Created 28/08/2019 Updated 01/07/2020
  1. Androuin T., Six C., Bordeyne F., de Bettignies F., Noisette F., Davoult D. 2020. Better off alone? New insights in the symbiotic relationship between the flatworm Symsagittifera roscoffensis and the microalgae Tetraselmis convolutae. Symbiosis. doi:10.1007/s13199-020-00691-y

  2. Arsenieff L., Le Gall F., Rigaut-Jalabert F., Mahé F., Sarno D., Gouhier L., Baudoux A.-C., Simon N. 2020. Diversity and dynamics of relevant nanoplanktonic diatoms in the Western English Channel. The ISME Journal, doi: 10.1038/s41396-020-0659-6

  3. Bigeard E., Pillet L, Burns J, Not N. 2020. Collect of collodarian (Rhizaria, Radiolaria) nuclei for genomic analyses. dx.doi.org/10.17504/protocols.io.5kgg4tw

  4. Brandt M.I., Trouche B., Henry N., Liautard-Haag C., Maignien L., de Vargas C., Wincker P., Poulain J., Zeppilli D., Arnaud-Haond S. 2020. An assessment of environmental metabarcoding protocols aiming at favouring contemporary biodiversity in inventories of deep-sea communities. Frontiers in Marine Science, 7: 234.  doi: 10.3389/fmars.2020.00234

  5. Cai R., Kayal E., Alves-de-Souza C., Bigeard E., Corre E., Jeanthon C., Marie D., Porcel BM., Siano R., Szymczak J., Wolf M., Guillou L. 2020. Cryptic species in the parasitic Amoebophrya species complex revealed by a polyphasic approach. Scientific Reports 10:253 DOI: 10.1038/s41598-020-59524-z.

  6. Calmes B., Strittmatter M., Jacquemin B., Perrineau M-M., Rousseau C., Badis Y., Cock JM., Destombe C., Valero M., Gachon CMM. 2020. Parallelisable non-invasive biomass, fitness and growth measurement of macroalgae and other protists with nephelometry. Algal Research 46:10176 DOI: 10.1016/j.algal.2019.101762.

  7. Dittami S.M., Corre E, Brillet-Guéguen L, Lipinska A.P., Pontoizeau N., ..., Marie D., et al. 2020. The genome of Ectocarpus subulatus – a highly stress-tolerant brown alga. Marine Genomics doi:  10.1016/j.margen.2020.100740

  8. Dupont S., Lokmer A., Corre E., ..., Guillou L., et al.. 2020. Oyster hemolymph is a complex and dynamic ecosystem hosting bacteria, protists and viruses. Animal Microbiome, 2: 12.  doi: 10.1186/s42523-020-00032-w

  9. Gérikas Ribeiro C., Lopes Dos Santos A., Gourvil P., Le Gall F., Marie D., Tragin M., Probert I., Vaulot D. 2020. Culturable diversity of Arctic phytoplankton during pack ice melting. Elementa: Science of the Anthropocene, 8: 23.  doi: 10.1525/elementa.401

  10. Gérikas Ribeiro C., Lopes dos Santos A., Probert I., Vaulot D., Edvardsen B. 2020. Taxonomic reassignment of Pseudohaptolina birgeri comb. nov. (Haptophyta). bioRxiv. Doi: 10.1101/2020.05.06.081489.

  11. JImenez V., Burns JA.,  Le Gall F, Not F, Vaulot D. 2020. No evidence of phago-mixotropy in Micromonas polaris, the dominant picophytoplankton species in the Arctic. BioRxiv . doi:10.1101/2020.05.26.117895.

  12. Jobard M., Wawrzyniak I., Bronner G., Marie D., Vellet A., Sime-Ngando T., Debroas D., Lepere C. 2020. Freshwater Perkinsea: diversity, ecology and genomic information. J. Plankton Res., 42: 3-17.  doi: 10.1093/plankt/fbz068

  13. Hallmann C., Nett..., Not F., ..., Kucera M. , Stuhr M. 2020. Reply to: Sources of C-30 steroid biomarkers in Neoproterozoic-Cambrian rocks and oils. Nat. Ecol. Evol., 4: 37-39.  10.1038/s41559-019-1049-1

  14. Llopis Monferrer N., Boltovskoy D., Tréguer P., Sandin MM., Not F., Leynaert A. 2020. Estimating biogenic silica production of Rhizaria in the global ocean. Global Biogeochemical Cycles:0– DOI: 10.1029/2019GB006286.

  15. Logares R., Deutschmann IM., Junger PC., Giner CR., Krabberød AK., Schmidt TSB., Rubinat-Ripoll L., Mestre M., Salazar G., Ruiz-González C., Sebastián M., de Vargas C., Acinas SG., Duarte CM., Gasol JM., Massana R. 2020. Disentangling the mechanisms shaping the surface ocean microbiota. Microbiome 8:55. DOI: 10.1186/s40168-020-00827-8.

  16. Massicotte P., Amiraux R., ..., Gérikas Ribeiro C., ..., Le Gall F., ..., Marie D., et al. 2020. Green Edge ice camp campaigns: understanding the processes controlling the under-ice Arctic phytoplankton spring bloom. Earth System Science Data 12:151–176. DOI: 10.5194/essd-12-151-2020.

  17. Metegnier G., Paulino S., Ramond P., Siano R, Sourisseau M., Destombe C, Le Gac M. 2020. Species specific gene expression dynamics during harmful algal blooms. Sci Rep 10, 6182. doi:10.1038/s41598-020-63326-8

  18. Nakamura Y., Sandin MM., Suzuki N., Tuji A., Not F. 2020. Phylogenetic Revision of the Order Entactinaria—Paleozoic Relict Radiolaria (Rhizaria, SAR). Protist 171:125712. DOI: 10.1016/j.protis.2019.125712.

  19. Pollina T., Larson AG., Lombard F., Li H., Colin S., de Vargas C., Prakash M. 2020. PlanktonScope : Affordable modular imaging platform for citizen oceanography. bioRxiv:1–34. DOI: 10.1101/2020.04.23.056978.

  20. Saint-Béat B., Fath BD., Aubry C., Colombet J., Dinasquet J., Fortier L., Galindo V., Grondin P-L., Joux F., Lalande C., LeBlanc M., Raimbault P., Sime-Ngando T., Tremblay J-E., Vaulot D., Maps F., Babin M., Deming JW., Bowman J. 2020. Contrasting pelagic ecosystem functioning in eastern and western Baffin Bay revealed by trophic network modeling. Elementa: Science of the Anthropocene 8. DOI: 10.1525/elementa.397.

  21. Sunagawa S., Acinas SG., Bork P., Bowler C., Eveillard D., Gorsky G., Guidi L., Iudicone D., Karsenti E., Lombard F., Ogata H., Pesant S., Sullivan MB., Wincker P., de Vargas C. 2020. Tara Oceans: towards global ocean ecosystems biology. Nature Reviews Microbiology. DOI: 10.1038/s41579-020-0364-5.

  22. Villar E., Cabrol L., Heimbürger-Boavida L-E. 2020. Widespread microbial mercury methylation genes in the global ocean. Environmental Microbiology Reports 00:1758-2229.12829. DOI: 10.1111/1758-2229.12829.

  23. Yamada Y., Guillemette R., Baudoux A.C., Patel N., Azam F. 2020. Viral attachment to biotic and abiotic surfaces in seawater. Appl. Environ. Microbiol., 86: 18.  doi: 10.1128/aem.01687-19

  24. Yau S., Lopes dos Santos A., Eikrem W., Gérikas Ribeiro C., Gourvil P., Balzano S., Escande M-L., Moreau H., Vaulot D. 2020. Mantoniella beaufortii and Mantoniella baffinensis sp. nov. (Mamiellales, Mamiellophyceae), two new green algal species from the high arctic 1. Journal of Phycology 56:37–51. DOI: 10.1111/jpy.12932.

  1. Adl SM., Bass D., Lane CE., Lukeš J., Schoch CL., Smirnov A., Agatha S., Berney C., Brown MW., Burki F., Cárdenas P., Čepička I., Chistyakova L., del Campo J., Dunthorn M., Edvardsen B., Eglit Y., Guillou L., Hampl V., Heiss AA., Hoppenrath M., James TY., Karpov S., Kim E., Kolisko M., Kudryavtsev A., Lahr DJG., Lara E., Le Gall L., Lynn DH., Mann DG., Massana i Molera R., Mitchell EAD., Morrow C., Park JS., Pawlowski JW., Powell MJ., Richter DJ., Rueckert S., Shadwick L., Shimano S., Spiegel FW., Torruella i Cortes G., Youssef N., Zlatogursky V., Zhang Q. 2019. Revisions to the Classification, Nomenclature, and Diversity of Eukaryotes. Journal of Eukaryotic Microbiology 66:4–119. DOI: 10.1111/jeu.12691.

  2. Alves-de-Souza C., Benevides TS., Menezes M., Jeanthon C., Guillou L. 2019. First report of vampyrellid predator–prey dynamics in a marine system. The ISME Journal 13:1110–1113. DOI: 10.1038/s41396-018-0329-0.

  3. Arsenieff L., Simon N., Rigaut-Jalabert F., Le Gall F., Chaffron S., Corre E., Com E., Bigeard E., Baudoux A-C. 2019. First Viruses Infecting the Marine Diatom Guinardia delicatula. Frontiers in Microbiology 9. DOI: 10.3389/fmicb.2018.03235.

  4. Brandt MI., Trouche B., Henry N., Liautard-Haag C., Maignien L., Vargas C de., Wincker P., Poulain J., Zeppilli D., Arnaud-Haond S. 2019. An assessment of environmental metabarcoding protocols aiming at favouring contemporary biodiversity in inventories of deep-sea communities. bioRxiv:836080. DOI: 10.1101/836080.

  5. Breton S., Jouhet J., Guyet U., Gros V., Pittera J., Demory D., Partensky F., Doré H., Ratin M., Maréchal E., Nguyen NA., Garczarek L., Six C. 2019. Unveiling membrane thermoregulation strategies in marine picocyanobacteria. New Phytologist:nph.16239. DOI: 10.1111/nph.16239.

  6. Caputi L., Carradec Q., Eveillard D., Kirilovsky A., Pelletier E., Pierella Karlusich JJ., Rocha Jimenez Vieira F., Villar E., Chaffron S., Malviya S., Scalco E., Acinas SG., Alberti A., Aury J-M., Benoiston A-S., Bertrand A., Biard T., Bittner L., Boccara M., Brum JR., Brunet C., Busseni G., Carratalà A., Claustre H., Coelho LP., Colin S., D’Aniello S., Da Silva C., Del Core M., Doré H., Gasparini S., Kokoszka F., Jamet J-L., Lejeusne C., Lepoivre C., Lescot M., Lima-Mendez G., Lombard F., Lukeš J., Maillet N., Madoui M-A., Martinez E., Mazzocchi MG., Néou MB., Paz-Yepes J., Poulain J., Ramondenc S., Romagnan J-B., Roux S., Salvagio Manta D., Sanges R., Speich S., Sprovieri M., Sunagawa S., Taillander 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., de Vargas C., Follows MJ., Grimsley N., Guidi L., Hingamp P., Karsenti E., Sordino P., Stemmann L., Sullivan MB., Tagliabue A., Zingone A., Garczarek L., d’Ortenzio F., Testor P., Not F., Ribera d’Alcalà M., Wincker P., Bowler C., Iudicone D., Acinas SG., Bork P., Boss E., de Vargas C., Follows MJ., Gorsky G., Grimsley N., Hingamp P., Jaillon O., Kandels-Lewis S., Karp-Boss L., Karsenti E., Krzic U., Not F., Ogata H., Pesant S., Raes J., Reynaud EG., Sardet C., Sieracki M., Speich S., Stemmann L., Sullivan MB., Sunagawa S., Velayoudon D., Weissenbach J. 2019. Community-Level Responses to Iron Availability in Open Ocean Planktonic Ecosystems. Global Biogeochemical Cycles. DOI: 10.1029/2018GB006022.

