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\n \n\n \n \n \n \n \n \n Nitrogen metabolism in the picoalgae Pelagomonas calceolata: disentangling cyanate lyase function under different nutrient conditions.\n \n \n \n \n\n\n \n Guérin, N.; Seyman, C.; Orvain, C.; Bertrand, L.; Gourvil, P.; Probert, I.; Vacherie, B.; Brun, É.; Magdelenat, G.; Labadie, K.; Wincker, P.; Thurotte, A.; and Carradec, Q.\n\n\n \n\n\n\n February 2024.\n Pages: 2024.02.19.580968 Section: New Results\n\n\n\n
\n\n\n\n \n \n $\"Nitrogen$ 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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@misc{guerin_nitrogen_2024,\n\ttitle = {Nitrogen metabolism in the picoalgae {Pelagomonas} calceolata: disentangling cyanate lyase function under different nutrient conditions},\n\tcopyright = {© 2024, Posted by Cold Spring Harbor Laboratory. The copyright holder for this pre-print is the author. All rights reserved. The material may not be redistributed, re-used or adapted without the author's permission.},\n\tshorttitle = {Nitrogen metabolism in the picoalgae {Pelagomonas} calceolata},\n\turl = {https://www.biorxiv.org/content/10.1101/2024.02.19.580968v1},\n\tdoi = {10.1101/2024.02.19.580968},\n\tabstract = {Among nitrogen sources compounds in the environment, cyanate (OCN-) is a potential important actor given the activity and prevalence of cyanate lyase genes in microalgae. However, the conditions in which this gene is activated and the actual capacities of microalgae to assimilate cyanate remain underexplored. Here, we studied the nitrogen metabolism of the abundant and cosmopolite picoalgae Pelagomonas calceolata (Ochrophyta/Pelagophyceae) with environmental metatranscriptomes and culture experiments under different nitrogen sources (nitrate, ammonium, urea and cyanate) and concentrations. We observed that in nitrate-poor oceanic regions, the cyanate lyase gene is one of the most differentially expressed gene, suggesting that cyanate is an important molecule for P. calceolata persistence in oligotrophic environments. In the lab, we confirmed that this gene is overexpressed in low-nitrate medium together with several genes involved in nitrate recycling from endogenous molecules (purines and amino acids). P. calceolata is capable of growth on various nitrogen sources including nitrate, urea and cyanate but not ammonium. RNA sequencing of these cultures revealed that the cyanate lyase gene is surprisingly underexpressed in cyanate conditions indicating that this gene in not involved in extracellular cyanate catabolism to ammonia. Taken together, environmental datasets and lab experiments show that if the cyanate lyase is important in nitrate-poor environments it’s probably to reduce the toxicity of cyanate as a consequence of endogenous nitrogenous compound recycling rather than the use extracellular cyanate to produce ammonium.},\n\tlanguage = {en},\n\turldate = {2024-04-16},\n\tpublisher = {bioRxiv},\n\tauthor = {Guérin, Nina and Seyman, Chloé and Orvain, Céline and Bertrand, Laurie and Gourvil, Priscillia and Probert, Ian and Vacherie, Benoit and Brun, Élodie and Magdelenat, Ghislaine and Labadie, Karine and Wincker, Patrick and Thurotte, Adrien and Carradec, Quentin},\n\tmonth = feb,\n\tyear = {2024},\n\tnote = {Pages: 2024.02.19.580968\nSection: New Results},\n}\n\n

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\n \n\n \n \n \n \n \n \n Disparate genetic divergence patterns in three corals across a pan-Pacific environmental gradient highlight species-specific adaptation.\n \n \n \n \n\n\n \n Voolstra, C. R.; Hume, B. C. C.; Armstrong, E. J.; Mitushasi, G.; Porro, B.; Oury, N.; Agostini, S.; Boissin, E.; Poulain, J.; Carradec, Q.; Paz-García, D. A.; Zoccola, D.; Magalon, H.; Moulin, C.; Bourdin, G.; Iwankow, G.; Romac, S.; Banaigs, B.; Boss, E.; Bowler, C.; de Vargas, C.; Douville, E.; Flores, M.; Furla, P.; Galand, P. E.; Gilson, E.; Lombard, F.; Pesant, S.; Reynaud, S.; Sullivan, M. B.; Sunagawa, S.; Thomas, O. P.; Troublé, R.; Thurber, R. V.; Wincker, P.; Planes, S.; Allemand, D.; and Forcioli, D.\n\n\n \n\n\n\n npj Biodiversity, 2(1): 1–16. July 2023.\n Number: 1 Publisher: Nature Publishing Group\n\n\n\n
\n\n\n\n \n \n $\"Disparate$ 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 4 downloads\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n \n \n \n \n \n \n \n \n \n \n\n\n\n

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@article{voolstra_disparate_2023,\n\ttitle = {Disparate genetic divergence patterns in three corals across a pan-{Pacific} environmental gradient highlight species-specific adaptation},\n\tvolume = {2},\n\tcopyright = {2023 The Author(s)},\n\tissn = {2731-4243},\n\turl = {https://www.nature.com/articles/s44185-023-00020-8},\n\tdoi = {10.1038/s44185-023-00020-8},\n\tabstract = {Tropical coral reefs are among the most affected ecosystems by climate change and face increasing loss in the coming decades. Effective conservation strategies that maximize ecosystem resilience must be informed by the accurate characterization of extant genetic diversity and population structure together with an understanding of the adaptive potential of keystone species. Here we analyzed samples from the Tara Pacific Expedition (2016–2018) that completed an 18,000 km longitudinal transect of the Pacific Ocean sampling three widespread corals—Pocillopora meandrina, Porites lobata, and Millepora cf. platyphylla—across 33 sites from 11 islands. Using deep metagenomic sequencing of 269 colonies in conjunction with morphological analyses and climate variability data, we can show that despite a targeted sampling the transect encompasses multiple cryptic species. These species exhibit disparate biogeographic patterns and, most importantly, distinct evolutionary patterns in identical environmental regimes. Our findings demonstrate on a basin scale that evolutionary trajectories are species-specific and can only in part be predicted from the environment. This highlights that conservation strategies must integrate multi-species investigations to discern the distinct genomic footprints shaped by selection as well as the genetic potential for adaptive change.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2023-07-10},\n\tjournal = {npj Biodiversity},\n\tauthor = {Voolstra, Christian R. and Hume, Benjamin C. C. and Armstrong, Eric J. and Mitushasi, Guinther and Porro, Barbara and Oury, Nicolas and Agostini, Sylvain and Boissin, Emilie and Poulain, Julie and Carradec, Quentin and Paz-García, David A. and Zoccola, Didier and Magalon, Hélène and Moulin, Clémentine and Bourdin, Guillaume and Iwankow, Guillaume and Romac, Sarah and Banaigs, Bernard and Boss, Emmanuel and Bowler, Chris and de Vargas, Colomban and Douville, Eric and Flores, Michel and Furla, Paola and Galand, Pierre E. and Gilson, Eric and Lombard, Fabien and Pesant, Stéphane and Reynaud, Stéphanie and Sullivan, Matthew B. and Sunagawa, Shinichi and Thomas, Olivier P. and Troublé, Romain and Thurber, Rebecca Vega and Wincker, Patrick and Planes, Serge and Allemand, Denis and Forcioli, Didier},\n\tmonth = jul,\n\tyear = {2023},\n\tnote = {Number: 1\nPublisher: Nature Publishing Group},\n\tkeywords = {Conservation biology, Ecological genetics, Evolutionary genetics, Genetic variation, Population genetics},\n\tpages = {1--16},\n}\n\n

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\n \n\n \n \n \n \n \n \n Integrative omics framework for characterization of coral reef ecosystems from the Tara Pacific expedition.\n \n \n \n \n\n\n \n Belser, C.; Poulain, J.; Labadie, K.; Gavory, F.; Alberti, A.; Guy, J.; Carradec, Q.; Cruaud, C.; Da Silva, C.; Engelen, S.; Mielle, P.; Perdereau, A.; Samson, G.; Gas, S.; Voolstra, C. R.; Galand, P. E.; Flores, J. M.; Hume, B. C. C.; Perna, G.; Ziegler, M.; Ruscheweyh, H.; Boissin, E.; Romac, S.; Bourdin, G.; Iwankow, G.; Moulin, C.; Paz García, D. A.; Agostini, S.; Banaigs, B.; Boss, E.; Bowler, C.; de Vargas, C.; Douville, E.; Forcioli, D.; Furla, P.; Gilson, E.; Lombard, F.; Pesant, S.; Reynaud, S.; Sunagawa, S.; Thomas, O. P.; Troublé, R.; Thurber, R. V.; Zoccola, D.; Scarpelli, C.; Jacoby, E. K.; Oliveira, P. H.; Aury, J.; Allemand, D.; Planes, S.; and Wincker, P.\n\n\n \n\n\n\n Scientific Data, 10(1): 326. June 2023.\n Number: 1 Publisher: Nature Publishing Group\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 \n \n \n \n \n\n\n\n

