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Souchothèque de Bretagne Roscoff Culture Collection Collection de Cultures de Roscoff

Souchothèque de Bretagne Roscoff Culture Collection Collection de Cultures de Roscoff. Station Biologique de Roscoff FR2424 et UMR7144 Director D. Vaulot Curators Florence Le Gall & Ian Probert. The Roscoff Collection. Set up in 1998 from research collection 1,900 strains (January 2010)

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Souchothèque de Bretagne Roscoff Culture Collection Collection de Cultures de Roscoff

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  1. Souchothèque de BretagneRoscoff Culture CollectionCollection de Cultures de Roscoff Station Biologique de RoscoffFR2424 et UMR7144 Director D. Vaulot Curators Florence Le Gall & Ian Probert

  2. The Roscoff Collection • Set up in 1998 from research collection • 1,900 strains (January 2010) • Large coverage of oceanic regions (arctic to tropics) • Many novel species

  3. Infrastructures • Culture space • 2 culture rooms • 1 experiment room • 10 culture cabinets • 1 transfer laboratory • Cryopreservation equipment • Progressive freezer • -150°C freezer • Liquid nitrogen tanks • 3 flow cytometers • FACSAria – high speed sorter (2003) • FACSCanto – analysis (2008) • Beckmann Coulter Quanta – analysis (2009) • 4 microscopes, three of which equiped for digital imaging • New location with expanded culture and lab space in 2012

  4. New Resource Center - 2012

  5. Personnel Experts

  6. Financial support • Souchothèque de Bretagne (CPER 1998-2006 et 2007-2012) • GénoMer (CPER) et Ouest-Génopole • PicoManche: PRIR Région Bretagne • Programme CNRS Aventis • CRB (Ministère de la Recherche) • PROMOLEC (Europe FP5) • PICODIV (Europe FP5) • Marine Genomics (Europe FP6) • Plankton*Net (Europe FP6) • ASSEMBLE (Europe FP7) • Selling strains since 2006

  7. Isolating picoplankton - Cruises MALINA 2009 MICROVIR2007 ROSCOFF 2000 CHLOMAX 1987 MINOS, PROSOPE, BOUM1999 EUMELI 1991 OLIPAC 1994 Indian Ocean 2003 BIOSOPE 2004

  8. Cultures An example BIOSOPE cruise 2004

  9. On board the ship • Precultures (50 mL or plates) -> 170 • Prefiltered 3 or 0.6 µm • Enriched in K/100, Pro/100 or Rice • Put in light:dark incubator at 20°C • Sorting by flow cytometry (plates or tube) -> 104 • 1, 10, 1000 cells • K/10 or Pro/10 • Reanalysis after 10-20 days • dilution • sorting • "Quick" transfer to Roscoff mostly in tubes

  10. In Roscoff • Initially : 445 pre-cultures • 256 High light, 189 Low light • Screening • microscopy • flow cytometry • Purification • Serial dilution • Single cell pipetting (diatoms, coccolithophorids...) • Plating • Sorting by flow cytometry • Finally • 212 cultures added to RCC (some lost since)

  11. Prasinococcus Cyanobacteria Prasinoderma Micromonas Pycnococcus Picochlorum Phaeocystis Phaeocystis Pelagomonas

  12. Recent additions BOUM cruise – 2008 136 strains MALINA cruise – 2009 80 strains MICROVIR cruise – 2007 112 strains

  13. RCC 465 RCC 944 Caracterisation • Optical microscopy • Flow cytometry • Electronic microscopy • Pigment analysis by HPLC • Gene analysis • 18S rRNA gene • ITS, cox 1 (DNA barcoding) • Genome sequencing

  14. Database • Locally under Microsoft Access • Original data • History at RCC • Where it was sent to • Transferred to Web mySQL server • On-line catalog updated weekly

  15. Data base linked to Google map

  16. Major groups • Cyanobacteria • Picoeukaryotes (prasinophytes, pelagophytes etc…) • Haptophytes (Coccolithophrids, Emiliania, Phaeocystis) • Diatoms New • Phototrophic bacteria • Dinoflagellate parasites • Viruses of prasinophytes

  17. 1,900 strains Overview of RCC January 2011 Backup cultures not taken into account

