1 sample(s) found by the keyword GSM147750.


  1. GEO sample ID: GSM147750
    • Sample_geo_accession: GSM147750
    • Sample_status: Public on Feb 28 2007
    • Sample_submission_date: Nov 30 2006
    • Sample_last_update_date: Oct 09 2008
    • Sample_type: RNA
    • Sample_channel_count: 1
    • Sample_source_name_ch1: chemostat culture with Proline as N-source
    • Sample_organism_ch1: Saccharomyces cerevisiae
    • Sample_characteristics_ch1: The prototrophic S. cerevisiae strain CEN.PK113-7D (MATa) (1)
    • Sample_characteristics_ch1: (1) van Dijken et al. 2000. An interlaboratory comparison of physiological and genetic properties of four Saccharomyces cerevisiae strains. Enzyme Microb Technol 26(9,10): 706-714.
    • Sample_biomaterial_provider_ch1: V Boer
    • Sample_treatment_protocol_ch1: Sampling of cells from chemostats, probe preparation and hybridization to Affymetrix GeneChip® Microarrays was performed as described by Piper et al (Piper et al., 2002).
    • Sample_growth_protocol_ch1: The prototrophic S. cerevisiae strain CEN.PK113-7D (MATa) (1,2) was grown at 30°C in 1.0-liter working volume chemostats (3). Cultures were fed with a synthetic medium (4) that supported glucose-limited growth. The glucose concentration in the reservoir medium was 7.5 g·l-1. The nitrogen source was used, at the following concentration: L-proline, 8.8 g·l-1. When an amino acid served as nitrogen source, the synthetic medium was supplemented with 6.6 g·l-l K2SO4. The dilution rate was set at 0.10 h-1. The pH was measured online and kept constant at 5.0 by the automatic addition of 2 M KOH with the use of an Applikon ADI 1030 biocontroller. Stirrer speed was 800 rpm and the airflow was 0.5 l.min-1. Dissolved oxygen tension was measured online with an Ingold model 34 100 3002 probe, and was above 50% air saturation. A condenser connected to a cryostat set at 2 °C cooled the off-gas, and oxygen and carbon dioxide were measured off-line. Steady-state samples for arrays were taken after 10 to 14 volume changes to minimize the impact of evolutionary adaptation that occurs after long term cultivation (5,6). Dry weight, metabolite-, and gas profiles were constant over at least 3 volume changes prior to sampling for RNA extraction.
    • Sample_growth_protocol_ch1: (1) van Dijken et al. 2000. An interlaboratory comparison of physiological and genetic properties of four Saccharomyces cerevisiae strains. Enzyme Microb Technol 26(9,10): 706-714.
    • Sample_growth_protocol_ch1: (2) Daran-Lapujade P et al. 2003. Comparative genotyping of the Saccharomyces cerevisiae laboratory strains S288C and CEN.PK113-7D using oligonucleotide microarrays. FEMS Yeast Res 4: 285-296.
    • Sample_growth_protocol_ch1: (3) van den Berg et al. 1996. The two acetyl-coenzyme A synthetases of Saccharomyces cerevisiae differ with respect to kinetic properties and transcriptional regulation. J Biol Chem 271: 28953-28959.
    • Sample_growth_protocol_ch1: (4) Verduyn et al. 1992. Effect of benzoic acid on metabolic fluxes in yeasts: a continuous-culture study on the regulation of respiration and alcoholic fermentation. Yeast 8: 501-17.
    • Sample_growth_protocol_ch1: (5) Ferea et al. 1999. Systematic changes in gene expression patterns following adaptive evolution in yeast. Proc Natl Acad Sci U S A 96: 9721-9726.
    • Sample_growth_protocol_ch1: (6) Jansen et al. 2004. Prolonged maltose-limited cultivation of Saccharomyces cerevisiae selects for cells with improved maltose affinity and hypersensitivity. Appl Environ Microbiol 70: 1956-1963.
    • Sample_molecule_ch1: polyA RNA
    • Sample_extract_protocol_ch1: Sampling of cells from chemostats, probe preparation and hybridization to Affymetrix GeneChip® Microarrays was performed as described by Piper et al (Piper et al., 2002).
    • Sample_label_ch1: SAPE
    • Sample_label_protocol_ch1: Sampling of cells from chemostats, probe preparation and hybridization to Affymetrix GeneChip® Microarrays was performed as described by Piper et al (Piper et al., 2002).
    • Sample_hyb_protocol: [Fluidics]
    • Sample_hyb_protocol: Protocol EukGE-WS2v4
    • Sample_scan_protocol: [Scanner]
    • Sample_scan_protocol: Pixel Size 3
    • Sample_scan_protocol: Filter 570
    • Sample_scan_protocol: Number of Scans 2
    • Sample_scan_protocol: Scanner Type HP
    • Sample_description: MA6
    • Sample_data_processing: MAS 5.1
    • Sample_platform_id: GPL90
    • Sample_contact_name: Jean-Marc,,Daran
    • Sample_contact_email: j.g.daran@tudelft.nl
    • Sample_contact_phone: +31 15 278 2412
    • Sample_contact_fax: +31 15 278 23 55
    • Sample_contact_laboratory: Kluyver centre for genomics of industrial organisms
    • Sample_contact_department: Department of Biotechnology
    • Sample_contact_institute: Delft University of Technology
    • Sample_contact_address: Julianalaan 67
    • Sample_contact_city: Delft
    • Sample_contact_zip/postal_code: 2628BC
    • Sample_contact_country: Netherlands
    • Sample_supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM147nnn/GSM147750/GSM147750.CEL.gz
    • Sample_supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM147nnn/GSM147750/GSM147750.EXP.gz
    • Sample_series_id: GSE6405
    • Sample_series_id: GSE11452
    • Sample_data_row_count: 9335
    • Sample_comment: Raw data provided as supplementary file
    • sample_table_begin:
    • sample_table_end:
    • Sample_title: C-lim aerobic chemostat with proline as N-source 3
    ID_REF Corrected Value VALUE ABS_CALL
    AFFX-MurIL2_at 0.2 0.6 A
    AFFX-MurIL10_at 0.3 0.4 A
    AFFX-MurIL4_at 0.7 0.4 A
    AFFX-MurFAS_at 1.8 0.5 A
    AFFX-BioB-5_at 83.2 43 P
    AFFX-BioB-M_at 81.7 44.8 P
    AFFX-BioB-3_at 77.5 42.2 P
    AFFX-BioC-5_at 106.3 69.6 P
    AFFX-BioC-3_at 88.6 51.3 P
    AFFX-BioDn-5_at 107.3 68.9 P
    View Full Table






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