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@article{belser_integrative_2023,\n\tseries = {\\#21},\n\ttitle = {Integrative omics framework for characterization of coral reef ecosystems from the {Tara} {Pacific} expedition},\n\tvolume = {10},\n\tcopyright = {2023 The Author(s)},\n\tissn = {2052-4463},\n\turl = {https://www.nature.com/articles/s41597-023-02204-0},\n\tdoi = {10.1038/s41597-023-02204-0},\n\tabstract = {Coral reef science is a fast-growing field propelled by the need to better understand coral health and resilience to devise strategies to slow reef loss resulting from environmental stresses. Key to coral resilience are the symbiotic interactions established within a complex holobiont, i.e. the multipartite assemblages comprising the coral host organism, endosymbiotic dinoflagellates, bacteria, archaea, fungi, and viruses. Tara Pacific is an ambitious project built upon the experience of previous Tara Oceans expeditions, and leveraging state-of-the-art sequencing technologies and analyses to dissect the biodiversity and biocomplexity of the coral holobiont screened across most archipelagos spread throughout the entire Pacific Ocean. Here we detail the Tara Pacific workflow for multi-omics data generation, from sample handling to nucleotide sequence data generation and deposition. This unique multidimensional framework also includes a large amount of concomitant metadata collected side-by-side that provide new assessments of coral reef biodiversity including micro-biodiversity and shape future investigations of coral reef dynamics and their fate in the Anthropocene.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2023-06-03},\n\tjournal = {Scientific Data},\n\tauthor = {Belser, Caroline and Poulain, Julie and Labadie, Karine and Gavory, Frederick and Alberti, Adriana and Guy, Julie and Carradec, Quentin and Cruaud, Corinne and Da Silva, Corinne and Engelen, Stefan and Mielle, Paul and Perdereau, Aude and Samson, Gaelle and Gas, Shahinaz and Voolstra, Christian R. and Galand, Pierre E. and Flores, J. Michel and Hume, Benjamin C. C. and Perna, Gabriela and Ziegler, Maren and Ruscheweyh, Hans-Joachim and Boissin, Emilie and Romac, Sarah and Bourdin, Guillaume and Iwankow, Guillaume and Moulin, Clémentine and Paz García, David A. and Agostini, Sylvain and Banaigs, Bernard and Boss, Emmanuel and Bowler, Chris and de Vargas, Colomban and Douville, Eric and Forcioli, Didier and Furla, Paola and Gilson, Eric and Lombard, Fabien and Pesant, Stéphane and Reynaud, Stéphanie and Sunagawa, Shinichi and Thomas, Olivier P. and Troublé, Romain and Thurber, Rebecca Vega and Zoccola, Didier and Scarpelli, Claude and Jacoby, E’ Krame and Oliveira, Pedro H. and Aury, Jean-Marc and Allemand, Denis and Planes, Serge and Wincker, Patrick},\n\tmonth = jun,\n\tyear = {2023},\n\tnote = {Number: 1\nPublisher: Nature Publishing Group},\n\tkeywords = {Data processing, Marine biology, Metagenomics, Next-generation sequencing},\n\tpages = {326},\n}\n\n

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\n \n\n \n \n \n \n \n \n Host transcriptomic plasticity and photosymbiotic fidelity underpin Pocillopora acclimatization across thermal regimes in the Pacific Ocean.\n \n \n \n \n\n\n \n Armstrong, E. J.; Lê-Hoang, J.; Carradec, Q.; Aury, J.; Noel, B.; Hume, B. C. C.; Voolstra, C. R.; Poulain, J.; Belser, C.; Paz-García, D. A.; Cruaud, C.; Labadie, K.; Da Silva, C.; Moulin, C.; Boissin, E.; Bourdin, G.; Iwankow, G.; Romac, S.; Agostini, S.; Banaigs, B.; Boss, E.; Bowler, C.; de Vargas, C.; Douville, E.; Flores, M.; Forcioli, D.; Furla, P.; Galand, P. E.; Gilson, E.; Lombard, F.; Pesant, S.; Reynaud, S.; Sullivan, M. B.; Sunagawa, S.; Thomas, O. P.; Troublé, R.; Thurber, R. V.; Zoccola, D.; Planes, S.; Allemand, D.; and Wincker, P.\n\n\n \n\n\n\n Nature Communications, 14(1): 3056. June 2023.\n Number: 1 Publisher: Nature Publishing Group\n\n\n\n
\n\n\n\n \n \n $\"Host$ 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 \n \n \n\n\n\n

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@article{armstrong_host_2023,\n\tseries = {\\#27},\n\ttitle = {Host transcriptomic plasticity and photosymbiotic fidelity underpin {Pocillopora} acclimatization across thermal regimes in the {Pacific} {Ocean}},\n\tvolume = {14},\n\tcopyright = {2023 The Author(s)},\n\tissn = {2041-1723},\n\turl = {https://www.nature.com/articles/s41467-023-38610-6},\n\tdoi = {10.1038/s41467-023-38610-6},\n\tabstract = {Heat waves are causing declines in coral reefs globally. Coral thermal responses depend on multiple, interacting drivers, such as past thermal exposure, endosymbiont community composition, and host genotype. This makes the understanding of their relative roles in adaptive and/or plastic responses crucial for anticipating impacts of future warming. Here, we extracted DNA and RNA from 102 Pocillopora colonies collected from 32 sites on 11 islands across the Pacific Ocean to characterize host-photosymbiont fidelity and to investigate patterns of gene expression across a historical thermal gradient. We report high host-photosymbiont fidelity and show that coral and microalgal gene expression respond to different drivers. Differences in photosymbiotic association had only weak impacts on host gene expression, which was more strongly correlated with the historical thermal environment, whereas, photosymbiont gene expression was largely determined by microalgal lineage. Overall, our results reveal a three-tiered strategy of thermal acclimatization in Pocillopora underpinned by host-photosymbiont specificity, host transcriptomic plasticity, and differential photosymbiotic association under extreme warming.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2023-06-03},\n\tjournal = {Nature Communications},\n\tauthor = {Armstrong, Eric J. and Lê-Hoang, Julie and Carradec, Quentin and Aury, Jean-Marc and Noel, Benjamin and Hume, Benjamin C. C. and Voolstra, Christian R. and Poulain, Julie and Belser, Caroline and Paz-García, David A. and Cruaud, Corinne and Labadie, Karine and Da Silva, Corinne and Moulin, Clémentine and Boissin, Emilie and Bourdin, Guillaume and Iwankow, Guillaume and Romac, Sarah and Agostini, Sylvain and Banaigs, Bernard and Boss, Emmanuel and Bowler, Chris and de Vargas, Colomban and Douville, Eric and Flores, Michel and Forcioli, Didier and Furla, Paola and Galand, Pierre E. and Gilson, Eric and Lombard, Fabien and Pesant, Stéphane and Reynaud, Stéphanie and Sullivan, Matthew B. and Sunagawa, Shinichi and Thomas, Olivier P. and Troublé, Romain and Thurber, Rebecca Vega and Zoccola, Didier and Planes, Serge and Allemand, Denis and Wincker, Patrick},\n\tmonth = jun,\n\tyear = {2023},\n\tnote = {Number: 1\nPublisher: Nature Publishing Group},\n\tkeywords = {Ecophysiology, Gene expression, Marine biology},\n\tpages = {3056},\n}\n\n

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\n \n\n \n \n \n \n \n \n Telomere DNA length regulation is influenced by seasonal temperature differences in short-lived but not in long-lived reef-building corals.\n \n \n \n \n\n\n \n Rouan, A.; Pousse, M.; Djerbi, N.; Porro, B.; Bourdin, G.; Carradec, Q.; Hume, B. C.; Poulain, J.; Lê-Hoang, J.; Armstrong, E.; Agostini, S.; Salazar, G.; Ruscheweyh, H.; Aury, J.; Paz-García, D. A.; McMinds, R.; Giraud-Panis, M.; Deshuraud, R.; Ottaviani, A.; Morini, L. D.; Leone, C.; Wurzer, L.; Tran, J.; Zoccola, D.; Pey, A.; Moulin, C.; Boissin, E.; Iwankow, G.; Romac, S.; de Vargas, C.; Banaigs, B.; Boss, E.; Bowler, C.; Douville, E.; Flores, M.; Reynaud, S.; Thomas, O. P.; Troublé, R.; Thurber, R. V.; Planes, S.; Allemand, D.; Pesant, S.; Galand, P. E.; Wincker, P.; Sunagawa, S.; Röttinger, E.; Furla, P.; Voolstra, C. R.; Forcioli, D.; Lombard, F.; and Gilson, E.\n\n\n \n\n\n\n Nature Communications, 14(1): 3038. June 2023.\n Number: 1 Publisher: Nature Publishing Group\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 \n \n \n\n\n\n