  7. Chénard C., Wijaya W., Vaulot D., Lopes dos Santos A., Martin P., Kaur A., Lauro FM. 2019. Temporal and spatial dynamics of Bacteria, Archaea and protists in equatorial coastal waters. Scientific Reports 9:16390. DOI: 10.1038/s41598-019-52648-x.

  8. Crenn K., Bunk B., Spröer C., Overmann J., Jeanthon C. 2019. Complete Genome Sequence of the Silicimonas algicola Type Strain, a Representative of the Marine Roseobacter Group Isolated from the Cell Surface of the Marine Diatom Thalassiosira delicatula. Microbiology Resource Announcements 8:8–9. DOI: 10.1128/MRA.00108-19.

  9. Dittami S., Arboleda E., Auguet J-C., Bigalke A., Briand E., Cardini U., Decelle J., Engelen A., Eveillard D., Griffiths S., Harder T., Kayal E., Kazamia E., Marzinelli E., Morganti T., Prado S., Saha M., Skillings D., Stock W., Sunagawa S., Toulza E., Vorobev A., Leblanc C., Not F. 2019. A community perspective on the concept of marine holobionts: state-of-the-art, challenges, and future directions. PeerJ Preprints:1–25. DOI: 10.7287/peerj.preprints.27519.

  10. Faure E., Not F., Benoiston A-S., Labadie K., Bittner L., Ayata S-D. 2019. Mixotrophic protists display contrasted biogeographies in the global ocean. The ISME Journal. DOI: 10.1038/s41396-018-0340-5.

  11. Flynn KJ., Mitra A., Anestis K., Anschütz AA., Calbet A., Ferreira GD., Gypens N., Hansen PJ., John U., Martin JL., Mansour JS., Maselli M., Medić N., Norlin A., Not F., Pitta P., Romano F., Saiz E., Schneider LK., Stolte W., Traboni C. 2019. Mixotrophic protists and a new paradigm for marine ecology: Where does plankton research go now? Journal of Plankton Research 41:375–391. DOI: 10.1093/plankt/fbz026.

  12. Gleason FH., Nagarkar M., Chambouvet A., Guillou L. 2019. A review of the characteristics of the dinoflagellate parasite Ichthyodinium chabelardi and its potential effect on fin fish populations. Marine and Freshwater Research. DOI: 10.1071/MF18207.

  13. Gregory AC., Zayed AA., Conceição-Neto N., Temperton B., Bolduc B., Alberti A., Ardyna M., Arkhipova K., Carmichael M., Cruaud C., Dimier C., Domínguez-Huerta G., Ferland J., Kandels S., Liu Y., Marec C., Pesant S., Picheral M., Pisarev S., Poulain J., Tremblay J-É., Vik D., Babin M., Bowler C., Culley AI., de Vargas C., Dutilh BE., Iudicone D., Karp-Boss L., Roux S., Sunagawa S., Wincker P., Sullivan MB., Acinas SG., Babin M., Bork P., Boss E., Bowler C., Cochrane G., de Vargas C., Follows M., Gorsky G., Grimsley N., Guidi L., Hingamp P., Iudicone D., Jaillon O., Kandels-Lewis S., Karp-Boss L., Karsenti E., Not F., Ogata H., Pesant S., Poulton N., Raes J., Sardet C., Speich S., Stemmann L., Sullivan MB., Sunagawa S., Wincker P. 2019. Marine DNA Viral Macro- and Microdiversity from Pole to Pole. Cell:1–15. DOI: 10.1016/j.cell.2019.03.040.

  14. Gutierrez-Rodriguez A., Stukel MR., Lopes dos Santos A., Biard T., Scharek R., Vaulot D., Landry MR., Not F. 2019. High contribution of Rhizaria (Radiolaria) to vertical export in the California Current Ecosystem revealed by DNA metabarcoding. The ISME Journal 13:964–976. DOI: 10.1038/s41396-018-0322-7.

  15. Gérikas Ribeiro C., Lopes dos Santos A., Marie D., Le Gall F., Probert I., Tragin M., Gourvil P., Vaulot D. 2019. Culturable diversity of Arctic phytoplankton during pack ice melting. Elementa: Science of the Anthropocene in press. DOI: 10.1101/642264v1.

  16. Ibarbalz FM., Henry N., Brandão MC., Martini S., Busseni G., Byrne H., Coelho LP., Endo H., Gasol JM., Gregory AC., Mahé F., Rigonato J., Royo-Llonch M., Salazar G., Sanz-Sáez I., Scalco E., Soviadan D., Zayed AA., Zingone A., Labadie K., Ferland J., Marec C., Kandels S., Picheral M., Dimier C., Poulain J., Pisarev S., Carmichael M., Pesant S., Babin M., Boss E., Iudicone D., Jaillon O., Acinas SG., Ogata H., Pelletier E., Stemmann L., Sullivan MB., Sunagawa S., Bopp L., de Vargas C., Karp-Boss L., Wincker P., Lombard F., Bowler C., Zinger L., Acinas SG., Babin M., Bork P., Boss E., Bowler C., Cochrane G., de Vargas C., Follows M., Gorsky G., Grimsley N., Guidi L., Hingamp P., Iudicone D., Jaillon O., Kandels S., Karp-Boss L., Karsenti E., Not F., Ogata H., Pesant S., Poulton N., Raes J., Sardet C., Speich S., Stemmann L., Sullivan MB., Sunagawa S., Wincker P. 2019. Global Trends in Marine Plankton Diversity across Kingdoms of Life. Cell 179:1084-1097.e21. DOI: 10.1016/j.cell.2019.10.008.

  17. John U., Lu Y., Wohlrab S., Groth M., Janouškovec J., Kohli GS., Mark FC., Bickmeyer U., Farhat S., Felder M., Frickenhaus S., Guillou L., Keeling PJ., Moustafa A., Porcel BM., Valentin K., Glöckner G. 2019. An aerobic eukaryotic parasite with functional mitochondria that likely lacks a mitochondrial genome. Science Advances 5:eaav1110. DOI: 10.1126/sciadv.aav1110.

  18. Kashiyama Y., Yokoyama A., Shiratori T., Hess S., Not F., Bachy C., Gutierrez-Rodriguez A., Kawahara J., Suzaki T., Nakazawa M., Ishikawa T., Maruyama M., Wang M., Chen M., Gong Y., Seto K., Kagami M., Hamamoto Y., Honda D., Umetani T., Shihongi A., Kayama M., Matsuda T., Taira J., Yabuki A., Tsuchiya M., Hirakawa Y., Kawaguchi A., Nomura M., Nakamura A., Namba N., Matsumoto M., Tanaka T., Yoshino T., Higuchi R., Yamamoto A., Maruyama T., Yamaguchi A., Uzuka A., Miyagishima S., Tanifuji G., Kawachi M., Kinoshita Y., Tamiaki H. 2019. Taming chlorophylls by early eukaryotes underpinned algal interactions and the diversification of the eukaryotes on the oxygenated Earth. The ISME Journal:1. DOI: 10.1038/s41396-019-0377-0.

  19. Lambert S., Tragin M., Lozano J-C., Ghiglione J-F., Vaulot D., Bouget F-Y., Galand PE. 2019. Rhythmicity of coastal marine picoeukaryotes, bacteria and archaea despite irregular environmental perturbations. The ISME Journal 13:388–401. DOI: 10.1038/s41396-018-0281-z.

  20. Lelchat F., Mocaer PY., Ojima T., Michel G., Sarthou G., Bucciarelli E., Cérantola S., Colliec-Jouault S., Boisset C., Baudoux A-C. 2019. Viral degradation of marine bacterial exopolysaccharides. FEMS Microbiology Ecology. DOI: 10.1093/femsec/fiz079.

  21. Metz S., Lopes dos Santos A., Berman MC., Bigeard E., Licursi M., Not F., Lara E., Unrein F. 2019. Diversity of photosynthetic picoeukaryotes in eutrophic shallow lakes as assessed by combining flow cytometry cell-sorting and high throughput sequencing. FEMS Microbiology Ecology. DOI: 10.1093/femsec/fiz038.

  22. Morard R., Füllberg A., Brummer G-JA., Greco M., Jonkers L., Wizemann A., Weiner AKM., Darling K., Siccha M., Ledevin R., Kitazato H., de Garidel-Thoron T., de Vargas C., Kucera M. 2019. Genetic and morphological divergence in the warm-water planktonic foraminifera genus Globigerinoides. PLOS ONE 14:e0225246. DOI: 10.1371/journal.pone.0225246.

  23. Needham DM., Poirier C., Hehenberger E., Jiménez V., Swalwell JE., Santoro AE., Worden AZ. 2019. Targeted metagenomic recovery of four divergent viruses reveals shared and distinctive characteristics of giant viruses of marine eukaryotes. Philosophical Transactions of the Royal Society B: Biological Sciences 374:20190086. DOI: 10.1098/rstb.2019.0086.

  24. Needham DM., Yoshizawa S., Hosaka T., Poirier C., Choi CJ., Hehenberger E., Irwin NAT., Wilken S., Yung C-M., Bachy C., Kurihara R., Nakajima Y., Kojima K., Kimura-Someya T., Leonard G., Malmstrom RR., Mende DR., Olson DK., Sudo Y., Sudek S., Richards TA., DeLong EF., Keeling PJ., Santoro AE., Shirouzu M., Iwasaki W., Worden AZ. 2019. A distinct lineage of giant viruses brings a rhodopsin photosystem to unicellular marine predators. Proceedings of the National Academy of Sciences 116:20574–20583. DOI: 10.1073/pnas.1907517116.

  25. Nettersheim BJ., Brocks JJ., Schwelm A., Hope JM., Not F., Lomas M., Schmidt C., Schiebel R., Nowack ECM., De Deckker P., Pawlowski J., Bowser SS., Bobrovskiy I., Zonneveld K., Kucera M., Stuhr M., Hallmann C. 2019. Putative sponge biomarkers in unicellular Rhizaria question an early rise of animals. Nature Ecology and Evolution 3. DOI: 10.1038/s41559-019-0806-5.

