Created 26/02/2017 Updated 26/08/2017


  1. Selosse, M.-A., Charpin, M. & Not, F. 2017. Mixotrophy everywhere on land and in water: the grand écart hypothesis. Ecol. Lett. 20:246–63.

  2. Demory, D., Arsenieff, L., Simon, N., Six, C., Rigaut-jalabert, F., Marie, D., Ge, P. et al. 2017. Temperature is a key factor in Micromonas – virus interactions. ISME J. in press:1–12.

  3. Biard, T., Bigeard, E., Audic, S., Poulain, J., Gutierrez-Rodriguez, A., Pesant, S., Stemmann, L. et al. 2017. Biogeography and diversity of Collodaria (Radiolaria) in the global ocean. ISME J. 1–42.

  4. Ruiz, E., Baudoux, A., Nathalie, S., Sandaa, R. & Thingstad, T.F. 2017. Micromonas vs Virus : new experimental insights challenge viral impact. Environ. Microbiol. in press.

  5. Chust, G., Vogt, M., Benedetti, F., Nakov, T., Villéger, S., Aubert, A., Vallina, S.M. et al. 2017. Mare Incognitum: A Glimpse into Future Plankton Diversity and Ecology Research. Front. Mar. Sci. 4.

  6. Gutierrez-Rodriguez, A., Pillet, L., Biard, T., Said-Ahmad, W., Amrani, A., Simó, R. & Not, F. 2017. Dimethylated sulfur compounds in symbiotic protists: A potentially significant source for marine DMS(P). Limnol. Oceanogr.

  7. Botebol, H., Lelandais, G., Six, C., Lesuisse, E., Meng, A., Bittner, L., et al. (2017). Acclimation of a low iron adapted Ostreococcus strain to iron limitation through cell biomass lowering. Sci. Rep. 7, 327. doi:10.1038/s41598-017-00216-6.

  8. Alves-de-Souza, C., Benevides, T. S., Santos, J. B. O., Von Dassow, P., Guillou, L., and Menezes, M. (2017). Does environmental heterogeneity explain temporal β diversity of small eukaryotic phytoplankton? Example from a tropical eutrophic coastal lagoon. J. Plankton Res. in press, 1–17. doi:10.1093/plankt/fbx026.