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@article{rouan_telomere_2023,\n\tseries = {\\#26},\n\ttitle = {Telomere {DNA} length regulation is influenced by seasonal temperature differences in short-lived but not in long-lived reef-building corals},\n\tvolume = {14},\n\tcopyright = {2023 The Author(s)},\n\tissn = {2041-1723},\n\turl = {https://www.nature.com/articles/s41467-023-38499-1},\n\tdoi = {10.1038/s41467-023-38499-1},\n\tabstract = {Telomeres are environment-sensitive regulators of health and aging. Here,we present telomere DNA length analysis of two reef-building coral genera revealing that the long- and short-term water thermal regime is a key driver of between-colony variation across the Pacific Ocean. Notably, there are differences between the two studied genera. The telomere DNA lengths of the short-lived, more stress-sensitive Pocillopora spp. colonies were largely determined by seasonal temperature variation, whereas those of the long-lived, more stress-resistant Porites spp. colonies were insensitive to seasonal patterns, but rather influenced by past thermal anomalies. These results reveal marked differences in telomere DNA length regulation between two evolutionary distant coral genera exhibiting specific life-history traits. We propose that environmentally regulated mechanisms of telomere maintenance are linked to organismal performances, a matter of paramount importance considering the effects of climate change on health.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2023-06-03},\n\tjournal = {Nature Communications},\n\tauthor = {Rouan, Alice and Pousse, Melanie and Djerbi, Nadir and Porro, Barbara and Bourdin, Guillaume and Carradec, Quentin and Hume, Benjamin CC and Poulain, Julie and Lê-Hoang, Julie and Armstrong, Eric and Agostini, Sylvain and Salazar, Guillem and Ruscheweyh, Hans-Joachim and Aury, Jean-Marc and Paz-García, David A. and McMinds, Ryan and Giraud-Panis, Marie-Josèphe and Deshuraud, Romane and Ottaviani, Alexandre and Morini, Lycia Die and Leone, Camille and Wurzer, Lia and Tran, Jessica and Zoccola, Didier and Pey, Alexis and Moulin, Clémentine and Boissin, Emilie and Iwankow, Guillaume and Romac, Sarah and de Vargas, Colomban and Banaigs, Bernard and Boss, Emmanuel and Bowler, Chris and Douville, Eric and Flores, Michel and Reynaud, Stéphanie and Thomas, Olivier P. and Troublé, Romain and Thurber, Rebecca Vega and Planes, Serge and Allemand, Denis and Pesant, Stephane and Galand, Pierre E. and Wincker, Patrick and Sunagawa, Shinichi and Röttinger, Eric and Furla, Paola and Voolstra, Christian R. and Forcioli, Didier and Lombard, Fabien and Gilson, Eric},\n\tmonth = jun,\n\tyear = {2023},\n\tnote = {Number: 1\nPublisher: Nature Publishing Group},\n\tkeywords = {Cell biology, Ecology, Evolution},\n\tpages = {3038},\n}\n\n

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\n \n\n \n \n \n \n \n \n Pervasive tandem duplications and convergent evolution shape coral genomes.\n \n \n \n \n\n\n \n Noel, B.; Denoeud, F.; Rouan, A.; Buitrago-López, C.; Capasso, L.; Poulain, J.; Boissin, E.; Pousse, M.; Da Silva, C.; Couloux, A.; Armstrong, E.; Carradec, Q.; Cruaud, C.; Labadie, K.; Lê-Hoang, J.; Tambutté, S.; Barbe, V.; Moulin, C.; Bourdin, G.; Iwankow, G.; Romac, S.; Agostini, S.; Banaigs, B.; Boss, E.; Bowler, C.; de Vargas, C.; Douville, E.; Flores, J. M.; Forcioli, D.; Furla, P.; Galand, P. E.; Lombard, F.; Pesant, S.; Reynaud, S.; Sullivan, M. B.; Sunagawa, S.; Thomas, O. P.; Troublé, R.; Thurber, R. V.; Allemand, D.; Planes, S.; Gilson, E.; Zoccola, D.; Wincker, P.; Voolstra, C. R.; and Aury, J.\n\n\n \n\n\n\n Genome Biology, 24(1): 123. June 2023.\n \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://doi.org/10.1186/s13059-023-02960-7},\n\tdoi = {10.1186/s13059-023-02960-7},\n\tabstract = {Over the last decade, several coral genomes have been sequenced allowing a better understanding of these symbiotic organisms threatened by climate change. Scleractinian corals are reef builders and are central to coral reef ecosystems, providing habitat to a great diversity of species.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2023-06-03},\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 \n \n \n \n Cryptic and abundant marine viruses at the evolutionary origins of Earth’s RNA virome.\n \n \n \n \n\n\n \n Zayed, A. A.; Wainaina, J. M.; Dominguez-Huerta, G.; Pelletier, E.; Guo, J.; Mohssen, M.; Tian, F.; Pratama, A. A.; Bolduc, B.; Zablocki, O.; Cronin, D.; Solden, L.; Delage, E.; Alberti, A.; Aury, J.; Carradec, Q.; da Silva, C.; Labadie, K.; Poulain, J.; Ruscheweyh, H.; Salazar, G.; Shatoff, E.; Tara Oceans Coordinators; Bundschuh, R.; Fredrick, K.; Kubatko, L. S.; Chaffron, S.; Culley, A. I.; Sunagawa, S.; Kuhn, J. H.; Wincker, P.; and Sullivan, M. B.\n\n\n \n\n\n\n Science, 376(6589): 156–162. April 2022.\n Publisher: American Association for the Advancement of Science\n\n\n\n
\n\n\n\n \n \n $\"Cryptic$ 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 15 downloads\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n

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@article{zayed_cryptic_2022,\n\ttitle = {Cryptic and abundant marine viruses at the evolutionary origins of {Earth}’s {RNA} virome},\n\tvolume = {376},\n\turl = {https://www.science.org/doi/full/10.1126/science.abm5847},\n\tdoi = {10.1126/science.abm5847},\n\tabstract = {Whereas DNA viruses are known to be abundant, diverse, and commonly key ecosystem players, RNA viruses are insufficiently studied outside disease settings. In this study, we analyzed ≈28 terabases of Global Ocean RNA sequences to expand Earth’s RNA virus catalogs and their taxonomy, investigate their evolutionary origins, and assess their marine biogeography from pole to pole. Using new approaches to optimize discovery and classification, we identified RNA viruses that necessitate substantive revisions of taxonomy (doubling phyla and adding {\\textgreater}50\\% new classes) and evolutionary understanding. “Species”-rank abundance determination revealed that viruses of the new phyla “Taraviricota,” a missing link in early RNA virus evolution, and “Arctiviricota” are widespread and dominant in the oceans. These efforts provide foundational knowledge critical to integrating RNA viruses into ecological and epidemiological models.},\n\tnumber = {6589},\n\turldate = {2023-06-03},\n\tjournal = {Science},\n\tauthor = {Zayed, Ahmed A. and Wainaina, James M. and Dominguez-Huerta, Guillermo and Pelletier, Eric and Guo, Jiarong and Mohssen, Mohamed and Tian, Funing and Pratama, Akbar Adjie and Bolduc, Benjamin and Zablocki, Olivier and Cronin, Dylan and Solden, Lindsey and Delage, Erwan and Alberti, Adriana and Aury, Jean-Marc and Carradec, Quentin and da Silva, Corinne and Labadie, Karine and Poulain, Julie and Ruscheweyh, Hans-Joachim and Salazar, Guillem and Shatoff, Elan and {Tara Oceans Coordinators} and Bundschuh, Ralf and Fredrick, Kurt and Kubatko, Laura S. and Chaffron, Samuel and Culley, Alexander I. and Sunagawa, Shinichi and Kuhn, Jens H. and Wincker, Patrick and Sullivan, Matthew B.},\n\tmonth = apr,\n\tyear = {2022},\n\tnote = {Publisher: American Association for the Advancement of Science},\n\tpages = {156--162},\n}\n\n

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\n \n\n \n \n \n \n \n \n Genomic adaptation of the picoeukaryote Pelagomonas calceolata to iron-poor oceans revealed by a chromosome-scale genome sequence.\n \n \n \n \n\n\n \n Guérin, N.; Ciccarella, M.; Flamant, E.; Frémont, P.; Mangenot, S.; Istace, B.; Noel, B.; Belser, C.; Bertrand, L.; Labadie, K.; Cruaud, C.; Romac, S.; Bachy, C.; Gachenot, M.; Pelletier, E.; Alberti, A.; Jaillon, O.; Wincker, P.; Aury, J.; and Carradec, Q.\n\n\n \n\n\n\n Communications Biology, 5(1): 983. September 2022.\n \n\n\n\n
\n\n\n\n \n \n $\"Genomic$ 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 3 downloads\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n \n \n \n \n \n \n \n \n\n\n\n

