PICODIVa European FP5 program
Monitoring the diversity of photosynthetic picoplankton in marine waters

Startup meeting

28-29 June 2000, Station Biologique, Roscoff, France

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Detailed shedule

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Wednesday 28 June

Where are we at the start of PICODIV?

The aim of this first part is to present an exhaustive view of the state of the art and of any PICODIV related work that has begun prior to the meeting. Please feel free to add anything that could be of interest for the project.
   9:00 Vaulot Introductory remarks
What is known about picoplankton diversity
  9:10 Throndsen An introduction to picoplankton taxonomy
  10:00 Scanlan Diversity of marine cyanobacteria: Prochlorococcus and Synechococcus
  10:30 Guillou Diversity of picoplanktonic Prasinophytes
  11:00 Coffee break  
Coastal sampling sites
  11:30 Simon et al. Presentation of the Roscoff site, summary of the historical data since 1985
  12:00 Scharek Presentation of the Helgoland site
  12:30 Massana Presentation of the Blanès Bay site
Presentation of HIVERN cruises
Presentation of ARO cruise
  13:00 Lunch  
Other sites and cruises
  14:00 Partensky et al. Overview of the PROSOPE cruise (Mediterranean Sea), September 1999 with emphasis on picoplankton
  14:30 Scanlan The Red Sea sampling site: cyanobacteria dynamics.
  14:45 Vaulot Database implementation
  • Taxonomy
  • Cultures
  • Environmental data
  • Probes
  • Sequences
  15:30 Le Gall et al. Culturing strategy: initial results from the screening of PROSOPE and Roscoff cultures
  16:00 Tea break  
Ancilary techniques: flow cytometry, HPLC, TEM
  16:30 Marie et al. Update on flow cytometry approaches for picoplankton
  17:00 Latasa Latest development in HPLC and first overview of fractionated samples from Roscoff
  17:30 Eikrem et al. TEM methodology and initial results on grids from PROSOPE
Thursday 29 June
Molecular approaches
  9:00 Valentin et al. Optimizing DNA extraction and cloning efficiency for picoplankton samples
First results from Helgoland clone library
  9:30 Scanlan Strategies to study Prochlorococcus molecular ecology
  9:45 Diez et al. DGGE analysis of eukaryotic picoplankton (see ppt file on primers)
  10:00 Medlin Overview of probes available for eukaryotic picoplankton.
Probe design and probe measurement: high density arrays and DNA chips
  10:30  Not Coupling FISH-TSA with eukaryotic probes for picoplankton: initial results for the Roscoff site.
  11:00 Coffee break
  13:00  Lunch  

Planning PICODIV

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  14:00 Workpackage 1
Daniel, Wenche
  • Isolation methods
  • Central repositary sites
  15:00 Workpackage 2
Dave, Klaus, Ramon
  • Cloning vector
  • Primers choice for short runs and full sequences
  • PCR enzymes, PCR cycles, thermocyclers
  • Should we negotiate with a single company to subcontract sequencing
  • Companies for other items (oligos, enzymes)
  • Programs used for sequence analysis, aligning etc: local Blast, ARB
  • Programs used for phylogenetic analyses including parameter settings (Weighting of gaps, positions, distance matrices etc.)

Clones libraries

  • Coastal Site
  • Equatorial Pacific (OLIPAC)
  • Mediterranean Sea (MINOS, PROSOPE, HIVERN, MATER)
  • North Atlantic (Orkney Islands, Celtic Sea)
  • Red Sea
  • Southern Ocean
  • ?
  16:00 Tea Break  
  16:30 Workpackages 3
Linda, Dave, Nathalie
  • List of probes to be designed
    • Classes
    • Clades
    • Genus, species
  • Probe detection:
    • FISH
    • Dot blot
    • DNA chips
  17:30 Workpackages 4
Carlos, Nathalie, Mikel
  • Filtration, volumes etc...
  • DNA/RNA extraction protocols
  • TEM protocols
  18:30    Arrangements for next meeting
  18:50  Adjourn  

Last updated 20 January 2001

Roscoff 2000