  1. Biard, T., Stemmann, L., Picheral, M., Mayot, N., Vandromme, P., Hauss, H., Gorsky, G. et al. 2016. In situ imaging reveals the biomass of giant protists in the global ocean. Nature. 532:504–7.
  2. Campo, J. del, Guillou, L., Hehenberger, E., Logares, R., López-García, P. & Massana, R. 2016. Ecological and evolutionary significance of novel protist lineages. Eur. J. Protistol. in press.
  3. Edvardsen, B., Egge, E.S. & Vaulot, D. 2016. Diversity and distribution of haptophytes revealed by environmental sequencing and metabarcoding – a review. Perspect. Phycol. in press.
  4. Guidi, L., Chaffron, S., Bittner, L. & Eveillard, D. 2016. Plankton networks driving carbon export in the oligotrophic ocean. Nature. in press.
  5. Ichinomiya, M., Lopes dos Santos, A., Gourvil, P., Yoshikawa, S., Kamiya, M., Ohki, K., Audic, S. et al. 2016. Diversity and oceanic distribution of Parmales (Bolidophyceae), a picoplankton group closely related to diatoms. ISME J. in press.
  6. Klouch, K.Z., Schmidt, S., Andrieux-Loyer, F., Gac, M. Le, Hervio-Heath, D., Qui-Minet, Z.N., Quéré, J. et al. 2016. Historical records from dated sediment cores reveal the multidecadal dynamic of the toxic dinoflagellate Alexandrium minutum in the Bay of Brest (France). FEMS Microbiol. Ecol. in press.
  7. Lopes dos Santos, A., Gourvil, P., Rodriguez-Hernandez, F., Garrido, J.L. & Vaulot, D. 2016. Photosynthetic pigments of oceanic Chlorophyta belonging to prasinophytes clade VII. J. Phycol. 52:148–55.
  8. Mitra, A., Flynn, K.J., Tillmann, U., Raven, J.A., Caron, D., Stoecker, D.K., Not, F. et al. 2016. Defining Planktonic Protist Functional Groups on Mechanisms for Energy and Nutrient Acquisition; Incorporation of Diverse Mixotrophic Strategies. Protist. 167:106–20.
  9. Müller, D.G., Maier, I., Marie, D. & Westermeier, R. 2016. Nuclear DNA level and life cycle of kelps: Evidence for sex-specific polyteny in Macrocystis (Laminariales, Phaeophyceae). J. Phycol. n/a – n/a.
  10. Percopo, I., Ruggiero, M.V., Balzano, S., Gourvil, P., Lundhölm, N., Siano, R., Tammilehto, A. et al. 2016. P. arctica sp. nov., a new cold-water cryptic Pseudo-nitzschia species within the P. pseudodelicatissima complex. J. Phycol. in press.
  11. Tragin, M., Lopes dos Santos, A., Christen, R. & Vaulot, D. 2016. Phylogenetic diversity and ecology of green micro algae in marine systems. Perspect. Phycol. in press.
  12. Forster, D., Dunthorn, M., Mahé, F., Dolan, J.R., Audic, S., Bass, D., Bittner, L. et al. 2016. Benthic protists: the under-charted majority. FEMS Microbiol. Ecol. in press:fiw120.
  13. Schrével, J., Valigurová, A., Prensier, G., Chambouvet, A., Florent, I. & Guillou, L. 2016. Ultrastructure of Selenidium pendula, the Type Species of Archigregarines, and Phylogenetic Relations to Other Marine Apicomplexa. Protist. 167:339–68.
  14. Brussaard, C.P.D., Baudoux, A.-C. & Rodríguez-Valera, F. 2016. Marine Viruses. In Stal, L. J. & Cretoiu, S. M. [Eds.] The Marine Microbiome – an Untold Resource of Biodiversity and Biotechnological Potential. Springer, pp. 305–32.
  15. Not, F., Probert, I., Gerikas-Ribeiro, C., Crenn, K., Guillou, L., Jeanthon, C. & Vaulot, D. 2016. Photosymbiosis in marine pelagic environments. In Stal, L. J. & Cretoiu, S. M. [Eds.] The Marine Microbiome – an Untold Resource of Biodiversity and Biotechnological Potential. Springer, pp. 305–32.