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@article{guerin_genomic_2022,\n\ttitle = {Genomic adaptation of the picoeukaryote {Pelagomonas} calceolata to iron-poor oceans revealed by a chromosome-scale genome sequence},\n\tvolume = {5},\n\tissn = {2399-3642},\n\turl = {https://www.nature.com/articles/s42003-022-03939-z},\n\tdoi = {10.1038/s42003-022-03939-z},\n\tabstract = {Abstract \n             \n              The smallest phytoplankton species are key actors in oceans biogeochemical cycling and their abundance and distribution are affected with global environmental changes. Among them, algae of the Pelagophyceae class encompass coastal species causative of harmful algal blooms while others are cosmopolitan and abundant. The lack of genomic reference in this lineage is a main limitation to study its ecological importance. Here, we analysed \n              Pelagomonas calceolata \n              relative abundance, ecological niche and potential for the adaptation in all oceans using a complete chromosome-scale assembled genome sequence. Our results show that \n              P. calceolata \n              is one of the most abundant eukaryotic species in the oceans with a relative abundance favoured by high temperature, low-light and iron-poor conditions. Climate change projections based on its relative abundance suggest an extension of the \n              P. calceolata \n              habitat toward the poles at the end of this century. Finally, we observed a specific gene repertoire and expression level variations potentially explaining its ecological success in low-iron and low-nitrate environments. Collectively, these findings reveal the ecological importance of \n              P. calceolata \n              and lay the foundation for a global scale analysis of the adaptation and acclimation strategies of this small phytoplankton in a changing environment.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2022-09-21},\n\tjournal = {Communications Biology},\n\tauthor = {Guérin, Nina and Ciccarella, Marta and Flamant, Elisa and Frémont, Paul and Mangenot, Sophie and Istace, Benjamin and Noel, Benjamin and Belser, Caroline and Bertrand, Laurie and Labadie, Karine and Cruaud, Corinne and Romac, Sarah and Bachy, Charles and Gachenot, Martin and Pelletier, Eric and Alberti, Adriana and Jaillon, Olivier and Wincker, Patrick and Aury, Jean-Marc and Carradec, Quentin},\n\tmonth = sep,\n\tyear = {2022},\n\tkeywords = {Biogeography, Comparative genomics, Metagenomics, Water microbiology},\n\tpages = {983},\n}\n\n

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\n \n\n \n \n \n \n \n \n Diversity and ecological footprint of Global Ocean RNA viruses.\n \n \n \n \n\n\n \n Dominguez-Huerta, G.; Zayed, A. A.; Wainaina, J. M.; Guo, J.; Tian, F.; Pratama, A. A.; Bolduc, B.; Mohssen, M.; Zablocki, O.; Pelletier, E.; Delage, E.; Alberti, A.; Aury, J.; Carradec, Q.; da Silva, C.; Labadie, K.; Poulain, J.; Tara Oceans Coordinators; Bowler, C.; Eveillard, D.; Guidi, L.; Karsenti, E.; Kuhn, J. H.; Ogata, H.; Wincker, P.; Culley, A.; Chaffron, S.; and Sullivan, M. B.\n\n\n \n\n\n\n Science, 376(6598): 1202–1208. June 2022.\n Publisher: American Association for the Advancement of Science\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 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{dominguez-huerta_diversity_2022,\n\ttitle = {Diversity and ecological footprint of {Global} {Ocean} {RNA} viruses},\n\tvolume = {376},\n\turl = {https://www.science.org/doi/full/10.1126/science.abn6358},\n\tdoi = {10.1126/science.abn6358},\n\tabstract = {DNA viruses are increasingly recognized as influencing marine microbes and microbe-mediated biogeochemical cycling. However, little is known about global marine RNA virus diversity, ecology, and ecosystem roles. In this study, we uncover patterns and predictors of marine RNA virus community- and “species”-level diversity and contextualize their ecological impacts from pole to pole. Our analyses revealed four ecological zones, latitudinal and depth diversity patterns, and environmental correlates for RNA viruses. Our findings only partially parallel those of cosampled plankton and show unexpectedly high polar ecological interactions. The influence of RNA viruses on ecosystems appears to be large, as predicted hosts are ecologically important. Moreover, the occurrence of auxiliary metabolic genes indicates that RNA viruses cause reprogramming of diverse host metabolisms, including photosynthesis and carbon cycling, and that RNA virus abundances predict ocean carbon export.},\n\tnumber = {6598},\n\turldate = {2023-02-13},\n\tjournal = {Science},\n\tauthor = {Dominguez-Huerta, Guillermo and Zayed, Ahmed A. and Wainaina, James M. and Guo, Jiarong and Tian, Funing and Pratama, Akbar Adjie and Bolduc, Benjamin and Mohssen, Mohamed and Zablocki, Olivier and Pelletier, Eric and Delage, Erwan and Alberti, Adriana and Aury, Jean-Marc and Carradec, Quentin and da Silva, Corinne and Labadie, Karine and Poulain, Julie and {Tara Oceans Coordinators} and Bowler, Chris and Eveillard, Damien and Guidi, Lionel and Karsenti, Eric and Kuhn, Jens H. and Ogata, Hiroyuki and Wincker, Patrick and Culley, Alexander and Chaffron, Samuel and Sullivan, Matthew B.},\n\tmonth = jun,\n\tyear = {2022},\n\tnote = {Publisher: American Association for the Advancement of Science},\n\tpages = {1202--1208},\n}\n\n

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\n \n 2021\n \n \n (1)\n \n \n

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\n \n\n \n \n \n \n \n \n Dual RNAseq highlights the kinetics of skin microbiome and fish host responsiveness to bacterial infection.\n \n \n \n \n\n\n \n Le Luyer, J.; Schull, Q.; Auffret, P.; Lopez, P.; Crusot, M.; Belliard, C.; Basset, C.; Carradec, Q.; Poulain, J.; Planes, S.; and Saulnier, D.\n\n\n \n\n\n\n Animal Microbiome, 3(1): 35. May 2021.\n \n\n\n\n
\n\n\n\n \n \n $\"Dual$ 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{le_luyer_dual_2021,\n\ttitle = {Dual {RNAseq} highlights the kinetics of skin microbiome and fish host responsiveness to bacterial infection},\n\tvolume = {3},\n\tissn = {2524-4671},\n\turl = {https://doi.org/10.1186/s42523-021-00097-1},\n\tdoi = {10.1186/s42523-021-00097-1},\n\tabstract = {Tenacibaculum maritimum is a fish pathogen known for causing serious damage to a broad range of wild and farmed marine fish populations worldwide. The recently sequenced genome of T. maritimum strain NCIMB 2154T provided unprecedented information on the possible molecular mechanisms involved in the virulence of this species. However, little is known about the dynamic of infection in vivo, and information is lacking on both the intrinsic host response (gene expression) and its associated microbiota. Here, we applied complementary omic approaches, including dual RNAseq and 16S rRNA gene metabarcoding sequencing using Nanopore and short-read Illumina technologies to unravel the host–pathogen interplay in an experimental infection system using the tropical fish Platax orbicularis as model.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2022-01-10},\n\tjournal = {Animal Microbiome},\n\tauthor = {Le Luyer, J. and Schull, Q. and Auffret, P. and Lopez, P. and Crusot, M. and Belliard, C. and Basset, C. and Carradec, Q. and Poulain, J. and Planes, S. and Saulnier, D.},\n\tmonth = may,\n\tyear = {2021},\n\tpages = {35},\n}\n

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\n \n 2020\n \n \n (2)\n \n \n

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\n \n\n \n \n \n \n \n \n A framework for in situ molecular characterization of coral holobionts using nanopore sequencing.\n \n \n \n \n\n\n \n Carradec, Q.; Poulain, J.; Boissin, E.; Hume, B. C. C.; Voolstra, C. R.; Ziegler, M.; Engelen, S.; Cruaud, C.; Planes, S.; and Wincker, P.\n\n\n \n\n\n\n Scientific Reports, 10(1): 15893. September 2020.\n Bandiera_abtest: a Cc_license_type: cc_by Cg_type: Nature Research Journals Number: 1 Primary_atype: Research Publisher: Nature Publishing Group Subject_term: Biodiversity;DNA sequencing;Environmental biotechnology;Marine biology Subject_term_id: biodiversity;dna-sequencing;environmental-biotechnology;marine-biology\n\n\n\n
\n\n\n\n \n \n $\"A$ 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 \n \n \n \n \n\n\n\n

