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( remplir par le responsable du paramtre / to be filled by the PI )
Date de cration29/03/2008created onDate: de dernire mise jourlast update
PARAMETRES CONCERNES PARAMETERS
Mode dchantillonnageNo parametre nom parametreStatus : [non] valid Samplingparameter number name of the parameterStatus : [not] validRosettePicocyanobacteria cultures552RosettePicocyanobacteria FISH553RosetteSynechococcus diversity (QPCR)550RosetteSynechococcus Environmental Genomic551Rosette-CyclePicocyanobacteria abundance554Rosette-CyclePicocyanobacteria cell cycle614Rosette-CycleProchlorococcus Molecular stress indicators612
PROJET ETUDE PROJECT TITLEFunctional diversity of marine cyanobacteria and acclimation to environmental factors
RESPONSABLE SCIENTIFIQUE PRINCIPAL INVESTIGATOR
Nom /
nameadresse /
addresstlphone / phone numberfax /
fax numberadresse ml /
email addressGarczarek LaurenceUMR 7144, Station Biologique, Roscoff02 98 29 25 6402 98 29 23 24garczarek@sb-roscoff.fr
BREVE DESCRIPTION DU PROJET BRIEF DESCRIPTION OF PROJECT
The objectives of this project are to study the diversity of marine cyanobacteria and their physiological response to various environmental factors.
DESCRIPTION DES PARAMETRESPARAMETERS DESCRIPTIONCe qui a t mesur et comment (mthode analytique et/ou rfrences )/
What did you measure and how did you do it (include references for analytical methods)?
Picocyanobacteria cultures will be isolated using PCR-S11 medium ADDIN EN.CITE Rippka2000162671626717Rippka, R.Coursin, T.Hess, W.Lichtl, C.Scanlan, D.J.Palinska, K.A.Iteman, I.Partensky, F.Houmard, J.Herdman, M.International Journal of Systematic and Evolutionary MicrobiologyInt. J. Syst. Evol. Microbiol.International Journal of Systematic and Evolutionary MicrobiologyInt. J. Syst. Evol. Microbiol.Int J Syst Evol MicrobiolInternational Journal of Systematic and Evolutionary MicrobiologyInt. J. Syst. Evol. Microbiol.Int J Syst Evol Microbiol1833-184750Prochloralescyanobacterianitrogen assimilationphosphohydrolases16S rRNANORTH-ATLANTIC OCEANCOMPLEMENTARY CHROMATIC ADAPTATIONMULTIPLE EVOLUTIONARY ORIGINSGENE SEQUENCE-ANALYSISUNICELLULAR CYANOBACTERIAPROCHLOROTHRIX-HOLLANDICAMAXIMUM-LIKELIHOODENERGY-TRANSFER2 STRAINSSYNECHOCOCCUS2000Marlborough House Basingstoke Rd, Spencers Woods, Reading Rg7 1AE, Berks, EnglandSoc General Microbiology1466-5026(Rippka et al, 2000). The genetic diversity and distribution of Synechococcus populations will be studied based on 16S rRNA using fluorescence in situ hybridization ADDIN EN.CITE Simon1995324953249517Simon, N.LeBot, N.Marie, D.Partensky, F.Vaulot, D.Centre National de la Recherche Scientifique, Roscoff, France.Fluorescent in situ hybridization with rRNA-targeted oligonucleotide probes to identify small phytoplankton by flow cytometryAppl Environ MicrobiolApplied and environmental microbiologyAppl Environ MicrobiolApplied and Environmental MicrobiologyAppl. Environ. Microbiol.2506-13617Base SequenceFlow Cytometry*In Situ Hybridization, FluorescenceMolecular Sequence Data*Oligonucleotide ProbesPhytoplankton/growth & development/*isolation & purificationRNA, Ribosomal, 18S/*genetics1995Jul0099-2240 (Print)7618862http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=7618862 eng(Simon et al, 1995) as well as based on Synechococcus pigments types by real time PCR and metagenomic approaches ADDIN EN.CITE Six2007324913249117Six, C.Thomas, J. C.Garczarek, L.Ostrowski, M.Dufresne, A.Blot, N.Scanlan, D. J.Partensky, F.UMR 7144 Universite Paris VI and CNRS, Station Biologique, Groupe Plancton Oceanique, F-29682 Roscoff cedex, France. csix@mta.caDiversity and evolution of phycobilisomes in marine Synechococcus spp.: a comparative genomics studyGenome BiolGenome biologyGenome BiolGenome BiologyR259812*Evolution, MolecularGenomicsPhycobiliproteins/genetics/metabolismPhycobilisomes/*geneticsPhylogenySynechococcus/classification/*genetics20071465-6914 (Electronic)18062815http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=18062815 engStepanauskas2007324973249717Stepanauskas, R.Sieracki, M. E.Bigelow Laboratory for Ocean Sciences, P.O. Box 475, West Boothbay Harbor, ME 04575-0475, USA. rstepanauskas@bigelow.orgMatching