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Since 28 jan 2005
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Papers
Papers published since 2005 (older papers are available through the Publication list)

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Humily, F., Marie, D., Farrant, G., Partensky, F., Mazard, S., Perennou, M., Labadie, K., Aury, J. M., Wincker, P., Nicholas Segui, A., Scanlan, D. J. Garczarek, L. 2014. Use of a targeted metagenomic approach to study in situ diversity of a genomic region involved in light harvesting in marine Synechococcus. FEMS Microbial Ecology 88:231-249.
Mahé, F., Rognes, T., Quince, C., de Vargas, C. Dunthorn, M. 2014. Swarm: robust and fast clustering method for amplicon-based studies. PeerJ PrePrints 2:e386v381.
Logares, R., Audic, S., Bass, D., Bittner, L., Boutte, C., Christen, R., Claverie, J.-M., Decelle, J., Dolan, John R., Dunthorn, M., Edvardsen, B., Gobet, A., Kooistra, Wiebe H. C. F., Mahé, F., Not, F., Ogata, H., Pawlowski, J., Pernice, Massimo C., Romac, S., Shalchian-Tabrizi, K., Simon, N., Stoeck, T., Santini, S., Siano, R., Wincker, P., Zingone, A., Richards, Thomas A., de Vargas, C. Massana, R. Patterns of Rare and Abundant Marine Microbial Eukaryotes. Current Biology 24:813-821.
Sierra, R., Matz, M. V., Aglyamova, G., Pillet, L., Decelle, J., Not, F., de Vargas, C. Pawlowski, J. 2013. Deep relationships of Rhizaria revealed by phylogenomics: A farewell to Haeckel's Radiolaria. Molecular Phylogenetics and Evolution 67:53-59. 10.1016/j.ympev.2012.12.011
Keeling, P. J., Burki, F., Wilcox, H. M., Allam, B., Allen, E. E., Amaral-Zettler, L. A., Armbrust, E. V., Archibald, J. M., Bharti, A. K., Bell, C. J., Beszteri, B., Bidle, K. D., Cameron, C. T., Campbell, L., Caron, D. A., Cattolico, R. A., Collier, J. L., Coyne, K., Davy, S. K., Deschamps, P., Dyhrman, S. T., Edvardsen, B., Gates, R. D., Gobler, C. J., Greenwood, S. J., Guida, S. M., Jacobi, J. L., Jakobsen, K. S., James, E. R., Jenkins, B., John, U., Johnson, M. D., Juhl, A. R., Kamp, A., Katz, L. A., Kiene, R., Kudryavtsev, A., Leander, B. S., Lin, S., Lovejoy, C., Lynn, D., Marchetti, A., McManus, G., Nedelcu, A. M., Menden-Deuer, S., Miceli, C., Mock, T., Montresor, M., Moran, M. A., Murray, S., Nadathur, G., Nagai, S., Ngam, P. B., Palenik, B., Pawlowski, J., Petroni, G., Piganeau, G., Posewitz, M. C., Rengefors, K., Romano, G., Rumpho, M. E., Rynearson, T., Schilling, K. B., Schroeder, D. C., Simpson, A. G. B., Slamovits, C. H., Smith, D. R., Smith, G. J., Smith, S. R., Sosik, H. M., Stief, P., Theriot, E., Twary, S. N., Umale, P. E., Vaulot, D., Wawrik, B., Wheeler, G. L., Wilson, W. H., Xu, Y., Zingone, A. Worden, A. Z. 2014. The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP): Illuminating the Functional Diversity of Eukaryotic Life in the Oceans through Transcriptome Sequencing. PLoS Biol 12:e1001889.
Chambouvet, A., Berney, C., Romac, S., Audic, S., Maguire, F., De Vargas, C. Richards, T. 2014. Diverse molecular signatures for ribosomally 'active' Perkinsea in marine sediments. BMC Microbiology 14:110.
Probert, I., Siano, R., Poirier, C., Decelle, J., Biard, T., Tuji, A., Suzuki, N. Not, F. 2014. Brandtodinium gen. nov. and B. nutricula comb. Nov. (Dinophyceae), a dinoflagellate commonly found in symbiosis with polycystine radiolarians. Journal of Phycology 50:388-399.
Bellec, L., Clerissi, C., Edern, R., Foulon, E., Simon, N., Grimsley, N. Desdevises, Y. 2014. Cophylogenetic interactions between marine viruses and eukaryotic picophytoplankton. Bmc Evolutionary Biology 14:59.
Massana, R., del Campo, J., Sieracki, M. E., Audic, S. Logares, R. 2014. Exploring the uncultured microeukaryote majority in the oceans: reevaluation of ribogroups within stramenopiles. ISME Journal 8:854-866.