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@article{carradec_framework_2020,\n\tseries = {\\#5},\n\ttitle = {A framework for in situ molecular characterization of coral holobionts using nanopore sequencing},\n\tvolume = {10},\n\tcopyright = {2020 The Author(s)},\n\tissn = {2045-2322},\n\turl = {https://www.nature.com/articles/s41598-020-72589-0},\n\tdoi = {10.1038/s41598-020-72589-0},\n\tabstract = {Molecular characterization of the coral host and the microbial assemblages associated with it (referred to as the coral holobiont) is currently undertaken via marker gene sequencing. This requires bulky instruments and controlled laboratory conditions which are impractical for environmental experiments in remote areas. Recent advances in sequencing technologies now permit rapid sequencing in the field; however, development of specific protocols and pipelines for the effective processing of complex microbial systems are currently lacking. Here, we used a combination of 3 marker genes targeting the coral animal host, its symbiotic alga, and the associated bacterial microbiome to characterize 60 coral colonies collected and processed in situ, during the Tara Pacific expedition. We used Oxford Nanopore Technologies to sequence marker gene amplicons and developed bioinformatics pipelines to analyze nanopore reads on a laptop, obtaining results in less than 24 h. Reef scale network analysis of coral-associated bacteria reveals broadly distributed taxa, as well as host-specific associations. Protocols and tools used in this work may be applicable for rapid coral holobiont surveys, immediate adaptation of sampling strategy in the field, and to make informed and timely decisions in the context of the current challenges affecting coral reefs worldwide.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2022-01-10},\n\tjournal = {Scientific Reports},\n\tauthor = {Carradec, Quentin and Poulain, Julie and Boissin, Emilie and Hume, Benjamin C. C. and Voolstra, Christian R. and Ziegler, Maren and Engelen, Stefan and Cruaud, Corinne and Planes, Serge and Wincker, Patrick},\n\tmonth = sep,\n\tyear = {2020},\n\tnote = {Bandiera\\_abtest: a\nCc\\_license\\_type: cc\\_by\nCg\\_type: Nature Research Journals\nNumber: 1\nPrimary\\_atype: Research\nPublisher: Nature Publishing Group\nSubject\\_term: Biodiversity;DNA sequencing;Environmental biotechnology;Marine biology\nSubject\\_term\\_id: biodiversity;dna-sequencing;environmental-biotechnology;marine-biology},\n\tkeywords = {Biodiversity, DNA sequencing, Environmental biotechnology, Marine biology},\n\tpages = {15893},\n}\n\n

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\n \n\n \n \n \n \n \n \n Transcriptome reconstruction and functional analysis of eukaryotic marine plankton communities via high-throughput metagenomics and metatranscriptomics.\n \n \n \n \n\n\n \n Vorobev, A.; Dupouy, M.; Carradec, Q.; Delmont, T. O.; Annamalé, A.; Wincker, P.; and Pelletier, E.\n\n\n \n\n\n\n Genome Research, 30(4): 647–659. April 2020.\n Company: Cold Spring Harbor Laboratory Press Distributor: Cold Spring Harbor Laboratory Press Institution: Cold Spring Harbor Laboratory Press Label: Cold Spring Harbor Laboratory Press Publisher: Cold Spring Harbor Lab\n\n\n\n
\n\n\n\n \n \n $\"Transcriptome$ 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{vorobev_transcriptome_2020,\n\ttitle = {Transcriptome reconstruction and functional analysis of eukaryotic marine plankton communities via high-throughput metagenomics and metatranscriptomics},\n\tvolume = {30},\n\tissn = {1088-9051, 1549-5469},\n\turl = {https://genome.cshlp.org/content/30/4/647},\n\tdoi = {10.1101/gr.253070.119},\n\tabstract = {Large-scale metagenomic and metatranscriptomic data analyses are often restricted by their gene-centric approach, limiting the ability to understand organismal and community biology. De novo assembly of large and mosaic eukaryotic genomes from complex meta-omics data remains a challenging task, especially in comparison with more straightforward bacterial and archaeal systems. Here, we use a transcriptome reconstruction method based on clustering co-abundant genes across a series of metagenomic samples. We investigated the co-abundance patterns of ∼37 million eukaryotic unigenes across 365 metagenomic samples collected during the Tara Oceans expeditions to assess the diversity and functional profiles of marine plankton. We identified ∼12,000 co-abundant gene groups (CAGs), encompassing ∼7 million unigenes, including 924 metagenomics-based transcriptomes (MGTs, CAGs larger than 500 unigenes). We demonstrated the biological validity of the MGT collection by comparing individual MGTs with available references. We identified several key eukaryotic organisms involved in dimethylsulfoniopropionate (DMSP) biosynthesis and catabolism in different oceanic provinces, thus demonstrating the potential of the MGT collection to provide functional insights on eukaryotic plankton. We established the ability of the MGT approach to capture interspecies associations through the analysis of a nitrogen-fixing haptophyte-cyanobacterial symbiotic association. This MGT collection provides a valuable resource for analyses of eukaryotic plankton in the open ocean by giving access to the genomic content and functional potential of many ecologically relevant eukaryotic species.},\n\tlanguage = {en},\n\tnumber = {4},\n\turldate = {2022-01-10},\n\tjournal = {Genome Research},\n\tauthor = {Vorobev, Alexey and Dupouy, Marion and Carradec, Quentin and Delmont, Tom O. and Annamalé, Anita and Wincker, Patrick and Pelletier, Eric},\n\tmonth = apr,\n\tyear = {2020},\n\tpmid = {32205368},\n\tnote = {Company: Cold Spring Harbor Laboratory Press\nDistributor: Cold Spring Harbor Laboratory Press\nInstitution: Cold Spring Harbor Laboratory Press\nLabel: Cold Spring Harbor Laboratory Press\nPublisher: Cold Spring Harbor Lab},\n\tpages = {647--659},\n}\n\n

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\n \n 2019\n \n \n (1)\n \n \n

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\n \n\n \n \n \n \n \n \n Community-Level Responses to Iron Availability in Open Ocean Plankton Ecosystems.\n \n \n \n \n\n\n \n Caputi, L.; Carradec, Q.; Eveillard, D.; Kirilovsky, A.; Pelletier, E.; Karlusich, J. J. P.; Vieira, F. R. J.; Villar, E.; Chaffron, S.; Malviya, S.; Scalco, E.; Acinas, S. G.; Alberti, A.; Aury, J.; Benoiston, A.; Bertrand, A.; Biard, T.; Bittner, L.; Boccara, M.; Brum, J. R.; Brunet, C.; Busseni, G.; Carratalà, A.; Claustre, H.; Coelho, L. P.; Colin, S.; D'Aniello, S.; Silva, C. D.; Core, M. D.; Doré, H.; Gasparini, S.; Kokoszka, F.; Jamet, J.; Lejeusne, C.; Lepoivre, C.; Lescot, M.; Lima-Mendez, G.; Lombard, F.; Lukeš, J.; Maillet, N.; Madoui, M.; Martinez, E.; Mazzocchi, M. G.; Néou, M. B.; Paz-Yepes, J.; Poulain, J.; Ramondenc, S.; Romagnan, J.; Roux, S.; Manta, D. S.; Sanges, R.; Speich, S.; Sprovieri, M.; Sunagawa, S.; Taillandier, V.; Tanaka, A.; Tirichine, L.; Trottier, C.; Uitz, J.; Veluchamy, A.; Veselá, J.; Vincent, F.; Yau, S.; Kandels-Lewis, S.; Searson, S.; Dimier, C.; Picheral, M.; Bork, P.; Boss, E.; Vargas, C. d.; Follows, M. J.; Grimsley, N.; Guidi, L.; Hingamp, P.; Karsenti, E.; Sordino, P.; Stemmann, L.; Sullivan, M. B.; Tagliabue, A.; Zingone, A.; Garczarek, L.; d'Ortenzio , F.; Testor, P.; Not, F.; d'Alcalà , M. R.; Wincker, P.; Bowler, C.; and Iudicone, D.\n\n\n \n\n\n\n Global Biogeochemical Cycles, 33(3): 391–419. 2019.\n _eprint: https://agupubs.onlinelibrary.wiley.com/doi/pdf/10.1029/2018GB006022\n\n\n\n
\n\n\n\n \n \n $\"Community-Level$ Paper\n \n \n\n \n \n doi\n \n \n\n \n link\n \n \n\n bibtex\n \n\n \n \n \n abstract \n \n\n \n\n \n \n \n \n \n \n \n\n \n \n \n \n \n \n \n \n \n \n \n\n\n\n