  26. Planes S., Allemand D., Agostini S., Banaigs B., Boissin E., Boss E., Bourdin G., Bowler C., Douville E., Flores JM., Forcioli D., Furla P., Galand PE., Ghiglione J-F., Gilson E., Lombard F., Moulin C., Pesant S., Poulain J., Reynaud S., Romac S., Sullivan MB., Sunagawa S., Thomas OP., Troublé R., de Vargas C., Vega Thurber R., Voolstra CR., Wincker P., Zoccola D. 2019. The Tara Pacific expedition—A pan-ecosystemic approach of the “-omics” complexity of coral reef holobionts across the Pacific Ocean. PLOS Biology 17:e3000483. DOI: 10.1371/journal.pbio.3000483.

  27. Ramond P., Sourisseau M., Simon N., Romac S., Schmitt S., Rigaut-Jalabert F., Henry N., de Vargas C., Siano R. 2019. Coupling between taxonomic and functional diversity in protistan coastal communities. Environmental Microbiology 21:730–749. DOI: 10.1111/1462-2920.14537.

  28. Richter DJ., Watteaux R., Vannier T., Leconte J., Frémont P. et al. 2019. Genomic evidence for global ocean plankton biogeography shaped by large-scale current systems. BioRxiv doi: https://doi.org/10.1101/867739

  29. Saha M., Berdalet E., Carotenuto Y., Fink P., Harder T., John U., Not F., Pohnert G., Potin P., Selander E., Vyverman W., Wichard T., Zupo V., Steinke M. 2019. Using chemical language to shape future marine health. Frontiers in Ecology and the Environment 17:530–537. DOI: 10.1002/fee.2113.

  30. Saint-Béat B., Fath BD., Aubry C., Colombet J., Dinasquet J., Fortier L., Galindo V., Grondin P-L., Joux F., Lalande C., LeBlanc M., Raimbault P., Sime-Ngando T., Tremblay J-E., Vaulot D., Maps F., Babin M. 2019. Contrasting pelagic ecosystem functioning in eastern and western Baffin Bay revealed by trophic network modeling. Elementa: Science of the Anthropocene. DOI: http://doi.org/10.1525/elementa.397

  31. Salazar G., Paoli L., Alberti A., Huerta-Cepas J., Ruscheweyh H-J., Cuenca M., Field CM., Coelho LP., Cruaud C., Engelen S., Gregory AC., Labadie K., Marec C., Pelletier E., Royo-Llonch M., Roux S., Sánchez P., Uehara H., Zayed AA., Zeller G., Carmichael M., Dimier C., Ferland J., Kandels S., Picheral M., Pisarev S., Poulain J., Acinas SG., Babin M., Bork P., Bowler C., de Vargas C., Guidi L., Hingamp P., Iudicone D., Karp-Boss L., Karsenti E., Ogata H., Pesant S., Speich S., Sullivan MB., Wincker P., Sunagawa S., Acinas SG., Babin M., Bork P., Boss E., Bowler C., Cochrane G., de Vargas C., Follows M., Gorsky G., Grimsley N., Guidi L., Hingamp P., Iudicone D., Jaillon O., Kandels-Lewis S., Karp-Boss L., Karsenti E., Not F., Ogata H., Pesant S., Poulton N., Raes J., Sardet C., Speich S., Stemmann L., Sullivan MB., Sunagawa S., Wincker P. 2019. Gene Expression Changes and Community Turnover Differentially Shape the Global Ocean Metatranscriptome. Cell 179:1068-1083.e21. DOI: 10.1016/j.cell.2019.10.014.

  32. Sandin MM., Pillet L., Biard T., Poirier C., Bigeard E., Romac S., Suzuki N., Not F. 2019. Time Calibrated Morpho-molecular Classification of Nassellaria (Radiolaria). Protist 170:187–208. DOI: 10.1016/j.protis.2019.02.002.

  33. Sanfilippo JE., Garczarek L., Partensky F., Kehoe DM. 2019. Chromatic Acclimation in Cyanobacteria: A Diverse and Widespread Process for Optimizing Photosynthesis. Annual Review of Microbiology 73:407–433. DOI: 10.1146/annurev-micro-020518-115738.

  34. Sanfilippo JE., Nguyen AA., Garczarek L., Karty JA., Pokhrel S., Strnat JA., Partensky F., Schluchter WM., Kehoe DM. 2019. Interplay between differentially expressed enzymes contributes to light color acclimation in marine Synechococcus. Proceedings of the National Academy of Sciences 116:6457–6462. DOI: 10.1073/pnas.1810491116.

  35. Sieracki ME., Poulton NJ., Jaillon O., Wincker P., de Vargas C., Rubinat-Ripoll L., Stepanauskas R., Logares R., Massana R. 2019. Single cell genomics yields a wide diversity of small planktonic protists across major ocean ecosystems. Scientific Reports 9:6025. DOI: 10.1038/s41598-019-42487-1.

  36. Tragin M., Vaulot D. 2019. Novel diversity within marine Mamiellophyceae (Chlorophyta) unveiled by metabarcoding. Scientific Reports 9:5190. DOI: 10.1038/s41598-019-41680-6.

  37. Yamada Y., Guillemette R., Baudoux A., Patel N., Azam F. 2019. Viral attachment to biotic and abiotic surfaces in seawater. Applied and Environmental Microbiology. DOI: 10.1128/AEM.01687-19.

  38. Yau S., Lopes dos Santos A., Eikrem W., Gérikas Ribero C., Gourvil P., Balzano S., Escande M-L., Moreau H., Vaulot D. 2019. Mantoniella beaufortii and Mantoniella baffinensis sp. nov. (Mamiellales, Mamiellophyceae), two new green algal species from the high arctic. Journal of Phycology. DOI: 10.1111/jpy.12932.

  39. Zimmerman AE., Bachy C., Ma X., Roux S., Jang H Bin., Sullivan MB., Waldbauer JR., Worden AZ. 2019. Closely‐related viruses of the marine picoeukaryotic alga Ostreococcus lucimarinus exhibit different ecological strategies. Environmental Microbiology. DOI: 10.1111/1462-2920.14608.

  1. Flegontova O., Flegontov P., Malviya S., Poulain J., de Vargas C., Bowler C., Lukeš J., Horák A. 2018. Neobodonids are dominant kinetoplastids in the global ocean. Environmental Microbiology 20:878–889. DOI: 10.1111/1462-2920.14034.

  2. Morard R., Garet-Delmas M-J., Mahé F., Romac S., Poulain J., Kucera M., de Vargas C. 2018. Surface ocean metabarcoding confirms limited diversity in planktonic foraminifera but reveals unknown hyper-abundant lineages. Scientific Reports 8:2539. DOI: 10.1038/s41598-018-20833-z.

  3. Meng A., Marchet C., Corre E., Peterlongo P., Alberti A., Da Silva C., Wincker P., Pelletier E., Probert I., Decelle J., Le Crom S., Not F., Bittner L. 2018. A de novo approach to disentangle partner identity and function in holobiont systems. Microbiome 6:105. DOI: 10.1186/s40168-018-0481-9.

  4. Tragin M., Vaulot D. 2018. Green microalgae in marine coastal waters: The Ocean Sampling Day (OSD) dataset. Scientific Reports 8:14020. DOI: 10.1038/s41598-018-32338-w.

  5. Clerissi C., Brunet S., Vidal-Dupiol J., Adjeroud M., Lepage P., Guillou L., Escoubas J-M., Toulza E. 2018. Protists Within Corals: The Hidden Diversity. Frontiers in Microbiology 9:2043. DOI: 10.3389/fmicb.2018.02043.

  6. Demory D., Baudoux A-C., Monier A., Simon N., Six C., Ge P., Rigaut-Jalabert F., Marie D., Sciandra A., Bernard O., Rabouille S. 2018. Picoeukaryotes of the Micromonas genus: sentinels of a warming ocean. The ISME Journal. DOI: 10.1038/s41396-018-0248-0.

  7. López-Escardó D., Paps J., de Vargas C., Massana R., Ruiz-Trillo I., del Campo J. 2018. Metabarcoding analysis on European coastal samples reveals new molecular metazoan diversity. Scientific Reports 8:9106. DOI: 10.1038/s41598-018-27509-8.

  8. Ser-Giacomi E., Zinger L., Malviya S., De Vargas C., Karsenti E., Bowler C., De Monte S. 2018. Ubiquitous abundance distribution of non-dominant plankton across the global ocean. Nature Ecology & Evolution. DOI: 10.1038/s41559-018-0587-2.

  9. Piredda R., Claverie J., Decelle J., de Vargas C., Dunthorn M., Edvardsen B., Eikrem W., Forster D., Kooistra WHCF., Logares R., Massana R., Montresor M., Not F., Ogata H., Pawlowski J., Romac S., Sarno D., Stoeck T., Zingone A. 2018. Diatom diversity through HTS-metabarcoding in coastal European seas. Scientific Reports 8:18059. DOI: 10.1038/s41598-018-36345-9.

  10. Mercier C., Lossouarn J., Nesbø CL., Haverkamp THA., Baudoux AC., Jebbar M., Bienvenu N., Thiroux S., Dupont S., Geslin C. 2018. Two viruses, MCV1 and MCV2, which infect Marinitoga bacteria isolated from deep-sea hydrothermal vents: functional and genomic analysis. Environmental Microbiology 20:577–587. DOI: 10.1111/1462-2920.13967.

  11. Stern R., Kraberg A., Bresnan E., Kooistra WHCF., Lovejoy C., Montresor M., Morán XAG., Not F., Salas R., Siano R., Vaulot D., Amaral-Zettler L., Zingone A., Metfies K. 2018. Molecular analyses of protists in long-term observation programmes—current status and future perspectives. Journal of Plankton Research. DOI: 10.1093/plankt/fby035.

  12. Ward GM., Neuhauser S., Groben R., Ciaghi S., Berney C., Romac S., Bass D. 2018. Environmental Sequencing Fills the Gap Between Parasitic Haplosporidians and Free-living Giant Amoebae. Journal of Eukaryotic Microbiology:1–13. DOI: 10.1111/jeu.12501.

  13. Crenn K., Duffieux D., Jeanthon C. 2018. Bacterial Epibiotic Communities of Ubiquitous and Abundant Marine Diatoms Are Distinct in Short- and Long-Term Associations. Frontiers in Microbiology 9:1–12. DOI: 10.3389/fmicb.2018.02879.

  14. Pittera J., Jouhet J., Breton S., Garczarek L., Partensky F., Maréchal É., Nguyen NA., Doré H., Ratin M., Pitt FD., Scanlan DJ., Six C. 2018. Thermoacclimation and genome adaptation of the membrane lipidome in marine Synechococcus. Environmental Microbiology 20:612–631. DOI: 10.1111/1462-2920.13985.

  15. Gérikas Ribeiro C., Lopes dos Santos A., Marie D., Pereira Brandini F., Vaulot D. 2018. Small eukaryotic phytoplankton communities in tropical waters off Brazil are dominated by symbioses between Haptophyta and nitrogen-fixing cyanobacteria. The ISME Journal 12:1360–1374. DOI: 10.1038/s41396-018-0050-z.

  16. Simdyanov TG., Paskerova GG., Valigurová A., Diakin A., Kováčiková M., Schrével J., Guillou L., Dobrovolskij AA., Aleoshin V V. 2018. First Ultrastructural and Molecular Phylogenetic Evidence from the Blastogregarines, an Early Branching Lineage of Plesiomorphic Apicomplexa. Protist 169:697–726. DOI: 10.1016/j.protis.2018.04.006.