Bendif, E. M., Probert, I., Carmichael, M., Romac, S., Hagino, K. de Vargas, C. 2014. Genetic delineation between and within the widespread coccolithophore morpho-species Emiliania huxleyi and Gephyrocapsa oceanica (Haptophyta). Journal of Phycology 50:140-148
Maat, D. S., Bale, N. J., Hopmans, E. C., Baudoux, A. C., Sinninghe Damsté, J. S., Schouten, S. Brussaard, C. P. D. 2014. Acquisition of intact polar lipids from the prymnesiophyte Phaeocystis globosa by its lytic virus PgV-07T. Biogeosciences 11:185-194.
Carrier, G., Garnier, M., Le Cunff, L., Bougaran, G., Probert, I., De Vargas, C., Corre, E., Cadoret, J.-P. Saint-Jean, B. 2014. Comparative Transcriptome of Wild Type and Selected Strains of the Microalgae Tisochrysis lutea Provides Insights into the Genetic Basis, Lipid Metabolism and the Life Cycle. PLoS ONE 9:e86889-e86889.
Dunthorn, M., Otto, J., Berger, S., Stamatakis, A., Mahé, F., Romac, S., De Vargas, C., Audic, S., consortium, B., Stock, A., Kauff, F. Stoeck, T. 2014. Placing environmental next generation sequencing amplicons from microbial eukaryotes into a phylogenetic context. Molecular Biology and Evolution in press:
Morard, R., Quillévéré, F., Escarguel, G., de Garidel-Thoronc, T., de Vargas, C. Kucera, M. 2013. Ecological modeling of the temperature dependence of cryptic species of planktonic foraminifera in the Southern Hemisphere. Palaeogeography, Palaeoclimatology, Palaeoecology 393:13-33.
Humily, F., Partensky, F., Six, C., Farrant, G. K., Ratin, M., Marie, D. Garczarek, L. 2013. A Gene Island with Two Possible Configurations Is Involved in Chromatic Acclimation in Marine Synechococcus. PLoS ONE 8:e84459.
Quillévéré, F., Morard, R., Escarguel, G., Douady, C. J., Ujiié, Y., de Garidel-Thoron, T. de Vargas, C. 2013. Global scale same-specimen morpho-genetic analysis of Truncorotalia truncatulinoides: A perspective on the morphological species concept in planktonic foraminifera. Palaeogeography, Palaeoclimatology, Palaeoecology 391:2-12.
Ortega-Retuerta, E., Jeffrey, W. H., Babin, M., Bélanger, S., Benner, R., Marie, D., Matsuoka, A., Raimbault, P. Joux, F. 2012. Carbon fluxes in the Canadian Arctic: patterns and drivers of bacterial abundance, production and respiration on the Beaufort Sea margin. Biogeosciences 9:3679-3692.
Lepelletier, F., Karpov, S. A., Le Panse, S., Bigeard, E., Skovgaard, A., Jeanthon, C. Guillou, L. 2014. Parvilucifera rostrata sp. nov., a novel parasite in the phylum Perkinsozoa that infects the toxic dinoflagellate Alexandrium minutum (Dinophyceae). Protist 165:31-49.
Dia, A., Guillou, L., Mauger, S., Bigeard, E., Marie, D., Valéro, M. Destombe, C. 2014. Spatiotemporal changes in the genetic diversity of harmful algal blooms caused by the toxic dinoflagellate Alexandrium minutum. Molecular Ecology - in press
Pittera, J., Humily, F., Thorel, M., Grulois, D., Garzcarek, L. Six, C. 2014. Connecting thermal physiology and latitudinal niche partitioning in marine Synechococcus. ISME Journal in press
Roux, S., Enault, F., Bronner, G., Vaulot, D., Forterre, P. Krupovic, M. 2013. Chimeric viruses blur the borders between the major groups of eukaryotic single-stranded DNA viruses. Nature Communications: 4
Abida, H., Ruchaud, S., Rios, L., Humeau, A., Probert, I., De Vargas, C., Bach, S. Bowler, C. 2013. Bioprospecting Marine Plankton. Marine Drugs 11:4594-4611.
Roux, S., Enault, F., Bronner, G., Vaulot, D., Forterre, P. Krupovic, M. 2013. Chimeric viruses blur the borders between the major groups of eukaryotic single-stranded DNA viruses. Nat Commun 4:
Egge, E., Bittner, L., Andersen, T., Audic, S., de Vargas, C. Edvardsen, B. 2013. 454 Pyrosequencing to Describe Microbial Eukaryotic Community Composition, Diversity and Relative Abundance: A Test for Marine Haptophytes. PLoS ONE 8:e74371.
Logares, R., Sunagawa, S., Salazar, G., Cornejo-Castillo, F. M., Ferrera, I., Sarmento, H., Hingamp, P., Ogata, H., de Vargas, C., Lima-Mendez, G., Raes, J., Poulain, J., Jaillon, O., Wincker, P., Kandels-Lewis, S., Karsenti, E., Bork, P. Acinas, S. G. 2013. Metagenomic 16S rDNA Illumina Tags are a powerful alternative to amplicon sequencing to explore diversity and structure of microbial communities. Environmental Microbiology in press
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