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@article{caputi_community-level_2019,\n\ttitle = {Community-{Level} {Responses} to {Iron} {Availability} in {Open} {Ocean} {Plankton} {Ecosystems}},\n\tvolume = {33},\n\tissn = {1944-9224},\n\turl = {https://agupubs.onlinelibrary.wiley.com/doi/abs/10.1029/2018GB006022},\n\tdoi = {10.1029/2018GB006022},\n\tabstract = {Predicting responses of plankton to variations in essential nutrients is hampered by limited in situ measurements, a poor understanding of community composition, and the lack of reference gene catalogs for key taxa. Iron is a key driver of plankton dynamics and, therefore, of global biogeochemical cycles and climate. To assess the impact of iron availability on plankton communities, we explored the comprehensive bio-oceanographic and bio-omics data sets from Tara Oceans in the context of the iron products from two state-of-the-art global scale biogeochemical models. We obtained novel information about adaptation and acclimation toward iron in a range of phytoplankton, including picocyanobacteria and diatoms, and identified whole subcommunities covarying with iron. Many of the observed global patterns were recapitulated in the Marquesas archipelago, where frequent plankton blooms are believed to be caused by natural iron fertilization, although they are not captured in large-scale biogeochemical models. This work provides a proof of concept that integrative analyses, spanning from genes to ecosystems and viruses to zooplankton, can disentangle the complexity of plankton communities and can lead to more accurate formulations of resource bioavailability in biogeochemical models, thus improving our understanding of plankton resilience in a changing environment.},\n\tlanguage = {en},\n\tnumber = {3},\n\turldate = {2021-07-05},\n\tjournal = {Global Biogeochemical Cycles},\n\tauthor = {Caputi, Luigi and Carradec, Quentin and Eveillard, Damien and Kirilovsky, Amos and Pelletier, Eric and Karlusich, Juan J. Pierella and Vieira, Fabio Rocha Jimenez and Villar, Emilie and Chaffron, Samuel and Malviya, Shruti and Scalco, Eleonora and Acinas, Silvia G. and Alberti, Adriana and Aury, Jean-Marc and Benoiston, Anne-Sophie and Bertrand, Alexis and Biard, Tristan and Bittner, Lucie and Boccara, Martine and Brum, Jennifer R. and Brunet, Christophe and Busseni, Greta and Carratalà, Anna and Claustre, Hervé and Coelho, Luis Pedro and Colin, Sébastien and D'Aniello, Salvatore and Silva, Corinne Da and Core, Marianna Del and Doré, Hugo and Gasparini, Stéphane and Kokoszka, Florian and Jamet, Jean-Louis and Lejeusne, Christophe and Lepoivre, Cyrille and Lescot, Magali and Lima-Mendez, Gipsi and Lombard, Fabien and Lukeš, Julius and Maillet, Nicolas and Madoui, Mohammed-Amin and Martinez, Elodie and Mazzocchi, Maria Grazia and Néou, Mario B. and Paz-Yepes, Javier and Poulain, Julie and Ramondenc, Simon and Romagnan, Jean-Baptiste and Roux, Simon and Manta, Daniela Salvagio and Sanges, Remo and Speich, Sabrina and Sprovieri, Mario and Sunagawa, Shinichi and Taillandier, Vincent and Tanaka, Atsuko and Tirichine, Leila and Trottier, Camille and Uitz, Julia and Veluchamy, Alaguraj and Veselá, Jana and Vincent, Flora and Yau, Sheree and Kandels-Lewis, Stefanie and Searson, Sarah and Dimier, Céline and Picheral, Marc and Bork, Peer and Boss, Emmanuel and Vargas, Colomban de and Follows, Michael J. and Grimsley, Nigel and Guidi, Lionel and Hingamp, Pascal and Karsenti, Eric and Sordino, Paolo and Stemmann, Lars and Sullivan, Matthew B. and Tagliabue, Alessandro and Zingone, Adriana and Garczarek, Laurence and d'Ortenzio, Fabrizio and Testor, Pierre and Not, Fabrice and d'Alcalà, Maurizio Ribera and Wincker, Patrick and Bowler, Chris and Iudicone, Daniele},\n\tyear = {2019},\n\tnote = {\\_eprint: https://agupubs.onlinelibrary.wiley.com/doi/pdf/10.1029/2018GB006022},\n\tkeywords = {iron response, meta-omics, species networks, system biology},\n\tpages = {391--419},\n}\n\n

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\n \n 2018\n \n \n (3)\n \n \n

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\n \n\n \n \n \n \n \n \n A global ocean atlas of eukaryotic genes.\n \n \n \n \n\n\n \n Carradec, Q.; Pelletier, E.; Da Silva, C.; Alberti, A.; Seeleuthner, Y.; Blanc-Mathieu, R.; Lima-Mendez, G.; Rocha, F.; Tirichine, L.; Labadie, K.; Kirilovsky, A.; Bertrand, A.; Engelen, S.; Madoui, M.; Méheust, R.; Poulain, J.; Romac, S.; Richter, D. J.; Yoshikawa, G.; Dimier, C.; Kandels-Lewis, S.; Picheral, M.; Searson, S.; Jaillon, O.; Aury, J.; Karsenti, E.; Sullivan, M. B.; Sunagawa, S.; Bork, P.; Not, F.; Hingamp, P.; Raes, J.; Guidi, L.; Ogata, H.; Vargas, C. d.; Iudicone, D.; Bowler, C.; and Wincker, P.\n\n\n \n\n\n\n Nature Communications, 9(1): 373. January 2018.\n Bandiera_abtest: a Cc_license_type: cc_by Cg_type: Nature Research Journals Number: 1 Primary_atype: Research Publisher: Nature Publishing Group Subject_term: Genomics;Marine biology;Microbial ecology;Water microbiology Subject_term_id: genomics;marine-biology;microbial-ecology;water-microbiology\n\n\n\n
\n\n\n\n \n \n $\"A$ 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 4 downloads\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n \n \n \n \n \n \n \n \n\n\n\n

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@article{carradec_global_2018,\n\ttitle = {A global ocean atlas of eukaryotic genes},\n\tvolume = {9},\n\tcopyright = {2018 The Author(s)},\n\tissn = {2041-1723},\n\turl = {https://www.nature.com/articles/s41467-017-02342-1},\n\tdoi = {10.1038/s41467-017-02342-1},\n\tabstract = {While our knowledge about the roles of microbes and viruses in the ocean has increased tremendously due to recent advances in genomics and metagenomics, research on marine microbial eukaryotes and zooplankton has benefited much less from these new technologies because of their larger genomes, their enormous diversity, and largely unexplored physiologies. Here, we use a metatranscriptomics approach to capture expressed genes in open ocean Tara Oceans stations across four organismal size fractions. The individual sequence reads cluster into 116 million unigenes representing the largest reference collection of eukaryotic transcripts from any single biome. The catalog is used to unveil functions expressed by eukaryotic marine plankton, and to assess their functional biogeography. Almost half of the sequences have no similarity with known proteins, and a great number belong to new gene families with a restricted distribution in the ocean. Overall, the resource provides the foundations for exploring the roles of marine eukaryotes in ocean ecology and biogeochemistry.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2021-07-16},\n\tjournal = {Nature Communications},\n\tauthor = {Carradec, Quentin and Pelletier, Eric and Da Silva, Corinne and Alberti, Adriana and Seeleuthner, Yoann and Blanc-Mathieu, Romain and Lima-Mendez, Gipsi and Rocha, Fabio and Tirichine, Leila and Labadie, Karine and Kirilovsky, Amos and Bertrand, Alexis and Engelen, Stefan and Madoui, Mohammed-Amin and Méheust, Raphaël and Poulain, Julie and Romac, Sarah and Richter, Daniel J. and Yoshikawa, Genki and Dimier, Céline and Kandels-Lewis, Stefanie and Picheral, Marc and Searson, Sarah and Jaillon, Olivier and Aury, Jean-Marc and Karsenti, Eric and Sullivan, Matthew B. and Sunagawa, Shinichi and Bork, Peer and Not, Fabrice and Hingamp, Pascal and Raes, Jeroen and Guidi, Lionel and Ogata, Hiroyuki and Vargas, Colomban de and Iudicone, Daniele and Bowler, Chris and Wincker, Patrick},\n\tmonth = jan,\n\tyear = {2018},\n\tnote = {Bandiera\\_abtest: a\nCc\\_license\\_type: cc\\_by\nCg\\_type: Nature Research Journals\nNumber: 1\nPrimary\\_atype: Research\nPublisher: Nature Publishing Group\nSubject\\_term: Genomics;Marine biology;Microbial ecology;Water microbiology\nSubject\\_term\\_id: genomics;marine-biology;microbial-ecology;water-microbiology},\n\tkeywords = {Genomics, Marine biology, Microbial ecology, Water microbiology},\n\tpages = {373},\n}\n\n