phylogeny and metabolism in the uncultured marine bacteria, one cell at a timeProc Natl Acad Sci U S AProceedings of the National Academy of Sciences of the United States of AmericaProc Natl Acad Sci U S AProceedings of the National Academy of Sciences of the United States of AmericaProc. Natl. Acad. Sci. U.S.A.Proc Natl Acad Sci USA9052-710421Bacteria/*classification/cytology/genetics/*metabolismBacterial Proteins/geneticsGene AmplificationGene LibraryGenes, Bacterial/geneticsGenome, Bacterial/geneticsMarine BiologyMolecular Sequence DataPhotosynthetic Reaction Center Complex Proteins/genetics*PhylogenyRNA, Ribosomal/geneticsRhodopsins, Microbial/geneticsSeawater/*microbiologyTime Factors2007May 220027-8424 (Print)17502618http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=17502618 eng(Six et al, 2007; Stepanauskas & Sieracki, 2007). Abundance and cell cycle of marine cyanobacteria will be determined by flow cytometry according to Marie et al ADDIN EN.CITE Marie199915683156835Marie, D.Brussaard, C.Partensky, F.Vaulot, D.John Wiley & SonsFlow cytometric analysis of phytoplankton, bacteria and virusesCurrent Protocols in Cytometry11.11.1-11.11.15.1999International Society for Analytical CytologyMarie1999138101381017D. MarieC. P. D. BrussaardR. ThyrhaugG. BratbakD. VaulotEnumeration of marine viruses in culture and natural samples by flow cytometryApplied and Environmental MicrobiologyApplied and Environmental MicrobiologyAppl. Environ. Microbiol.45-52651transmission electron-microscopyaquatic environmentsmicromonas-pusillaviral mortalitybacteriaabundanceseawaterepifluorescencephytoplanktonwaters1999(Marie et al, 1999a; Marie et al, 1999b)
Stratgie d'chantillonnage /
Sampling strategy
Sampling by rosette will be performed at 6 different depths in the euphotic layer (including DCM, upDCM, downDCM, surface and 2 depths between surface and upDCM) for 10 short stations (3,6,9,11,14,17,20,24,26 and 27) and 3 long stations (A, B and C).
Dcrire quels types de donnes sont ncessaires pour vous complter votre propre jeu de donnes avant envoi la base de donnes, et estimer le dlai avant la disponibilit de vos donnes pour la base de donnes /
Post-cruise data analysis/treatment required, and the time frame for this
Abundance and cell cycle data will be available within one year. Diversity data and metagenomic analyses will be available after 3 years.
Estimations des erreurs, prcision, sensibilit des donnes /
Error estimates, precision and accuracy of the data
FICHIERS FILES
Nom de fichier de donnes /
File name
Explication des ttes de colonne, des units et des abrviations utilises dans le fichier de donnes /
Data file structure, units, label columns,
RESULTATS PRELIMINAIRES RESULTS
REFERENCES BIBLIOGRAPHIQUESREFERENCES - PAPERS
ADDIN EN.REFLIST Marie D, Brussaard C, Partensky F, Vaulot D (1999a) Flow cytometric analysis of phytoplankton, bacteria and viruses. In: Sons JW (ed) Current Protocols in Cytometry. International Society for Analytical Cytology, pp 11.11.11-11.11.15.
Marie D, Brussaard CPD, Thyrhaug R, Bratbak G, Vaulot D (1999b) Enumeration of marine viruses in culture and natural samples by flow cytometry. Appl. Environ. Microbiol. 65: 45-52
Rippka R, Coursin T, Hess W, Lichtl C, Scanlan DJ, Palinska KA, Iteman I, Partensky F, Houmard J, Herdman M (2000) Prochlorococcus marinus Chisholm et al. 1992 subsp. pastoris subsp. nov. strain PCC 9511, the first axenic chlorophyll a2/b2-containing cyanobacterium (Oxyphotobacteria). Int. J. Syst. Evol. Microbiol. 50: 1833-1847
Simon N, LeBot N, Marie D, Partensky F, Vaulot D (1995) Fluorescent in situ hybridization with rRNA-targeted oligonucleotide probes to identify small phytoplankton by flow cytometry. Appl Environ Microbiol 61: 2506-2513
Six C, Thomas JC, Garczarek L, Ostrowski M, Dufresne A, Blot N, Scanlan DJ, Partensky F (2007) Diversity and evolution of phycobilisomes in marine Synechococcus spp.: a comparative genomics study. Genome Biol 8: R259
Stepanauskas R, Sieracki ME (2007) Matching phylogeny and metabolism in the uncultured marine bacteria, one cell at a time. Proc Natl Acad Sci U S A 104: 9052-9057
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