  16. Balzano, S., Percopo, I., Siano, R., Gourvil, P., Chanoine, M., Marie, D., Vaulot, D. et al. 2016. Morphological and genetic diversity of diatoms in the Beaufort Sea with high contributions from the Chaetoceros neogracilis species complex. J. Phycol. in press.
  17. Hummel, H., Van Avesaath, P., Wijnhoven, S., Kleine-Schaars, L., Degraer, S., Kerckhof, F., Bojanic, N. et al. 2016. Geographic patterns of biodiversity in European coastal marine benthos. J. Mar. Biol. Assoc. United Kingdom. 1–17.
  18. Lopes dos Santos, A., Tragin, M., Gourvil, P., Noël, M.-H., Decelle, J., Romac, S. & Vaulot, D. 2016. Diversity and oceanic distribution of prasinophytes clade VII, the dominant group of green algae in oceanic waters. ISME J. in press.
  19. Le Gac, M., Metegnier, G., Chomérat, N., Pascale, M., Quéré, J., Bouchez, O., Siano, R. et al. 2016. Evolutionary processes and cellular functions underlying divergence in Alexandrium minutum. Mol. Ecol. in press.
  20. Lu, Y., Wohlrab, S., Groth, M., Glöckner, G., Guillou, L. & John, U. 2016. Transcriptomic profiling of Alexandrium fundyense during physical interaction with or exposure to chemical signals from the parasite Amoebophrya. Mol. Ecol. 25:1294–307.
  21. Gérikas Ribeiro, C., Marie, D., Lopes dos Santos, A., Pereira Brandini, F. & Vaulot, D. 2016. Estimating microbial populations by flow cytometry: Comparison between instruments. Limnol. Oceanogr. Methods. in press.
  22. Marie, D., Le Gall, F., Edern, R., Gourvil, P. & Vaulot, D. 2016. Improvement of phytoplankton culture isolation using single cell sorting by flow cytometry. J. Phycol. in press.
  23. Gérikas Ribeiro, C., Lopes dos Santos, A., Marie, D., Pellizari, V.H., Brandini, F.P. & Vaulot, D. 2016. Pico- and nanoplankton abundance and biomass in the Southwest Atlantic Ocean off Brazil. PeerJ. in press.
  24. Marron, A.O., Ratcliffe, S., Wheeler, G.L., Goldstein, R.E., King, N., Not, F., de Vargas, C. et al. 2016. The Evolution of Silicon Transport in Eukaryotes. Mol. Biol. Evol. msw209.
  25. Blanquart, F., Valero, M., Alves-de-Souza, C., Dia, A., Lepelletier, F., Bigeard, E., Jeanthon, C. et al. 2016. Evidence for parasite-mediated selection during short-lasting toxic algal blooms. Proc. R. Soc. B Biol. Sci. 283:20161870.
  26. Egas, C., Henríquez-Castillo, C., Delherbe, N., Molina, E., Lopes Dos Santos, A., Lavín, P., Iglesia, R.D. la et al. 2016. Size-structure of microbial planktonic communities from Fildes Bay, Antarctica: dominance of nano-phytoplankton during summer 2012. Antarct. Sci. in press.
  27. Vannier, T., Leconte, J., Seeleuthner, Y., Mondy, S., Pelletier, E., Aury, J.-M., de Vargas, C. et al. 2016. Survey of the green picoalga Bathycoccus genomes in the global ocean. Sci. Rep. in press.
  28. Klouch, Z.K., Caradec, F., Plus, M., Hernández-Fariñas, T., Pineau-Guillou, L., Chapelle, A., Schmitt, S. et al. 2016. Heterogeneous distribution in sediments and dispersal in waters of Alexandrium minutum in a semi-enclosed coastal ecosystem. Harmful Algae. 60:81–91.
  29. Husson, B., Hernández-Fariñas, T., Le Gendre, R., Schapira, M. & Chapelle, A. 2016. Two decades of Pseudo-nitzschia spp. blooms and king scallop (Pecten maximus) contamination by domoic acid along the French Atlantic and English Channel coasts: Seasonal dynamics, spatial heterogeneity and interannual variability. Harmful Algae. 51:26–39.