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\n \n\n \n \n \n \n \n \n Single-cell genomics of multiple uncultured stramenopiles reveals underestimated functional diversity across oceans.\n \n \n \n \n\n\n \n Seeleuthner, Y.; Mondy, S.; Lombard, V.; Carradec, Q.; Pelletier, E.; Wessner, M.; Leconte, J.; Mangot, J.; Poulain, J.; Labadie, K.; Logares, R.; Sunagawa, S.; de Berardinis, V.; Salanoubat, M.; Dimier, C.; Kandels-Lewis, S.; Picheral, M.; Searson, S.; Pesant, S.; Poulton, N.; Stepanauskas, R.; Bork, P.; Bowler, C.; Hingamp, P.; Sullivan, M. B.; Iudicone, D.; Massana, R.; Aury, J.; Henrissat, B.; Karsenti, E.; Jaillon, O.; Sieracki, M.; de Vargas, C.; and Wincker, P.\n\n\n \n\n\n\n Nature Communications, 9(1): 310. January 2018.\n Bandiera_abtest: a Cc_license_type: cc_by Cg_type: Nature Research Journals Number: 1 Primary_atype: Research Publisher: Nature Publishing Group Subject_term: Genomics;Marine biology;Microbial ecology;Water microbiology Subject_term_id: genomics;marine-biology;microbial-ecology;water-microbiology\n\n\n\n
\n\n\n\n \n \n $\"Single-cell$ 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 \n \n \n \n \n\n\n\n

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@article{seeleuthner_single-cell_2018,\n\ttitle = {Single-cell genomics of multiple uncultured stramenopiles reveals underestimated functional diversity across oceans},\n\tvolume = {9},\n\tcopyright = {2018 The Author(s)},\n\tissn = {2041-1723},\n\turl = {https://www.nature.com/articles/s41467-017-02235-3},\n\tdoi = {10.1038/s41467-017-02235-3},\n\tabstract = {Single-celled eukaryotes (protists) are critical players in global biogeochemical cycling of nutrients and energy in the oceans. While their roles as primary producers and grazers are well appreciated, other aspects of their life histories remain obscure due to challenges in culturing and sequencing their natural diversity. Here, we exploit single-cell genomics and metagenomics data from the circumglobal Tara Oceans expedition to analyze the genome content and apparent oceanic distribution of seven prevalent lineages of uncultured heterotrophic stramenopiles. Based on the available data, each sequenced genome or genotype appears to have a specific oceanic distribution, principally correlated with water temperature and depth. The genome content provides hypotheses for specialization in terms of cell motility, food spectra, and trophic stages, including the potential impact on their lifestyles of horizontal gene transfer from prokaryotes. Our results support the idea that prominent heterotrophic marine protists perform diverse functions in ocean ecology.},\n\tlanguage = {en},\n\tnumber = {1},\n\turldate = {2022-01-10},\n\tjournal = {Nature Communications},\n\tauthor = {Seeleuthner, Yoann and Mondy, Samuel and Lombard, Vincent and Carradec, Quentin and Pelletier, Eric and Wessner, Marc and Leconte, Jade and Mangot, Jean-François and Poulain, Julie and Labadie, Karine and Logares, Ramiro and Sunagawa, Shinichi and de Berardinis, Véronique and Salanoubat, Marcel and Dimier, Céline and Kandels-Lewis, Stefanie and Picheral, Marc and Searson, Sarah and Pesant, Stephane and Poulton, Nicole and Stepanauskas, Ramunas and Bork, Peer and Bowler, Chris and Hingamp, Pascal and Sullivan, Matthew B. and Iudicone, Daniele and Massana, Ramon and Aury, Jean-Marc and Henrissat, Bernard and Karsenti, Eric and Jaillon, Olivier and Sieracki, Mike and de Vargas, Colomban and Wincker, Patrick},\n\tmonth = jan,\n\tyear = {2018},\n\tnote = {Bandiera\\_abtest: a\nCc\\_license\\_type: cc\\_by\nCg\\_type: Nature Research Journals\nNumber: 1\nPrimary\\_atype: Research\nPublisher: Nature Publishing Group\nSubject\\_term: Genomics;Marine biology;Microbial ecology;Water microbiology\nSubject\\_term\\_id: genomics;marine-biology;microbial-ecology;water-microbiology},\n\tkeywords = {Genomics, Marine biology, Microbial ecology, Water microbiology},\n\tpages = {310},\n}\n\n

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\n \n\n \n \n \n \n \n \n Worldwide Occurrence and Activity of the Reef-Building Coral Symbiont Symbiodinium in the Open Ocean.\n \n \n \n \n\n\n \n Decelle, J.; Carradec, Q.; Pochon, X.; Henry, N.; Romac, S.; Mahé, F.; Dunthorn, M.; Kourlaiev, A.; Voolstra, C. R.; Wincker, P.; and de Vargas, C.\n\n\n \n\n\n\n Current Biology, 28(22): 3625–3633.e3. November 2018.\n \n\n\n\n
\n\n\n\n \n \n $\"Worldwide$ Paper\n \n \n\n \n \n doi\n \n \n\n \n link\n \n \n\n bibtex\n \n\n \n \n \n abstract \n \n\n \n\n \n \n \n \n \n \n \n\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n\n\n\n

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@article{decelle_worldwide_2018,\n\ttitle = {Worldwide {Occurrence} and {Activity} of the {Reef}-{Building} {Coral} {Symbiont} {Symbiodinium} in the {Open} {Ocean}},\n\tvolume = {28},\n\tissn = {0960-9822},\n\turl = {https://www.sciencedirect.com/science/article/pii/S0960982218312193},\n\tdoi = {10.1016/j.cub.2018.09.024},\n\tabstract = {The dinoflagellate microalga Symbiodinium sustains coral reefs, one of the most diverse ecosystems of the biosphere, through mutualistic endosymbioses with a wide diversity of benthic hosts [1]. Despite its ecological and economic importance, the presence of Symbiodinium in open oceanic waters remains unknown, which represents a significant knowledge gap to fully understand the eco-evolutionary trajectory and resilience of endangered Symbiodinium-based symbioses. Here, we document the existence of Symbiodinium (i.e., now the family Symbiodiniaceae [2]) in tropical- and temperate-surface oceans using DNA and RNA metabarcoding of size-fractionated plankton samples collected at 109 stations across the globe. Symbiodinium from clades A and C were, by far, the most prevalent and widely distributed lineages (representing 0.1\\% of phytoplankton reads), while other lineages (clades B, D, E, F, and G) were present but rare. Concurrent metatranscriptomics analyses using the Tara Oceans gene catalog [3] revealed that Symbiodinium clades A and C were transcriptionally active in the open ocean and expressed core metabolic pathways (e.g., photosynthesis, carbon fixation, glycolysis, and ammonium uptake). Metabarcodes and expressed genes of clades A and C were detected in small and large plankton size fractions, suggesting the existence of a free-living population and a symbiotic lifestyle within planktonic hosts, respectively. However, high-resolution genetic markers and microscopy are required to confirm the life history of oceanic Symbiodinium. Overall, the previously unknown, metabolically active presence of Symbiodinium in oceanic waters opens up new avenues for investigating the potential of this oceanic reservoir to repopulate coral reefs following stress-induced bleaching.},\n\tlanguage = {en},\n\tnumber = {22},\n\turldate = {2022-01-10},\n\tjournal = {Current Biology},\n\tauthor = {Decelle, Johan and Carradec, Quentin and Pochon, Xavier and Henry, Nicolas and Romac, Sarah and Mahé, Frédéric and Dunthorn, Micah and Kourlaiev, Artem and Voolstra, Christian R. and Wincker, Patrick and de Vargas, Colomban},\n\tmonth = nov,\n\tyear = {2018},\n\tkeywords = {Tara Oceans, coral reefs, marine plankton, metabarcoding, metatranscriptomics, open ocean, phytoplankton, symbiosis},\n\tpages = {3625--3633.e3},\n}\n\n

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\n \n 2015\n \n \n (2)\n \n \n

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\n \n\n \n \n \n \n \n \n Retroviral envelope gene captures and syncytin exaptation for placentation in marsupials.\n \n \n \n \n\n\n \n Cornelis, G.; Vernochet, C.; Carradec, Q.; Souquere, S.; Mulot, B.; Catzeflis, F.; Nilsson, M. A.; Menzies, B. R.; Renfree, M. B.; Pierron, G.; Zeller, U.; Heidmann, O.; Dupressoir, A.; and Heidmann, T.\n\n\n \n\n\n\n Proceedings of the National Academy of Sciences, 112(5): E487–E496. February 2015.\n ISBN: 9781417000111 Publisher: National Academy of Sciences Section: PNAS Plus\n\n\n\n
\n\n\n\n \n \n $\"Retroviral$ Paper\n \n \n\n \n \n doi\n \n \n\n \n link\n \n \n\n bibtex\n \n\n \n \n \n abstract \n \n\n \n\n \n \n \n \n \n \n \n\n \n \n \n \n \n \n \n \n \n \n \n \n \n\n\n\n