  17. Grébert T., Doré H., Partensky F., Farrant GK., Boss ES., Picheral M., Guidi L., Pesant S., Scanlan DJ., Wincker P., Acinas SG., Kehoe DM., Garczarek L. 2018. Light color acclimation is a key process in the global ocean distribution of Synechococcus cyanobacteria. Proceedings of the National Academy of Sciences:201717069. DOI: 10.1073/pnas.1717069115.

  18. Siano R., Chapelle A., Antoine V., Michel-Guillou E., Rigaut-Jalabert F., Guillou L., Hégaret H., Leynaert A., Curd A. 2018. Citizen participation in monitoring phytoplankton seawater discolorations. Marine Policy. DOI: 10.1016/j.marpol.2018.01.022.

  19. Jacquemot L., Bettarel Y., Monjol J., Corre E., Halary S., Desnues C., Bouvier T., Ferrier-Pagès C., Baudoux A-C. 2018. Therapeutic Potential of a New Jumbo Phage That Infects Vibrio coralliilyticus, a Widespread Coral Pathogen. Frontiers in Microbiology 9:1–16. DOI: 10.3389/fmicb.2018.02501.

  20. Villar E., Dani V., Bigeard E., Linhart T., Mendez-Sandin M., Bachy C., Six C., Lombard F., Sabourault C., Not F. 2018. Symbiont Chloroplasts Remain Active During Bleaching-Like Response Induced by Thermal Stress in Collozoum pelagicum (Collodaria, Retaria). Frontiers in Marine Science 5:1–11. DOI: 10.3389/fmars.2018.00387.

  21. Villar E., Vannier T., Vernette C., Lescot M., Cuenca M., Alexandre A., Bachelerie P., Rosnet T., Pelletier E., Sunagawa S., Hingamp P. 2018. The Ocean Gene Atlas: exploring the biogeography of plankton genes online. Nucleic Acids Research:1–7. DOI: 10.1093/nar/gky376.

  22. Perez-Sepulveda B., Pitt F., N’Guyen AN., Ratin M., Garczarek L., Millard A., Scanlan DJ. 2018. Relative stability of ploidy in a marine Synechococcus across various growth conditions. Environmental Microbiology Reports. DOI: 10.1111/1758-2229.12614.

  23. Seeleuthner Y., Mondy S., Lombard V., Carradec Q., Pelletier E., Wessner M., Leconte J., Mangot J-F., 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 MB., Iudicone D., Massana R., Aury J-M., Henrissat B., Karsenti E., Jaillon O., Sieracki M., de Vargas C., Wincker P. 2018. Single-cell genomics of multiple uncultured stramenopiles reveals underestimated functional diversity across oceans. Nature Communications 9:310. DOI: 10.1038/s41467-017-02235-3.

  24. Vincent FJ., Colin S., Romac S., Scalco E., Bittner L., Garcia Y., Lopes RM., Dolan JR., Zingone A., de Vargas C., Bowler C. 2018. The epibiotic life of the cosmopolitan diatom Fragilariopsis doliolus on heterotrophic ciliates in the open ocean. The ISME Journal. DOI: 10.1038/s41396-017-0029-1.

  25. Decelle J., Carradec Q., Pochon X., Henry N., Romac S., Dunthorn M., Kourlaiev A., Voolstra CR., Wincker P., de Vargas C. 2018. Worldwide occurrence and activity of the reef-building coral symbiont Symbiodinium in the open ocean. Current Biology:1–9. DOI: 10.1016/j.cub.2018.09.024.

  26. 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-A., Méheust R., Poulain J., Romac S., Richter DJ., Yoshikawa G., Dimier C., Kandels-Lewis S., Picheral M., Searson S., Jaillon O., Aury J-M., Karsenti E., Sullivan MB., Sunagawa S., Bork P., Not F., Hingamp P., Raes J., Guidi L., Ogata H., de Vargas C., Iudicone D., Bowler C., Wincker P. 2018. A global ocean atlas of eukaryotic genes. Nature Communications 9:373. DOI: 10.1038/s41467-017-02342-1.

  27. Bass D., Czech L., Williams BAP., Berney C., Dunthorn M., Mahé F., Torruella G., Stentiford GD., Williams TA. 2018. Clarifying the Relationships between Microsporidia and Cryptomycota. Journal of Eukaryotic Microbiology 65:773–782. DOI: 10.1111/jeu.12519.

  28. Bass D., Tikhonenkov DV., Foster R., Dyala P., Janouskovec J., Keeling PJ., Gardner M., Neuhauser S., Hartikainen H., Mylnikov AP, Berney, C. 2018. Rhizarian ‘ Novel Clade 10 ’ Revealed as Abundant and Diverse Planktonic and Terrestrial Flagellates , including Aquavolon n . gen . Journal of Eukaryotic Microbiology:1–15. DOI: 10.1111/jeu.12524.

  29. Tragin M., Zingone A., Vaulot D. 2018. Comparison of coastal phytoplankton composition estimated from the V4 and V9 regions of the 18S rRNA gene with a focus on photosynthetic groups and especially Chlorophyta. Environmental Microbiology 20:506–520. DOI: 10.1111/1462-2920.13952.

  30. Kuwata A., Yamada K., Ichinomiya M., Yoshikawa S., Tragin M., Vaulot D., Lopes dos Santos A. 2018. Bolidophyceae, a Sister Picoplanktonic Group of Diatoms – A Review. Frontiers in Marine Science 5:370. DOI: 10.3389/fmars.2018.00370.

  31. Zhong KX., Suttle CA., Baudoux A., Derelle E., Colombet J., Cho A., Caleta J., Six C., Jacquet S., Millard AD. 2018. A New Freshwater Cyanosiphovirus Harboring Integrase. Frontiers in Microbiology 9:1–15. DOI: 10.3389/fmicb.2018.02204.

  32. del Campo J., Kolisko M., Boscaro V., Santoferrara LF., Nenarokov S., Massana R., Guillou L., Simpson A., Berney C., de Vargas C., Brown MW., Keeling PJ., Wegener Parfrey L. 2018. EukRef: Phylogenetic curation of ribosomal RNA to enhance understanding of eukaryotic diversity and distribution. PLOS Biology 16:e2005849. DOI: 10.1371/journal.pbio.2005849.

  33. Partensky F., Mella-Flores D., Six C., Garczarek L., Czjzek M., Marie D., Kotabová E., Felcmanová K., Prášil O. 2018. Comparison of photosynthetic performances of marine picocyanobacteria with different configurations of the oxygen-evolving complex. Photosynthesis Research 138:57–71. DOI: 10.1007/s11120-018-0539-3.

  34. Paskerova GG., Miroliubova TS., Diakin A., Kováčiková M., Valigurová A., Guillou L., Aleoshin V V., Simdyanov TG. 2018. Fine structure and Molecular Phylogenetic Position of Two Marine Gregarines, Selenidium pygospionis sp. n. and S. pherusae sp. n., with Notes on the Phylogeny of Archigregarinida (Apicomplexa). Protist 169:826–852. DOI: 10.1016/j.protis.2018.06.004.

  35. Partensky F., Vaulot D. 2018. Alain Sournia, phycologist and philosopher (1940-2018). Cahiers de Biologie Marine 59:403–407. DOI: 10.21411/CBM.A.EA424D0A.

  36. Farhat S., Florent I., Noel B., Kayal E., Da Silva C., Bigeard E., Alberti A., Labadie K., Corre E., Aury J-M., Rombauts S., Wincker P., Guillou L., Porcel BM. 2018. Comparative Time-Scale Gene Expression Analysis Highlights the Infection Processes of Two Amoebophrya Strains. Frontiers in Microbiology 9:1–19. DOI: 10.3389/fmicb.2018.02251.

  37. Meng A., Corre E., Probert I., Gutierrez-Rodriguez A., Siano R., Annamale A., Alberti A., Da Silva C., Wincker P., Le Crom S., Not F., Bittner L. 2018. Analysis of the genomic basis of functional diversity in dinoflagellates using a transcriptome-based sequence similarity network. Molecular Ecology:0–2. DOI: 10.1111/mec.14579.

  38. Richter DJ., Fozouni P., Eisen MB., King N. 2018. Gene family innovation, conservation and loss on the animal stem lineage. eLife 7:1–43. DOI: 10.7554/eLife.34226.

  39. Partensky F., Six C., Ratin M., Garczarek L., Vaulot D., Probert I., Calteau A., Gourvil P., Marie D., Grébert T., Bouchier C., Le Panse S., Gachenot M., Rodríguez F., Garrido JL. 2018. A novel species of the marine cyanobacterium Acaryochloris with a unique pigment content and lifestyle. Scientific Reports 8:9142. DOI: 10.1038/s41598-018-27542-7.

  1. Ruiz E., Baudoux A., Nathalie S., Sandaa R., Thingstad TF. 2017. Micromonas vs Virus : new experimental insights challenge viral impact. Environmental Microbiology. DOI: 10.1111/462-2920.13733.

  2. Egas C., Henríquez-Castillo C., Delherbe N., Molina E., Dos Santos AL., Lavin P., De La Iglesia R., Vaulot D., Trefault N. 2017. Short timescale dynamics of phytoplankton in Fildes Bay, Antarctica. Antarctic Science 29:217–228. DOI: 10.1017/S0954102016000699.

  3. Balzano S., Percopo I., Siano R., Gourvil P., Chanoine M., Marie D., Vaulot D., Sarno D. 2017. Morphological and genetic diversity of Beaufort Sea diatoms with high contributions from the Chaetoceros neogracilis species complex. Journal of Phycology 53:161–187. DOI: 10.1111/jpy.12489.

  4. Alberti A., Poulain J., Engelen S., Labadie K., Romac S., Ferrera I., Albini G., Aury J-M., Belser C., Bertrand A., Cruaud C., Da Silva C., Dossat C., Gavory F., Gas S., Guy J., Haquelle M., Jacoby E., Jaillon O., Lemainque A., Pelletier E., Samson G., Wessner M., Bazire P., Beluche O., Bertrand L., Besnard-Gonnet M., Bordelais I., Boutard M., Dubois M., Dumont C., Ettedgui E., Fernandez P., Garcia E., Aiach NG., Guerin T., Hamon C., Brun E., Lebled S., Lenoble P., Louesse C., Mahieu E., Mairey B., Martins N., Megret C., Milani C., Muanga J., Orvain C., Payen E., Perroud P., Petit E., Robert D., Ronsin M., Vacherie B., Acinas SG., Royo-Llonch M., Cornejo-Castillo FM., Logares R., Fernández-Gómez B., Bowler C., Cochrane G., Amid C., Hoopen P Ten., De Vargas C., Grimsley N., Desgranges E., Kandels-Lewis S., Ogata H., Poulton N., Sieracki ME., Stepanauskas R., Sullivan MB., Brum JR., Duhaime MB., Poulos BT., Hurwitz BL., Acinas SG., Bork P., Boss E., Bowler C., De Vargas C., Follows M., Gorsky G., Grimsley N., Hingamp P., Iudicone D., Jaillon O., Kandels-Lewis S., Karp-Boss L., Karsenti E., Not F., Ogata H., Pesant S., Raes J., Sardet C., Sieracki ME., Speich S., Stemmann L., Sullivan MB., Sunagawa S., Wincker P., Pesant S., Karsenti E., Wincker P. 2017. Viral to metazoan marine plankton nucleotide sequences from the Tara Oceans expedition. Scientific Data 4:170093. DOI: 10.1038/sdata.2017.93.