  30. Scholz, B., Guillou, L., Marano, A. V., Neuhauser, S., Sullivan, B.K., Karsten, U., Küpper, F.C. et al. 2016. Zoosporic parasites infecting marine diatoms – A black box that needs to be opened. Fungal Ecol. 19:59–76.


  1. Alves-de-Souza, C., Pecqueur, D., Le Floc’h, E., Mas, S., Roques, C., Mostajir, B., Vidussi, F. et al. 2015. Significance of plankton community structure and nutrient availability for the control of dinoflagellate blooms by parasites: a modeling approach. PLoS One. 10:e0127623.
  2. Balzano, S., Corre, E., Decelle, J., Sierra, R., Wincker, P., Silva, C. Da, Poulain, J. et al. 2015. Transcriptome analyses to investigate symbiotic relationships between marine protists . Front. Microbiol. 6.
  3. Baudoux, A.-C., Lebredonchel, H., Dehmer, H., Latimier, M., Edern, R., Rigaut-Jalabert, F., Ge, P. et al. 2015. Interplay between the genetic clades of Micromonas and their viruses in the Western English Channel. Environ. Microbiol. Rep.
  4. Biard, T., Pillet, L., Decelle, J., Poirier, C., Suzuki, N. & Not, F. 2015. Towards an Integrative Morpho-molecular Classification of the Collodaria (Polycystinea, Radiolaria). Protist. 166:374–88.
  5. Brum, J.R., Ignacio-Espinoza, J.C., Roux, S., Doulcier, G., Acinas, S.G., Alberti, A., Chaffron, S. et al. 2015. Patterns and ecological drivers of ocean viral communities. Science. 348:1261498–1261498.
  6. Coupel, P., Matsuoka, A., Ruiz-Pino, D., Gosselin, M., Marie, D., Tremblay, J.-É. & Babin, M. 2015. Pigment signatures of phytoplankton communities in the Beaufort Sea. Biogeosciences. 12:991–1006.
  7. Decelle, J. & Not, F. 2015. Acantharia. In eLS. pp. 1–10.
  8. Decelle, J., Romac, S., Stern, R.F., Bendif, E.M., Zingone, A., Audic, S., Guiry, M.D. et al. 2015. PhytoREF: a reference database of the plastidial 16S rRNA gene of photosynthetic eukaryotes with curated taxonomy. Mol. Ecol. Resour. 15:1435–45.
  9. Gleason, F.H., Jephcott, T.G., Küpper, F.C., Gerphagnon, M., Sime-Ngando, T., Karpov, S. a., Guillou, L. et al. 2015. Potential roles for recently discovered chytrid parasites in the dynamics of harmful algal blooms. Fungal Biol. Rev. 29:20–33.
  10. Jephcott, T.G., Alves-de-Souza, C., Gleason, F.H., van Ogtrop, F.F., Sime-Ngando, T., Karpov, S. a. & Guillou, L. 2015. Ecological impacts of parasitic chytrids, syndiniales and perkinsids on populations of marine photosynthetic dinoflagellates. Fungal Ecol. 1–12.
  11. Kopf, A., Bicak, M., Kottmann, R., Schnetzer, J., Kostadinov, I., Lehmann, K., Fernandez-Guerra, A. et al. 2015. The ocean sampling day consortium. Gigascience. 4:27.
  12. Landry, M.R., Selph, K.E., Décima, M., Gutiérrez-Rodríguez, A., Stukel, M.R., Taylor, A.G. & Pasulka, A.L. 2015. Phytoplankton production and grazing balances in the Costa Rica Dome. J. Plankton Res. 0:fbv089.
  13. Lejzerowicz, F., Esling, P., Pillet, L., Wilding, T.A., Black, K.D. & Pawlowski, J. 2015. High-throughput sequencing and morphology perform equally well for benthic monitoring of marine ecosystems. Sci. Rep. 5:13932.
  14. Lelchat, F., Cérantola, S., Brandily, C., Colliec-Jouault, S., Baudoux, A.-C., Ojima, T. & Boisset, C. 2015. The marine bacteria Cobetia marina DSMZ 4741 synthesizes an unexpected K-antigen-like exopolysaccharide. Carbohydr. Polym. 124:347–56.
  15. Lima-Mendez, G., Faust, K., Henry, N., Decelle, J., Colin, S., Carcillo, F., Chaffron, S. et al. 2015. Determinants of community structure in the global plankton interactome. Science. 348:1262073–1262073.
  16. Lossouarn, J., Nesbø, C.L., Mercier, C., Zhaxybayeva, O., Johnson, M.S., Charchuck, R., Farasin, J. et al. 2015. “Ménage à trois”: a selfish genetic element uses a virus to propagate within\n Thermotogales. Environ. Microbiol. 17:3278–88.
  17. Massana, R., Gobet, A., Audic, S., Bass, D., Bittner, L., Boutte, C., Chambouvet, A. et al. 2015. Marine protist diversity in European coastal waters and sediments as revealed by high-throughput sequencing. Environ. Microbiol. 17:4035–49.
  18. Nakamura, Y., Imai, I., Yamaguchi, A., Tuji, A., Not, F. & Suzuki, N. 2015. Molecular Phylogeny of the Widely Distributed Marine Protists, Phaeodaria (Rhizaria, Cercozoa). Protist. 166:363–73.
  19. Pesant, S., Not, F., Picheral, M., Kandels-Lewis, S., Le Bescot, N., Gorsky, G., Iudicone, D. et al. 2015. Open science resources for the discovery and analysis of Tara Oceans data. Sci. Data. 2:150023.
  20. Selph, K.E., Landry, M.R., Taylor, A.G., Gutierrez-Rodriguez, A., Stukel, M.R., Wokuluk, J. & Pasulka, A. 2015. Phytoplankton production and taxon-specific growth rates in the Costa Rica Dome. J. Plankton Res. fbv063
  21. Stüken, A., Riobó, P., Franco, J., Jakobsen, K.S., Guillou, L. & Figueroa, R.I. 2015. Paralytic shellfish toxin content is related to genomic sxtA4 copy number in Alexandrium minutum strains. Front. Microbiol. 6:1–10.
  22. Sunagawa, S., Coelho, L.P., Chaffron, S., Kultima, J.R., Labadie, K., Salazar, G., Djahanschiri, B. et al. 2015. Structure and function of the global ocean microbiome. Science. 348:1261359–1261359.
  23. Suzuki, N. & Not, F. 2015. Biology and Ecology of Radiolaria. In Ohtsuka, S., Suzaki, T., Horiguchi, T., Suzuki, N. & Not, F. [Eds.] Marine Protists. Spinge Japan, pp. 179–222.
  24. Taylor, A.G., Landry, M.R., Freibott, A., Selph, K.E. & Gutiérrez-Rodríguez, A. 2015. Patterns of microbial community biomass, composition and HPLC diagnostic pigments in the Costa Rica upwelling dome. J. Plankton Res. 0:fbv086.
  25. Villar, E., Farrant, G.K., Follows, M., Garczarek, L., Speich, S., Audic, S., Bittner, L. et al. 2015. Environmental characteristics of Agulhas rings affect interocean plankton transport. Science. 348:1261447–1261447.
  26. de Vargas, C., Audic, S., Henry, N., Decelle, J., Mahe, F., Logares, R., Lara, E. et al. 2015. Eukaryotic plankton diversity in the sunlit ocean. Science. 348:1261605.