  18. I BL107 IV Published genomes Genoscope genomes II Prochlorococcus III (mobiles) V Synechococcus sp. WH 7805 VI VII Synechococcus VIII Recent genomes IX X HLI Prochlorococcus (MED4, MIT9515) HLII Prochlorococcus (MIT9312, MIT9301, AS9601) Prochlorococcus sp. NATL2A Marine cyanobacteria Prochlorococcus sp. NATL1A Prochlorococcus marinus SS120 Prochlorococcus sp. MIT9211 Prochlorococcus sp. MIT9303 Prochlorococcus sp. MIT9313 Synechococcus sp. WH 8020 Synechococcus sp. WH 8016 Synechococcus sp. CC9311 Synechococcus sp. Almo3 SAR7 BL107 MB11A04 5X15 NAC1-5 EBAC392 Synechococcus sp. WH 8002 Synechococcus sp. WH 8109 Synechococcus sp. CC9605 Synechococcus sp. RS9902 Synechococcus sp. RS9903 Synechococcus sp. RS9904 Synechococcus sp. RS9907 Synechococcus sp. RS9908 Synechococcus sp. RS9910 Synechococcus sp. RS9911 Synechococcus sp. RS9912 Synechococcus sp. RS9919 Synechococcus sp. Max42 Synechococcus sp. WH 8103 Synechococcus sp. RS9905 Synechococcus sp. RS9915 Synechococcus sp. Minos02 Synechococcus sp. WH 8102 SAR100 SAR139 Synechococcus sp. C129 Synechococcus sp. Minos12 Synechococcus sp. UW01 Synechococcus sp. WH 7803 Synechococcus sp. WH 8018 Synechococcus sp. WH 7805 Synechococcus sp. RS9920 Synechococcus sp. Eum14 Synechococcus sp. Oli31 Synechococcus sp. RS9906 Synechococcus sp. RS9914 Synechococcus sp. RS9909 Strains isolated by RCC Synechococcus sp. RS9913 Synechococcus sp. RS9917 Synechococcus sp. RS9918 Synechococcus sp. WH 8101 Synechococcus sp. RS9901 Synechococcus sp. RS9916 Synechococcus sp. RS9916 Synechococcus sp. RS9921 Synechococcus sp. Minos11 Synechococcus sp.RCC307 Cyanobium sp. NS01 Synechococcus sp. WH 5701 Synechococcus sp. PCC6301 Arbre ARNr 16S rRNA Fuller et al. (2003) AEM diapo F. Partensky 0.10

  19. Thau Deep strains Ostreococcus Smallest eukaryote: 0.8 µm • 55 strains : • Thau lagoon • Méditerranean Sea • English Channel • Tropical Atlantic • Red Sea Genomes : 2 published Several in progress

  20. Novel species BolidomonasGuillou et al. 1999 Florenciella Eikrem et al. 2004 PartenskyiellaOta et al. 2008

  21. Genomes

  22. More genomesPROMETHEUS project Genoscope

  23. Distribution1200 strains available for distribution Research teams • Equipes de la Station Biologique de Roscoff • IFREMER, Brest • Institut PASTEUR, Paris • Observatoire Océanologiques Banyuls sur Mer, Villefranche sur Mer • Norvège • Royaume-Uni • Allemagne • Espagne • USA • Inde • Chine • Turquie Private laboratories • SOMAIG • SANOFI • Océanopolis Education • Lycée Janson de Sailly (Paris) • Lycée Hoche (Versailles) Other collections • ALGOBANK, Université de Caen • Pasteur Culture Collection, Institut Pasteur, Paris • Culture Collection of Marine Phytoplankton (CCMP), Bigelow Lab, Maine, USA • NIES, Tsukuba Japan

  24. Outlook 2011-2012 • Moving to new building • Add strains • Japan 2010 • Collaboration with NIES • Cryopreservation • Development of robust protocols • Start with species with large number of strains (Ostreococcus, Synechococcus, Emiliania) • Identification & description of strains • DNA barcoding • Description of new species : • Prasinophyceae (W. Eikrem, Oslo) • Pelagophyceae (W. Eikrem, Oslo) • Chlorarachniophyceae (S. Ota) • Genomes of 30 strains (TARA-PROMETHEUS)

  25. http://www.sb-roscoff.fr/Phyto/RCC/

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