  5. Colin S., Coelho LP., Sunagawa S., Bowler C., Karsenti E., Bork P., Pepperkok R., de Vargas C. 2017. Quantitative 3D-imaging for cell biology and ecology of environmental microbial eukaryotes. eLife 6:1–15. DOI: 10.7554/eLife.26066.

  6. Dorrell RG., Gile G., McCallum G., Méheust R., Bapteste EP., Klinger CM., Brillet-Guéguen L., Freeman KD., Richter DJ., Bowler C. 2017. Chimeric origins of ochrophytes and haptophytes revealed through an ancient plastid proteome. eLife 6:1–45. DOI: 10.7554/eLife.23717.

  7. Biard T., Bigeard E., Audic S., Poulain J., Gutierrez-Rodriguez A., Pesant S., Stemmann L., Not F. 2017. Biogeography and diversity of Collodaria (Radiolaria) in the global ocean. The ISME Journal 11:1331–1344. DOI: 10.1038/ismej.2017.12.

  8. Leles SG., Mitra A., Flynn KJ., Stoecker DK., Hansen PJ., Calbet A., McManus GB., Sanders RW., Caron DA., Not F., Hallegraeff GM., Pitta P., Raven JA., Johnson MD., Glibert PM., Våge S. 2017. Oceanic protists with different forms of acquired phototrophy display contrasting biogeographies and abundance. Proceedings of the Royal Society B: Biological Sciences 284:20170664. DOI: 10.1098/rspb.2017.0664.

  9. Mocaër P-Y., Baudoux A. 2017. Les virus au service de l ’écologie marine. Virologie 21:160–172. DOI: 10.1684/vir.2017.0704.

  10. Lopes dos Santos A., Pollina T., Gourvil P., Corre E., Marie D., Garrido JL., Rodríguez F., Noël M-H., Vaulot D., Eikrem W. 2017. Chloropicophyceae, a new class of picophytoplanktonic prasinophytes. Scientific Reports 7:14019. DOI: 10.1038/s41598-017-12412-5.

  11. Cuvelier ML., Guo J., Ortiz AC., van Baren MJ., Tariq MA., Partensky F., Worden AZ. 2017. Responses of the picoprasinophyte Micromonas commoda to light and ultraviolet stress. PLOS ONE 12:e0172135. DOI: 10.1371/journal.pone.0172135.

  12. Sauvadet AL., Lynn DH., Roussel EG., Le Panse S., Bigeard E., Schrével J., Guillou L. 2017. Redescription and phylogenetic analyses of Durchoniella spp. (Ciliophora, Astomatida) associated with the polychaete Cirriformia tentaculata (Montagu, 1808). European Journal of Protistology 61:265–277. DOI: 10.1016/j.ejop.2017.06.007.

  13. Simdyanov TG., Guillou L., Diakin AY., Mikhailov K V., Schrével J., Aleoshin V V. 2017. A new view on the morphology and phylogeny of eugregarines suggested by the evidence from the gregarine Ancora sagittata (Leuckart, 1860) Labbé, 1899 (Apicomplexa: Eugregarinida). PeerJ 5:e3354. DOI: 10.7717/peerj.3354.

  14. Demory D., Arsenieff L., Simon N., Six C., Rigaut-jalabert F., Marie D., Ge P., Bigeard E., Jacquet S., Sciandra A., Bernard O., Rabouille S., Baudoux A. 2017. Temperature is a key factor in Micromonas – virus interactions. The ISME Journal:1–12. DOI: 10.1038/ismej.2016.160.

  15. Simion P., Philippe H., Baurain D., Jager M., Richter DJ., Di Franco A., Roure B., Satoh N., Quéinnec É., Ereskovsky A., Lapébie P., Corre E., Delsuc F., King N., Wörheide G., Manuel M. 2017. A Large and Consistent Phylogenomic Dataset Supports Sponges as the Sister Group to All Other Animals. Current Biology:1–10. DOI: 10.1016/j.cub.2017.02.031.

  16. Botebol H., Lelandais G., Six C., Lesuisse E., Meng A., Bittner L., Lecrom S., Sutak R., Lozano J-C., Schatt P., Vergé V., Blain S., Bouget F-Y. 2017. Acclimation of a low iron adapted Ostreococcus strain to iron limitation through cell biomass lowering. Scientific Reports 7:327. DOI: 10.1038/s41598-017-00216-6.

  17. Mahmoud RM., Sanfilippo JE., Nguyen AA., Strnat JA., Partensky F., Garczarek L., Abo El Kassem N., Kehoe DM., Schluchter WM. 2017. Adaptation to Blue Light in Marine Synechococcus Requires MpeU, an Enzyme with Similarity to Phycoerythrobilin Lyase Isomerases. Frontiers in Microbiology 8:243. DOI: 10.3389/fmicb.2017.00243.

  18. Hubas C., Boeuf D., Jesus B., Thiney N., Bozec Y., Jeanthon C. 2017. A nanoscale study of carbon and nitrogen fluxes in mats of purple sulfur bacteria: implications for carbon cycling at the surface of coastal sediments. Frontiers in Microbiology 8:1995. DOI: 10.3389/fmicb.2017.01995.

  19. Chust G., Vogt M., Benedetti F., Nakov T., Villéger S., Aubert A., Vallina SM., Righetti D., Not F., Biard T., Bittner L., Benoiston A-S., Guidi L., Villarino E., Gaborit C., Cornils A., Buttay L., Irisson J-O., Chiarello M., Vallim AL., Blanco-Bercial L., Basconi L., Ayata S-D. 2017. Mare Incognitum: A Glimpse into Future Plankton Diversity and Ecology Research. Frontiers in Marine Science 4. DOI: 10.3389/fmars.2017.00068.

  20. Marie D., Le Gall F., Edern R., Gourvil P., Vaulot D. 2017. Improvement of phytoplankton culture isolation using single cell sorting by flow cytometry. Journal of Phycology 53:271–282. DOI: 10.1111/jpy.12495.

  21. 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). Limnology and Oceanography. DOI: 10.1002/lno.10491.

  22. Alves-de-Souza C., Benevides TS., Santos JBO., Von Dassow P., Guillou L., Menezes M. 2017. Does environmental heterogeneity explain temporal β diversity of small eukaryotic phytoplankton? Example from a tropical eutrophic coastal lagoon. Journal of Plankton Research:1–17. DOI: 10.1093/plankt/fbx026.

  23. Mahé F., de Vargas C., Bass D., Czech L., Stamatakis A., Lara E., Singer D., Mayor J., Bunge J., Sernaker S., Siemensmeyer T., Trautmann I., Romac S., Berney C., Kozlov A., Mitchell EAD., Seppey CVW., Egge E., Lentendu G., Wirth R., Trueba G., Dunthorn M. 2017. Parasites dominate hyperdiverse soil protist communities in Neotropical rainforests. Nature Ecology & Evolution 1:0091. DOI: 10.1038/s41559-017-0091.

  24. Simon N., Foulon E., Grulois D., Six C., Desdevises Y., Latimier M., Le Gall F., Tragin M., Houdan A., Derelle E., Jouenne F., Marie D., Le Panse S., Vaulot D., Marin B. 2017. Revision of the Genus Micromonas Manton et Parke (Chlorophyta, Mamiellophyceae), of the Type Species M. pusilla (Butcher) Manton & Parke and of the Species M. commoda van Baren, Bachy and Worden and Description of Two New Species. Protist 168:612–635. DOI: 10.1016/j.protis.2017.09.002.

  25. Selosse M-A., Charpin M., Not F. 2017. Mixotrophy everywhere on land and in water: the grand écart hypothesis. Ecology Letters 20:246–263. DOI: 10.1111/ele.12714.

  26. Mangot J., Logares R., Sánchez P., Latorre F., Seeleuthner Y., Mondy S., Sieracki ME., Jaillon O., Wincker P., Vargas C de., Massana R. 2017. Accessing the genomic information of unculturable oceanic picoeukaryotes by combining multiple single cells. Scientific Reports 7:41498. DOI: 10.1038/srep41498.

  27. Xia X., Partensky F., Garczarek L., Suzuki K., Guo C., Yan Cheung S., Liu H. 2017. Phylogeography and pigment type diversity of Synechococcus cyanobacteria in surface waters of the northwestern pacific ocean. Environmental Microbiology 19:142–158. DOI: 10.1111/1462-2920.13541.

  28. Ereskovsky A V., Richter DJ., Lavrov D V., Schippers KJ., Nichols SA. 2017. Transcriptome sequencing and delimitation of sympatric Oscarella species (O. carmela and O. pearsei sp. nov) from California, USA. PLOS ONE 12:1–25. DOI: 10.1371/journal.pone.0183002.

  29. Lopes dos Santos A., Gourvil P., Tragin M., Noël M-H., Decelle J., Romac S., Vaulot D. 2017. Diversity and oceanic distribution of prasinophytes clade VII, the dominant group of green algae in oceanic waters. The ISME Journal 11:512–528. DOI: 10.1038/ismej.2016.120.

  30. KleinJan H., Jeanthon C., Boyen C., Dittami SM. 2017. Exploring the cultivable Ectocarpus microbiome. Frontiers in Microbiology 8:2456. DOI: 10.3389/fmicb.2017.02456.

  31. Berney C., Ciuprina A., Bender S., Brodie J., Edgcomb V., Kim E., Rajan J., Parfrey LW., Adl S., Audic S., Bass D., Caron DA., Cochrane G., Czech L., Dunthorn M., Geisen S., Glöckner FO., Mahé F., Quast C., Kaye JZ., Simpson AGB., Stamatakis A., del Campo J., Yilmaz P., de Vargas C. 2017. UniEuk : Time to Speak a Common Language in Protistology! Journal of Eukaryotic Microbiology 64:407–411. DOI: 10.1111/jeu.12414.

  1. Scholz B., Guillou L., Marano A V., Neuhauser S., Sullivan BK., Karsten U., Küpper FC., Gleason FH. 2016. Zoosporic parasites infecting marine diatoms – A black box that needs to be opened. Fungal Ecology 19:59–76. DOI: 10.1016/j.funeco.2015.09.002.

  2. Richter DJ., Nitsche F. 2016. Choanoflagellatea. In: Archibald JM, Simpson AGB, Slamovits CH, Margulis L, Melkonian M, Chapman DJ, Corliss JO eds. Handbook of the Protists. Cham: Springer International Publishing, 1–19. DOI: 10.1007/978-3-319-32669-6_5-1.

  3. Weiner AKM., Morard R., Weinkauf MF., Darling KF., André A., Quillévéré F., Ujiie Y., Douady CJ., de Vargas C., Kucera M. 2016. Methodology for single-cell genetic analysis of planktonic foraminifera for studies of protist diversity and evolution. Fontiers in Marine Science 3:1–15. DOI: 10.3389/fmars.2016.00255.

