.wiley.com/doi/10.1002/lol2.10329},\n\tdoi = {10.1002/lol2.10329},\n\tlanguage = {en},\n\turldate = {2023-06-13},\n\tjournal = {Limnology and Oceanography Letters},\n\tauthor = {Zhang, Xu and Zhang, Ping and Deng, Zichao and Huang, Ruiping and Zhang, Di and Tian, Yang and Wang, Na and Li, He and Wang, Xuyang and Jiang, Xiaowen and Sun, Jiazhen and Fu, Qianqian and Yi, Xiangqi and Qu, Liming and Zhou, Cong and Rao, Yuming and Zeng, Xiaorong and Hall‐Spencer, Jason M. and Gao, Guang and Gao, Kunshan and Lin, Xin},\n\tmonth = apr,\n\tyear = {2023},\n\tpages = {lol2.10329},\n}\n\n

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\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., & Shirai, K.\n\n\n \n \n \n \n \n Ocean acidification stunts molluscan growth at CO2 seeps.\n \n \n \n \n\n\n \n\n\n\n Science of The Total Environment, 873: 162293. May 2023.\n \n\n\n\n
\n\n\n\n \n \n $\"Ocean$ 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 \n \n 2 downloads\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@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 = {2023-02-24},\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\tpages = {162293},\n}\n\n

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