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@article{cornelis_retroviral_2015,\n\ttitle = {Retroviral envelope gene captures and syncytin exaptation for placentation in marsupials},\n\tvolume = {112},\n\tissn = {0027-8424, 1091-6490},\n\turl = {https://www.pnas.org/content/112/5/E487},\n\tdoi = {10.1073/pnas.1417000112},\n\tabstract = {Syncytins are genes of retroviral origin captured by eutherian mammals, with a role in placentation. Here we show that some marsupials—which are the closest living relatives to eutherian mammals, although they diverged from the latter ∼190 Mya—also possess a syncytin gene. The gene identified in the South American marsupial opossum and dubbed syncytin-Opo1 has all of the characteristic features of a bona fide syncytin gene: It is fusogenic in an ex vivo cell–cell fusion assay; it is specifically expressed in the short-lived placenta at the level of the syncytial feto–maternal interface; and it is conserved in a functional state in a series of Monodelphis species. We further identify a nonfusogenic retroviral envelope gene that has been conserved for {\\textgreater}80 My of evolution among all marsupials (including the opossum and the Australian tammar wallaby), with evidence for purifying selection and conservation of a canonical immunosuppressive domain, but with only limited expression in the placenta. This unusual captured gene, together with a third class of envelope genes from recently endogenized retroviruses—displaying strong expression in the uterine glands where retroviral particles can be detected—plausibly correspond to the different evolutionary statuses of a captured retroviral envelope gene, with only syncytin-Opo1 being the present-day bona fide syncytin active in the opossum and related species. This study would accordingly recapitulate the natural history of syncytin exaptation and evolution in a single species, and definitely extends the presence of such genes to all major placental mammalian clades.},\n\tlanguage = {en},\n\tnumber = {5},\n\turldate = {2022-01-10},\n\tjournal = {Proceedings of the National Academy of Sciences},\n\tauthor = {Cornelis, Guillaume and Vernochet, Cécile and Carradec, Quentin and Souquere, Sylvie and Mulot, Baptiste and Catzeflis, François and Nilsson, Maria A. and Menzies, Brandon R. and Renfree, Marilyn B. and Pierron, Gérard and Zeller, Ulrich and Heidmann, Odile and Dupressoir, Anne and Heidmann, Thierry},\n\tmonth = feb,\n\tyear = {2015},\n\tpmid = {25605903},\n\tnote = {ISBN: 9781417000111\nPublisher: National Academy of Sciences\nSection: PNAS Plus},\n\tkeywords = {endogenous retrovirus, envelope protein, fusogenic activity, marsupials, syncytiotrophoblast},\n\tpages = {E487--E496},\n}\n\n

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\n \n\n \n \n \n \n \n \n Primary and secondary siRNA synthesis triggered by RNAs from food bacteria in the ciliate Paramecium tetraurelia.\n \n \n \n \n\n\n \n Carradec, Q.; Götz, U.; Arnaiz, O.; Pouch, J.; Simon, M.; Meyer, E.; and Marker, S.\n\n\n \n\n\n\n Nucleic Acids Research, 43(3): 1818–1833. 2015.\n \n\n\n\n
\n\n\n\n \n \n $\"Primary$ 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{carradec_primary_2015,\n\ttitle = {Primary and secondary {siRNA} synthesis triggered by {RNAs} from food bacteria in the ciliate {Paramecium} tetraurelia},\n\tvolume = {43},\n\tissn = {0305-1048},\n\turl = {https://doi.org/10.1093/nar/gku1331},\n\tdoi = {10.1093/nar/gku1331},\n\tabstract = {In various organisms, an efficient RNAi response can be triggered by feeding cells with bacteria producing double-stranded RNA (dsRNA) against an endogenous gene. However, the detailed mechanisms and natural functions of this pathway are not well understood in most cases. Here, we studied siRNA biogenesis from exogenous RNA and its genetic overlap with endogenous RNAi in the ciliate Paramecium tetraurelia by high-throughput sequencing. Using wild-type and mutant strains deficient for dsRNA feeding we found that high levels of primary siRNAs of both strands are processed from the ingested dsRNA trigger by the Dicer Dcr1, the RNA-dependent RNA polymerases Rdr1 and Rdr2 and other factors. We further show that this induces the synthesis of secondary siRNAs spreading along the entire endogenous mRNA, demonstrating the occurrence of both 3′-to-5′ and 5′-to-3′ transitivity for the first time in the SAR clade of eukaryotes (Stramenopiles, Alveolates, Rhizaria). Secondary siRNAs depend on Rdr2 and show a strong antisense bias; they are produced at much lower levels than primary siRNAs and hardly contribute to RNAi efficiency. We further provide evidence that the Paramecium RNAi machinery also processes single-stranded RNAs from its bacterial food, broadening the possible natural functions of exogenously induced RNAi in this organism.},\n\tnumber = {3},\n\turldate = {2022-01-10},\n\tjournal = {Nucleic Acids Research},\n\tauthor = {Carradec, Quentin and Götz, Ulrike and Arnaiz, Olivier and Pouch, Juliette and Simon, Martin and Meyer, Eric and Marker, Simone},\n\tyear = {2015},\n\tpages = {1818--1833},\n}\n\n

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\n \n 2014\n \n \n (1)\n \n \n

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\n \n\n \n \n \n \n \n \n A forward genetic screen reveals essential and non-essential RNAi factors in Paramecium tetraurelia.\n \n \n \n \n\n\n \n Marker, S.; Carradec, Q.; Tanty, V.; Arnaiz, O.; and Meyer, E.\n\n\n \n\n\n\n Nucleic Acids Research, 42(11): 7268–7280. 2014.\n \n\n\n\n
\n\n\n\n \n \n $\"A$ 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{marker_forward_2014,\n\ttitle = {A forward genetic screen reveals essential and non-essential {RNAi} factors in {Paramecium} tetraurelia},\n\tvolume = {42},\n\tissn = {0305-1048},\n\turl = {https://doi.org/10.1093/nar/gku223},\n\tdoi = {10.1093/nar/gku223},\n\tabstract = {In most eukaryotes, small RNA-mediated gene silencing pathways form complex interacting networks. In the ciliate Paramecium tetraurelia, at least two RNA interference (RNAi) mechanisms coexist, involving distinct but overlapping sets of protein factors and producing different types of short interfering RNAs (siRNAs). One is specifically triggered by high-copy transgenes, and the other by feeding cells with double-stranded RNA (dsRNA)-producing bacteria. In this study, we designed a forward genetic screen for mutants deficient in dsRNA-induced silencing, and a powerful method to identify the relevant mutations by whole-genome sequencing. We present a set of 47 mutant alleles for five genes, revealing two previously unknown RNAi factors: a novel Paramecium-specific protein (Pds1) and a Cid1-like nucleotidyl transferase. Analyses of allelic diversity distinguish non-essential and essential genes and suggest that the screen is saturated for non-essential, single-copy genes. We show that non-essential genes are specifically involved in dsRNA-induced RNAi while essential ones are also involved in transgene-induced RNAi. One of the latter, the RNA-dependent RNA polymerase RDR2, is further shown to be required for all known types of siRNAs, as well as for sexual reproduction. These results open the way for the dissection of the genetic complexity, interconnection, mechanisms and natural functions of RNAi pathways in P. tetraurelia.},\n\tnumber = {11},\n\turldate = {2022-01-10},\n\tjournal = {Nucleic Acids Research},\n\tauthor = {Marker, Simone and Carradec, Quentin and Tanty, Véronique and Arnaiz, Olivier and Meyer, Eric},\n\tyear = {2014},\n\tpages = {7268--7280},\n}\n\n

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\n \n 2011\n \n \n (1)\n \n \n

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\n \n\n \n \n \n \n \n \n Characterization of a Xenopus tropicalis Endogenous Retrovirus with Developmental and Stress-Dependent Expression.\n \n \n \n \n\n\n \n Sinzelle, L.; Carradec, Q.; Paillard, E.; Bronchain, O. J.; and Pollet, N.\n\n\n \n\n\n\n Journal of Virology. March 2011.\n Publisher: American Society for Microbiology 1752 N St., N.W., Washington, DC\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{sinzelle_characterization_2011,\n\ttitle = {Characterization of a {Xenopus} tropicalis {Endogenous} {Retrovirus} with {Developmental} and {Stress}-{Dependent} {Expression}},\n\tcopyright = {Copyright © 2011, American Society for Microbiology},\n\turl = {https://journals.asm.org/doi/abs/10.1128/JVI.01979-10},\n\tdoi = {10.1128/JVI.01979-10},\n\tabstract = {We report on the identification and characterization of XTERV1, a full-length endogenous\nretrovirus (ERV) within the genome of the western clawed frog (Xenopus tropicalis). XTERV1 contains all the basic genetic elements common to ERVs, including ...},\n\tlanguage = {EN},\n\turldate = {2022-01-10},\n\tjournal = {Journal of Virology},\n\tauthor = {Sinzelle, L. and Carradec, Q. and Paillard, E. and Bronchain, O. J. and Pollet, N.},\n\tmonth = mar,\n\tyear = {2011},\n\tnote = {Publisher: American Society for Microbiology\n1752 N St., N.W., Washington, DC},\n}\n\n

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