  4. Flegontova O., Flegontov P., Malviya S., Audic S., Wincker P., de Vargas C., Bowler C., Lukeš J., Horák A. 2016. Extreme Diversity of Diplonemid Eukaryotes in the Ocean. Current Biology 26:3060–3065. DOI: 10.1016/j.cub.2016.09.031.

  5. Zheng Q., Liu Y., Jeanthon C., Zhang R., Lin W., Yao J., Jiao N. 2016. The geographic impact on genomic divergence as revealed by comparison of nine Citromicrobial genomes. Applied and Environmental Microbiology 82:AEM.02495-16. DOI: 10.1128/AEM.02495-16.

  6. Ward GM., Bennett M., Bateman K., Stentiford GD., Kerr R., Feist SW., Williams ST., Berney C., Bass D. 2016. A new phylogeny and environmental DNA insight into paramyxids: an increasingly important but enigmatic clade of protistan parasites of marine invertebrates. International Journal for Parasitology 46:605–619. DOI: 10.1016/j.ijpara.2016.04.010.

  7. Nitsche F., Thomsen HA., Richter DJ. 2016. Bridging the gap between morphological species and molecular barcodes − exemplified by loricate choanoflagellates. European Journal of Protistology. DOI: 10.1016/j.ejop.2016.10.006.

  8. Wichelen JVAN., Hondt SD., Claeys M., Vyverman W., Berney C., Bass D., Vanormelingen P. 2016. A Hotspot of Amoebae Diversity : 8 New Naked Amoebae Associated with. Acta Protozoologica 55:61–87. DOI: 10.4467/16890027AP.16.007.4942.

  9. Thomsen HA., Nitsche F., Richter DJ. 2016. Seasonal Occurrence of Loricate Choanoflagellates in Danish Inner Waters. Protist 167:622–638. DOI: 10.1016/j.protis.2016.09.002.

  10. Klouch KZ., Schmidt S., Andrieux-Loyer F., Le Gac M., Hervio-Heath D., Qui-Minet ZN., Quéré J., Bigeard E., Guillou L., Siano R. 2016. Historical records from dated sediment cores reveal the multidecadal dynamic of the toxic dinoflagellate Alexandrium minutum in the Bay of Brest (France). FEMS Microbiology Ecology 92:fiw101. DOI: 10.1093/femsec/fiw101.

  11. Smirnov A., Nassonova E., Geisen S., Bonkowski M., Kudryavtsev A., Berney C., Glotova A., Bondarenko N., Dyková I., Mrva M., Fahrni J., Pawlowski J. 2016. Phylogeny and Systematics of Leptomyxid Amoebae (Amoebozoa, Tubulinea, Leptomyxida). Protist. DOI: 10.1016/j.protis.2016.10.006.

  12. Blanquart F., Valero M., Alves-de-Souza C., Dia A., Lepelletier F., Bigeard E., Jeanthon C., Destombe C., Guillou L. 2016. Evidence for parasite-mediated selection during short-lasting toxic algal blooms. Proceedings of the Royal Society B: Biological Sciences 283:20161870. DOI: 10.1098/rspb.2016.1870.

  13. Schwelm A., Berney C., Dixelius C., Bassc D., Neuhauser S. 2016. The Large Subunit rDNA Sequence of Plasmodiophora brassicae Does not Contain Intra-species Polymorphism. Protist 167:544–554. DOI: 10.1016/j.protis.2016.08.008.

  14. Marron AO., Ratcliffe S., Wheeler GL., Goldstein RE., King N., Not F., de Vargas C., Richter DJ. 2016. The Evolution of Silicon Transport in Eukaryotes. Molecular Biology and Evolution 33:3226–3248. DOI: 10.1093/molbev/msw209.

  15. Boeuf D., Lami R., Cunnington E., Jeanthon C. 2016. Summer Abundance and Distribution of Proteorhodopsin Genes in the Western Arctic Ocean. Frontiers in Microbiology 7:1–12. DOI: 10.3389/fmicb.2016.01584.

  16. Paulsen ML., Doré H., Garczarek L., Seuthe L., Müller O., Sandaa R-A., Bratbak G., Larsen A. 2016. Synechococcus in the Atlantic Gateway to the Arctic Ocean. Frontiers in Marine Science. DOI: 10.3389/fmars.2016.00191.

  17. Arroyo AS., López-Escardó D., de Vargas C., Ruiz-Trillo I. 2016. Hidden diversity of Acoelomorpha revealed through metabarcoding. Biology Letters 12:20160674. DOI: 10.1098/rsbl.2016.0674.

  18. Gimmler A., Korn R., de Vargas C., Audic S., Stoeck T. 2016. The Tara Oceans voyage reveals global diversity and distribution patterns of marine planktonic ciliates. Scientific Reports 6:33555. DOI: 10.1038/srep33555.

  19. Hummel H., Van Avesaath P., Wijnhoven S., Kleine-Schaars L., Degraer S., Kerckhof F., Bojanic N., Skejic S., Vidjak O., Rousou M., Orav-Kotta H., Kotta J., Jourde J., Pedrotti ML., Leclerc J-C., Simon N., Rigaut-Jalabert F., Bachelet G., Lavesque N., Arvanitidis C., Pavloudi C., Faulwetter S., Crowe T., Coughlan J., Benedetti-Cecchi L., Dal Bello M., Magni P., Como S., Coppa S., Ikauniece A., Ruginis T., Jankowska E., Weslawski JM., Warzocha J., Gromisz S., Witalis B., Silva T., Ribeiro P., Fernandes De Matos VK., Sousa-Pinto I., Veiga P., Troncoso J., Guinda X., Juanes De La Pena JA., Puente A., Espinosa F., Pérez-Ruzafa A., Frost M., Mcneill CL., Peleg O., Rilov G. 2016. Geographic patterns of biodiversity in European coastal marine benthos. Journal of the Marine Biological Association of the United Kingdom. DOI: 10.1017/S0025315416001119.

  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. Molecular ecology 25:1294–307. DOI: 10.1111/mec.13566.

  21. Le Gac M., Metegnier G., Chomérat N., Pascale M., Quéré J., Bouchez O., Siano R., Destombe C., Guillou L., Chapelle A. 2016. Evolutionary processes and cellular functions underlying divergence in Alexandrium minutum. Molecular Ecology. DOI: 10.1111/mec.13815.

  22. Crenn K., Serpin D., Lepleux C., Overmann J., Jeanthon C. 2016. Silicimonas algicola gen. nov., sp. nov., a novel member of the Roseobacter clade isolated from the cell surface of the marine diatom Thalassiosira delicatula. International Journal of Systematic and Evolutionary Microbiology. DOI: 10.1099/ijsem.0.001394.

  23. Pittera J., Partensky F., Six C. 2016. Adaptive thermostability of light-harvesting complexes in marine picocyanobacteria. The ISME Journal.DOI: 10.1038/ismej.2016.102.

  24. 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 167:339–368. DOI: 10.1016/j.protis.2016.06.001.

  25. Morard R., Escarguel G., Weiner AKM., André A., Douady CJ., Wade CM., Darling KF., Ujiié Y., Seears HA., Quillévéré F., de Garidel-Thoron T., de Vargas C., Kucera M. 2016. Nomenclature for the Nameless: A Proposal for an Integrative Molecular Taxonomy of Cryptic Diversity Exemplified by Planktonic Foraminifera. Systematic Biology. DOI: 10.1093/sysbio/syw031.

  26. Lehours A-C., Le Jeune A-H., Aguer J-P., Céréghino R., Corbara B., Kéraval B., Leroy C., Perrière F., Jeanthon C., Carrias J-F. 2016. Unexpectedly high bacteriochlorophyll α concentrations in Neotropical tank bromeliads. Environmental Microbiology Reports. DOI: 10.1111/1758-2229.12426.

  27. Giner CR., Forn I., Romac S., Logares R., de Vargas C., Massana R. 2016. Environmental sequencing provides reasonable estimates of the relative abundance of specific picoeukaryotes. Applied and Environmental Microbiology. DOI: 10.1128/AEM.00560-16.

  28. Klouch ZK., Caradec F., Plus M., Hernández-Fariñas T., Pineau-Guillou L., Chapelle A., Schmitt S., Quéré J., Guillou L., Siano R. 2016. Heterogeneous distribution in sediments and dispersal in waters of Alexandrium minutum in a semi-enclosed coastal ecosystem. Harmful Algae 60:81–91. DOI: 10.1016/j.hal.2016.11.001.

  29. Biard T., Stemmann L., Picheral M., Mayot N., Vandromme P., Hauss H., Gorsky G., Guidi L., Kiko R., Not F. 2016. In situ imaging reveals the biomass of giant protists in the global ocean. Nature 532:504–507. DOI: 10.1038/nature17652.

  30. Gérikas Ribeiro C., Marie D., Lopes dos Santos A., Pereira Brandini F., Vaulot D. 2016. Estimating microbial populations by flow cytometry: Comparison between instruments. Limnology and Oceanography: Methods 14:750–758. DOI: 10.1002/lom3.10135.

  31. Cornejo-Castillo FM., Cabello AM., Salazar G., Sa P., Lima-mendez G., Hingamp P., Alberti A., Sunagawa S., Bork P., Vargas C De., Raes J., Bowler C., Wincker P., Zehr JP. 2016. Cyanobacterial symbionts diverged in the late Cretaceous towards lineage-specific nitrogen fixation factories in single-celled phytoplankton. Nature Communications. DOI: 10.1038/ncomms11071.

  32. Farrant GK., Doré H., Cornejo-Castillo FM., Partensky F., Ratin M., Ostrowski M., Pitt FD., Wincker P., Scanlan DJ., Iudicone D., Acinas SG., Garczarek L. 2016. Delineating ecologically significant taxonomic units from global patterns of marine picocyanobacteria. Proceedings of the National Academy of Sciences 113:E3365–E3374. DOI: 10.1073/pnas.1524865113.

  33. Amiraux R., Jeanthon C., Vaultier F., Rontani J-F. 2016. Paradoxical effects of temperature and solar irradiance on the photodegradation state of killed phytoplankton. Journal of Phycology. DOI: 10.1111/jpy.12410.

  34. Malviya S., Scalco E., Audic S., Vincent F., Veluchamy A., Bittner L., Poulain J., Wincker P., Iudicone D., de Vargas C., Zingone A., Bowler C. 2016. Insights into global diatom distribution and diversity in the world’s ocean. Proceedings of the National Academy of Sciences 348:1–10. DOI: 10.1073/pnas.1509523113.

  35. Durak GM., Taylor AR., Probert I., de Vargas C., Audic S., Schroeder DC., Brownlee C., Wheeler GL. 2016. A role for diatom-like silicon transporters in calcifying coccolithophores. Nature Communications 7:10543. DOI: 10.1038/ncomms10543.

  36. Guidi L., Chaffron S., Bittner L., Eveillard D., Larhlimi A., Roux S., Darzi Y., Audic S., et al. 2016. Plankton networks driving carbon export in the oligotrophic ocean. Nature 532, 465–470. https://doi.org/10.1038/nature16942.

  37. Campo J del., Guillou L., Hehenberger E., Logares R., López-García P., Massana R. 2016. Ecological and evolutionary significance of novel protist lineages. European Journal of Protistology. DOI: http://dx.doi.org/10.1016/j.ejop.2016.02.002.