1. Coupel, P., Matsuoka, A., Ruiz-Pino, D., Gosselin, M., Claustre, H., Marie, D., Tremblay, J. É. & Babin, M. 2014. Pigment signatures of phytoplankton communities in the Beaufort Sea. Biogeosciences Discuss. 11:14489-14530.

2. Decelle, J., Romac, S., Sasaki, E., Not, F. & Mahé, F. 2014. Intracellular Diversity of the V4 and V9 Regions of the 18S rRNA in Marine Protists (Radiolarians) Assessed by High-Throughput Sequencing. PLoS ONE 9:e104297.

3. 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. 23 :549-560.

4. Guillou, L. 2014. On the trail of ancestors of diatoms. J. Phycol. 50:975–6.

5. 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.

6. Lelchat, F., Cozien, J., Le Costaouec, T. g., Brandilly, C., Schmitt, S., Baudoux, A.-C., Colliec-Jouault, S. & Boisset, C. 2014. Exopolysaccharide biosynthesis and biodegradation by a marine hydrothermal Alteromonas sp. strain. Applied Microbiology and Biotechnology 1-11. 10.1007/s00253-014-6075-y

7. Lepelletier, F., Karpov, S. A., Alacid, E., Le Panse, S., Bigeard, E., Garcés, E., Jeanthon, C. & Guillou, L. 2014. Dinomyces arenysensis gen. et sp. nov. (Rhizophydiales, Dinomycetaceae fam. nov.), a Chytrid Infecting Marine Dinoflagellates. Protist 165:230-244.

8. 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

9. 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.

10. Lu, Y., Wohlrab, S., Glockner, G., Guillou, L. & John, U. 2014. Genomic Insights into Processes Driving the Infection of Alexandrium tamarense by the Parasitoid Amoebophrya sp.. Eukaryotic Cell. 13:1439–49.

11. 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. 

12. Marie, D., Rigaut-Jalabert, F. & Vaulot, D. 2014. An Improved Protocol for Flow Cytometry Analysis of Phytoplankton Cultures and Natural Samples. Cytometry in press.

13. Nguyen-Kim, H., Bouvier, T., Bouvier, C., Doan-Nhu, H., Nguyen-Ngoc, L., Rochelle-Newall, E., Baudoux, A.-C., Desnues, C., Reynaud, S., Ferrier-Pages, C. & Bettarel, Y. 2014. High occurrence of viruses in the mucus layer of scleractinian corals. Environmental Microbiology Reports n/a-n/a. 10.1111/1758-2229.12185

14. Plominsky, A. M., Delherbe, N., Ugalde, J. A., Allen, E. E., Blanchet, M., Ikeda, P., Santibañez, F., Hanselmann, K., Ulloa, O., Iglesia, R. D. l., Dassow, P. v., Astorga, M., Gálvez, M. J., González, M. L., Henríquez-Castillo, C., Vaulot, D., Santos, A. L. d., Engh, G. v. d., Gimpel, C., Bertoglio, F., Delagdo, Y., Docmac, F., Elizondo-Patrone, C., Narváez, S., Sorroche, F., Rojas-Herrera, M. A. & Trefault, N. 2014. Metagenome sequencing of the microbial community of a solar saltern crystallizer pond at Cáhuil Lagoon, Chile. Genome Announcement in press

15. 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.

16. Pulido-Villena, E., Baudoux, A. C., Obernosterer, I., Landa, M., Caparros, J., Catala, P., Georges, C., Harmand, J. & Guieu, C. 2014. Microbial food web dynamics in response to a Saharan dust event: results from a mesocosm study in the oligotrophic Mediterranean Sea. Biogeosciences 11:5607-5619.