Integrative omics framework for characterization of coral reef ecosystems from the Tara Pacific expedition

Integrative omics framework for characterization of coral reef ecosystems from the Tara Pacific expedition. 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. Scientific Data, 10(1):326, June, 2023.

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Abstract 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.

@article{belser_integrative_2023,
	title = {Integrative omics framework for characterization of coral reef ecosystems from the {Tara} {Pacific} expedition},
	volume = {10},
	issn = {2052-4463},
	url = {https://www.nature.com/articles/s41597-023-02204-0},
	doi = {10.1038/s41597-023-02204-0},
	abstract = {Abstract
            
              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.},
	language = {en},
	number = {1},
	urldate = {2023-06-12},
	journal = {Scientific Data},
	author = {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},
	month = jun,
	year = {2023},
	pages = {326},
}

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