  38. Mitra A., Flynn KJ., Tillmann U., Raven JA., Caron D., Stoecker DK., Not F., Hansen PJ., Hallegraeff G., Sanders R., Wilken S., McManus G., Johnson M., Pitta P., Våge S., Berge T., Calbet A., Thingstad F., Jeong HJ., Burkholder J., Glibert PM., Granéli E., Lundgren V. 2016. Defining Planktonic Protist Functional Groups on Mechanisms for Energy and Nutrient Acquisition; Incorporation of Diverse Mixotrophic Strategies. Protist 167:106–120. DOI: 10.1016/j.protis.2016.01.003.

  39. Müller DG., Maier I., Marie D., Westermeier R. 2016. Nuclear DNA level and life cycle of kelps: Evidence for sex-specific polyteny in Macrocystis (Laminariales, Phaeophyceae). Journal of Phycology 52:157–160. DOI: 10.1111/jpy.12380.

  40. Gutiérrez-Rodríguez A., Selph KE., Landry MR. 2016. Phytoplankton growth and microzooplankton grazing dynamics across vertical environmental gradients determined by transplant in situ dilution experiments. Journal of Plankton Research 38:271–289. DOI: 10.1093/plankt/fbv074.

  41. Taylor AG., Landry MR., Freibott A., Selph KE., Gutiérrez-Rodríguez A. 2016. Patterns of microbial community biomass, composition and HPLC diagnostic pigments in the Costa Rica upwelling dome. Journal of Plankton Research 38:183–198. DOI: 10.1093/plankt/fbv086.

  42. Landry MR., Selph KE., Décima M., Gutiérrez-Rodríguez A., Stukel MR., Taylor AG., Pasulka AL. 2016. Phytoplankton production and grazing balances in the Costa Rica Dome. Journal of Plankton Research 38:366–379. DOI: 10.1093/plankt/fbv089.

  43. Selph KE., Landry MR., Taylor AG., Gutiérrez-Rodríguez A., Stukel MR., Wokuluk J., Pasulka A. 2016. Phytoplankton production and taxon-specific growth rates in the Costa Rica Dome. Journal of Plankton Research 38:199–215. DOI: 10.1093/plankt/fbv063.

  44. Le Bescot N., Mahé F., Audic S., Dimier C., Garet M-J., Poulain J., Wincker P., de Vargas C., Siano R. 2016. Global patterns of pelagic dinoflagellate diversity across protist size classes unveiled by metabarcoding. Environmental Microbiology 18:609–626. DOI: 10.1111/1462-2920.13039.

  45. Forster D., Dunthorn M., Mahé F., Dolan JR., Audic S., Bass D., Bittner L., Boutte C., Christen R., Claverie J-M., Decelle J., Edvardsen B., Egge E., Eikrem W., Gobet A., Kooistra WHCF., Logares R., Massana R., Montresor M., Not F., Ogata H., Pawlowski J., Pernice MC., Romac S., Shalchian-Tabrizi K., Simon N., Richards TA., Santini S., Sarno D., Siano R., Vaulot D., Wincker P., Zingone A., de Vargas C., Stoeck T. 2016. Benthic protists: the under-charted majority. FEMS Microbiology Ecology 92:fiw120. DOI: 10.1093/femsec/fiw120.

  46. Cabello AM., Cornejo-Castillo FM., Raho N., Blasco D., Vidal M., Audic S., de Vargas C., Latasa M., Acinas SG., Massana R. 2016. Global distribution and vertical patterns of a prymnesiophyte–cyanobacteria obligate symbiosis. The ISME Journal 10:693–706. DOI: 10.1038/ismej.2015.147.

  47. Vannier T., Leconte J., Seeleuthner Y., Mondy S., Pelletier E., Aury J-M., de Vargas C., Sieracki M., Iudicone D., Vaulot D., Wincker P., Jaillon O. 2016. Survey of the green picoalga Bathycoccus genomes in the global ocean. Scientific Reports 6:37900. DOI: 10.1038/srep37900.

  48. Edvardsen B., Egge ES., Vaulot D. 2016. Diversity and distribution of haptophytes revealed by environmental sequencing and metabarcoding – a review. Perspectives in Phycology 3:77–91. DOI: 10.1127/pip/2016/0052.

  49. Tragin M., Lopes dos Santos A., Christen R., Vaulot D. 2016. Diversity and ecology of green microalgae in marine systems: an overview based on 18S rRNA gene sequences. Perspectives in Phycology 3:141–154. DOI: 10.1127/pip/2016/0059.

  50. Jephcott TG., Alves-de-Souza C., Gleason FH., van Ogtrop FF., Sime-Ngando T., Karpov S a., Guillou L. 2016. Ecological impacts of parasitic chytrids, syndiniales and perkinsids on populations of marine photosynthetic dinoflagellates. Fungal Ecology 19:47–58. DOI: 10.1016/j.funeco.2015.03.007.

  51. Gérikas Ribeiro C., Lopes dos Santos A., Marie D., Helena Pellizari V., Pereira Brandini F., Vaulot D. 2016. Pico and nanoplankton abundance and carbon stocks along the Brazilian Bight. PeerJ 4:e2587. DOI: 10.7717/peerj.2587.

  52. Percopo I., Ruggiero MV., Balzano S., Gourvil P., Lundholm N., Siano R., Tammilehto A., Vaulot D., Sarno D. 2016. Pseudo-nitzschia arctica sp. nov., a new cold-water cryptic Pseudo-nitzschia species within the P. pseudodelicatissima complex. Journal of Phycology 52:184–199. DOI: 10.1111/jpy.12395.

  53. Ichinomiya M., dos Santos AL., Gourvil P., Yoshikawa S., Kamiya M., Ohki K., Audic S., de Vargas C., Noël M-H., Vaulot D., Kuwata A. 2016. Diversity and oceanic distribution of the Parmales (Bolidophyceae), a picoplanktonic group closely related to diatoms. The ISME Journal 10:2419–2434. DOI: 10.1038/ismej.2016.38.

  54. Lopes dos Santos A., Gourvil P., Rodriguez-Hernandez F., Garrido JL., Vaulot D. 2016. Photosynthetic pigments of oceanic Chlorophyta belonging to prasinophytes clade VII. Journal of Phycology 52:148–155. DOI: 10.1111/jpy.12376.

  1. Decelle J., Colin S., Foster RA. 2015. Photosymbiosis in Marine Planktonic Protists. In: Marine protists: diversity and dynamics. Springer Japan, 465–500.

  2. Mahé​ F., Rognes​ T., Quince C., de Vargas C., Dunthorn M. 2015. Swarm v2: highly-scalable and high-resolution amplicon clustering. PeerJ 3:e1420. DOI: 10.7717/peerj.1420.

  3. Decelle J., Not F. 2015. Acantharia. In: eLS. 1–10. DOI: 10.1002/9780470015902.a0002102.pub2.

  4. Lescot M., Hingamp P., Kojima KK., Villar E., Romac S., Veluchamy A., Boccara M., Jaillon O., Iudicone D., Bowler C., Wincker P., Claverie J-M., Ogata H. 2015. Reverse transcriptase genes are highly abundant and transcriptionally active in marine plankton assemblages. The ISME Journal:1–13. DOI: 10.1038/ismej.2015.192.

  5. Richards TA., Leonard G., Mahe F., del Campo J., Romac S., Jones MDM., Maguire F., Dunthorn M., De Vargas C., Massana R., Chambouvet A. 2015. Molecular diversity and distribution of marine fungi across 130 European environmental samples. Proceedings of the Royal Society B: Biological Sciences 282:20152243–20152243. DOI: 10.1098/rspb.2015.2243.

  6. 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, 179–222. DOI: 10.1007/978-4-431-55130-0.

  7. 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. Carbohydrate Polymers 124:347–356. DOI: 10.1016/j.carbpol.2015.02.038.

  8. Lossouarn J., Nesbø CL., Mercier C., Zhaxybayeva O., Johnson MS., Charchuck R., Farasin J., Bienvenu N., Baudoux AC., Michoud G., Jebbar M., Geslin C. 2015. “Ménage à trois”: a selfish genetic element uses a virus to propagate within\n Thermotogales. Environmental Microbiology 17:3278–3288. DOI: 10.1111/1462-2920.12783.

  9. Botebol H., Lesuisse E., Sutak R., Six C., Lozano J-C., Schatt P., Verge V., Kirilovsky A., Morrissey J., Leger T., Camadro J-M., Gueneugues A., Bowler C., Blain S., Bouget F-Y. 2015. Central role for ferritin in the day/night regulation of iron homeostasis in marine phytoplankton. Proceedings of the National Academy of Sciences:1–6. DOI: 10.1073/pnas.1506074112.

  10. Mordret S., Romac S., Henry N., Colin S., Carmichael M., Berney C., Audic S., Richter D., Pochon X., de Vargas C., Decelle J. 2015. The symbiotic life of Symbiodinium in the open ocean within a new species of calcifying ciliate (Tiarina sp.). The ISME Journal. DOI: 10.1038/ismej.2015.211.

  11. Clerissi C., Desdevises Y., Romac S., Audic S., de Vargas C., Acinas SG., Casotti R., Poulain J., Wincker P., Hingamp P., Ogata H., Grimsley N. 2015. Deep sequencing of amplified P rasinovirus and host green algal genes from an Indian Ocean transect reveals interacting trophic dependencies and new genotypes. Environmental Microbiology Reports 7:979–989. DOI: 10.1111/1758-2229.12345.

  12. Lejzerowicz F., Esling P., Pillet L., Wilding TA., Black KD., Pawlowski J. 2015. High-throughput sequencing and morphology perform equally well for benthic monitoring of marine ecosystems. Scientific Reports 5:13932. DOI: 10.1038/srep13932.

  13. Clerissi C., Desdevises Y., Romac S., Audic S., de Vargas C., Acinas SG., Casotti R., Poulain J., Wincker P., Hingamp P., Ogata H., Grimsley N. 2015. Deep sequencing of amplified Prasinovirus and host green algal genes from an Indian Ocean transect reveals interacting trophic dependencies and new genotypes. Environmental Microbiology Reports. DOI: 10.1111/1758-2229.12345.

  14. Farrant GK., Hoebeke M., Partensky F., Andres G., Corre E., Garczarek L. 2015. WiseScaffolder: an algorithm for the semi-automatic scaffolding of Next Generation Sequencing data. BMC Bioinformatics 16:281. DOI: 10.1186/s12859-015-0705-y.

  15. Boeuf D., Audic S., Brillet-Guéguen L., Caron C., Jeanthon C. 2015. MicRhoDE: a curated database for the analysis of microbial rhodopsin diversity and evolution. Database 2015:bav080. DOI: 10.1093/database/bav080.

  16. Lehours A-C., Jeanthon C. 2015. The hydrological context determines the beta-diversity of aerobic anoxygenic phototrophic bacteria in European Arctic seas but does not favor endemism. Frontiers in Microbiology 6:1–9. DOI: 10.3389/fmicb.2015.00638.

  17. Lavaud J., Six C., Campbell DA. 2015. Photosystem II repair in marine diatoms with contrasting photophysiologies. Photosynthesis Research. DOI: 10.1007/s11120-015-0172-3.

  18. Forster D., Bittner L., Karkar S., Dunthorn M., Romac S., Audic S., Lopez P., Stoeck T., Bapteste E. 2015. Testing ecological theories with sequence similarity networks: marine ciliates exhibit similar geographic dispersal patterns as multicellular organisms. BMC Biology 13:16. DOI: 10.1186/s12915-015-0125-5.

  19. Baudoux A-C., Lebredonchel H., Dehmer H., Latimier M., Edern R., Rigaut-Jalabert F., Ge P., Guillou L., Foulon E., Bozec Y., Cariou T., Desdevises Y., Derelle E., Grimsley N., Moreau H., Simon N. 2015. Interplay between the genetic clades of Micromonas and their viruses in the Western English Channel. Environmental Microbiology Reports. DOI: 10.1111/1758-2229.12309.

  20. Kopf A., Bicak M., Kottmann R., Schnetzer J., Kostadinov I., Lehmann K., Fernandez-Guerra A., Jeanthon C., Rahav E., Ullrich M. et al. 2015. The ocean sampling day consortium. GigaScience 4:27. DOI: 10.1186/s13742-015-0066-5.

  21. Stüken A., Riobó P., Franco J., Jakobsen KS., Guillou L., Figueroa RI. 2015. Paralytic shellfish toxin content is related to genomic sxtA4 copy number in Alexandrium minutum strains. Frontiers in Microbiology 6:1–10. DOI: 10.3389/fmicb.2015.00404.

  22. Gleason FH., Jephcott TG., Küpper FC., Gerphagnon M., Sime-Ngando T., Karpov S a., Guillou L., van Ogtrop FF. 2015. Potential roles for recently discovered chytrid parasites in the dynamics of harmful algal blooms. Fungal Biology Reviews 29:20–33. DOI: 10.1016/j.fbr.2015.03.002.

  23. Massana R., Gobet A., Audic S., Bass D., Bittner L., Boutte C., Chambouvet A., Christen R., Claverie J-M., Decelle J., Dolan JR., Dunthorn M., Edvardsen B., Forn I., Forster D., Guillou L., Jaillon O., Kooistra WHCF., Logares R., Mahé F., Not F., Ogata H., Pawlowski J., Pernice MC., Probert I., Romac S., Richards T., Santini S., Shalchian-Tabrizi K., Siano R., Simon N., Stoeck T., Vaulot D., Zingone A., de Vargas C. 2015. Marine protist diversity in European coastal waters and sediments as revealed by high-throughput sequencing. Environmental Microbiology 17:4035–4049.

  24. Alves-de-Souza C., Pecqueur D., Le Floc’h E., Mas S., Roques C., Mostajir B., Vidussi F., Velo-Suárez L., Sourisseau M., Fouilland E., Guillou L. 2015. Significance of Plankton Community Structure and Nutrient Availability for the Control of Dinoflagellate Blooms by Parasites: A Modeling Approach. PLOS ONE 10:e0127623. DOI: 10.1371/journal.pone.0127623.

  25. 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 166:374–388. DOI: 10.1016/j.protis.2015.05.002.

  26. 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 166:363–373. DOI: 10.1016/j.protis.2015.05.004.

  27. Pesant S., Not F., Picheral M., Kandels-Lewis S., Le Bescot N., Gorsky G., Iudicone D., Karsenti E., Speich S., Troublé R., Dimier C., Searson S., Acinas SG., Bork P., Boss E., Bowler C., De Vargas C., Follows M., Grimsley N., Hingamp P., Jaillon O., Karp-Boss L., Krzic U., Ogata H., Raes J., Reynaud EG., Sardet C., Sieracki M., Stemmann L., Sullivan MB., Sunagawa S., Velayoudon D., Weissenbach J., Wincker P. 2015. Open science resources for the discovery and analysis of Tara Oceans data. Scientific Data 2:150023. DOI: 10.1038/sdata.2015.23.

  28. Morard R., Darling KF., Mahé F., Audic S., Ujiié Y., Weiner AKM., André A., Seears HA., Wade CM., Quillévéré F., Douady CJ., Escarguel G., de Garidel-Thoron T., Siccha M., Kucera M., de Vargas C. 2015. PFR 2 : a curated database of planktonic foraminifera 18S ribosomal DNA as a resource for studies of plankton ecology, biogeography and evolution. Molecular Ecology Resources 15:1472–1485. DOI: 10.1111/1755-0998.12410.

  29. Brum JR., Ignacio-Espinoza JC., Roux S., Doulcier G., Acinas SG., Alberti A., Chaffron S., Cruaud C., de Vargas C., Gasol JM., Gorsky G., Gregory AC., Guidi L., Hingamp P., Iudicone D., Not F., Ogata H., Pesant S., Poulos BT., Schwenck SM., Speich S., Dimier C., Kandels-Lewis S., Picheral M., Searson S., Bork P., Bowler C., Sunagawa S., Wincker P., Karsenti E., Sullivan MB. 2015. Patterns and ecological drivers of ocean viral communities. Science 348:1261498–1261498. DOI: 10.1126/science.1261498.

  30. Villar E., Farrant GK., Follows M., Garczarek L., Speich S., Audic S., Bittner L., Blanke B., Brum JR., Brunet C., Casotti R., Chase A., Dolan JR., D’Ortenzio F., Gattuso J-P., Grima N., Guidi L., Hill CN., Jahn O., Jamet J-L., Le Goff H., Lepoivre C., Malviya S., Pelletier E., Romagnan J-B., Roux S., Santini S., Scalco E., Schwenck SM., Tanaka A., Testor P., Vannier T., Vincent F., Zingone A., Dimier C., Picheral M., Searson S., Kandels-Lewis S., Acinas SG., Bork P., Boss E., de Vargas C., Gorsky G., Ogata H., Pesant S., Sullivan MB., Sunagawa S., Wincker P., Karsenti E., Bowler C., Not F., Hingamp P., Iudicone D. 2015. Environmental characteristics of Agulhas rings affect interocean plankton transport. Science 348:1261447–1261447. DOI: 10.1126/science.1261447.

  31. de Vargas C., Audic S., Henry N., Decelle J., Mahe F., Logares R., Lara E., Berney C., Le Bescot N., Probert I., Carmichael M., Poulain J., Romac S., Colin S., Aury J-M., Bittner L., Chaffron S., Dunthorn M., Engelen S., Flegontova O., Guidi L., Horak A., Jaillon O., Lima-Mendez G., Luke J., Malviya S., Morard R., Mulot M., Scalco E., Siano R., Vincent F., Zingone A., Dimier C., Picheral M., Searson S., Kandels-Lewis S., Acinas SG., Bork P., Bowler C., Gorsky G., Grimsley N., Hingamp P., Iudicone D., Not F., Ogata H., Pesant S., Raes J., Sieracki ME., Speich S., Stemmann L., Sunagawa S., Weissenbach J., Wincker P., Karsenti E., Boss E., Follows M., Karp-Boss L., Krzic U., Reynaud EG., Sardet C., Sullivan MB., Velayoudon D. 2015. Eukaryotic plankton diversity in the sunlit ocean. Science 348:1261605. DOI: 10.1126/science.1261605.

  32. Lima-Mendez G., Faust K., Henry N., Decelle J., Colin S., Carcillo F., Chaffron S., Ignacio-Espinosa JC., Roux S., Vincent F., Bittner L., Darzi Y., Wang J., Audic S., Berline L., Bontempi G., Cabello AM., Coppola L., Cornejo-Castillo FM., D’Ovidio F., De Meester L., Ferrera I., Garet-Delmas M-J., Guidi L., Lara E., Pesant S., Royo-Llonch M., Salazar G., Sanchez P., Sebastian M., Souffreau C., Dimier C., Picheral M., Searson S., Kandels-Lewis S., Gorsky G., Not F., Ogata H., Speich S., Stemmann L., Weissenbach J., Wincker P., Acinas SG., Sunagawa S., Bork P., Sullivan MB., Karsenti E., Bowler C., de Vargas C., Raes J. 2015. Determinants of community structure in the global plankton interactome. Science 348:1262073–1262073. DOI: 10.1126/science.1262073.

  33. Sunagawa S., Coelho LP., Chaffron S., Kultima JR., Labadie K., Salazar G., Djahanschiri B., Zeller G., Mende DR., Alberti A., Cornejo-Castillo FM., Costea PI., Cruaud C., D’Ovidio F., Engelen S., Ferrera I., Gasol JM., Guidi L., Hildebrand F., Kokoszka F., Lepoivre C., Lima-Mendez G., Poulain J., Poulos BT., Royo-Llonch M., Sarmento H., Vieira-Silva S., Dimier C., Picheral M., Searson S., Kandels-Lewis S., Bowler C., de Vargas C., Gorsky G., Grimsley N., Hingamp P., Iudicone D., Jaillon O., Not F., Ogata H., Pesant S., Speich S., Stemmann L., Sullivan MB., Weissenbach J., Wincker P., Karsenti E., Raes J., Acinas SG., Bork P., Boss E., Bowler C., Follows M., Karp-Boss L., Krzic U., Reynaud EG., Sardet C., Sieracki M., Velayoudon D. 2015. Structure and function of the global ocean microbiome. Science 348:1261359–1261359. DOI: 10.1126/science.1261359.

  34. Passarelli C., Meziane T., Thiney N., Boeuf D., Jesus B., Ruivo M., Jeanthon C., Hubas C. 2015. Seasonal variations of the composition of microbial biofilms in sandy tidal flats: Focus of fatty acids, pigments and exopolymers. Estuarine, Coastal and Shelf Science 153:29–37. DOI: 10.1016/j.ecss.2014.11.013.

  35. Balzano S., Corre E., Decelle J., Sierra R., Wincker P., Silva C Da., Poulain J., Evry C. 2015. Transcriptome analyses to investigate symbiotic relationships between marine protists . Frontiers in Microbiology 6. DOI: 10.3389/fmicb.2015.00098.

  36. del Campo J., Mallo D., Massana R., de Vargas C., Richards T a., Ruiz-Trillo I. 2015. Diversity and distribution of unicellular opisthokonts along the European coast analysed using high-throughput sequencing. Environmental Microbiology. DOI: 10.1111/1462-2920.12759.

  37. von Dassow P., John U., Ogata H., Probert I., Bendif EM., Kegel JU., Audic S., Wincker P., Da Silva C., Claverie J-M., Doney S., Glover DM., Flores DM., Herrera Y., Lescot M., Garet-Delmas M-J., de Vargas C. 2015. Life-cycle modification in open oceans accounts for genome variability in a cosmopolitan phytoplankton. The ISME Journal 9:1365–1377. DOI: 10.1038/ismej.2014.221.

  38. 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. DOI: 10.5194/bg-12-991-2015.

  39. Lelchat F., Cozien J., Le Costaouec T., Brandilly C., Schmitt S., Baudoux A-C., Colliec-Jouault S., Boisset C. 2015. Exopolysaccharide biosynthesis and biodegradation by a marine hydrothermal Alteromonas sp. strain. Applied Microbiology and Biotechnology 99:2637–2647. DOI: 10.1007/s00253-014-6075-y.