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Series GSE71844 Query DataSets for GSE71844
Status Public on Mar 08, 2017
Title Growth-phase dependent gene regulation in the alpha-proteobacterium Rhodobacter sphaeroides
Organism Cereibacter sphaeroides 2.4.1
Experiment type Expression profiling by high throughput sequencing
Summary Global transcriptome analyses at different stages of growth were applied to monitor growth phase-dependent gene expression in the alpha-proteobacterium Rhodobacter sphaeroides. Cultures with low aeration, which underwent strong changes in levels of dissolved oxygen during growth, were compared to aerated cultures, which showed little variation in levels of dissolved oxygen. Cells were in stationary phase for 12 h or for 57 h before dilution into fresh medium. While the majority of genes (80-85%) are not differentially expressed across growth phases, other genes exhibited growth phase-dependent expression patterns. Gene expression in outgrowth phase was strongly influenced by the length of the preceding stationary phase. After 57 h in stationary phase a much larger number of genes was induced after dilution, 35% of which are known to be controlled by the alternative sigma factors RpoHI and/or RpoHII. Growth experiments with mutant strains assign an important function in stationary phase and especially in outgrowth to these sigma factors and genes for both sigma factors showed growth phase-dependent expression. Besides the known consensus sequences for the RpoH sigma factors, some new consensus sequences were identified in subsets of growth phase-dependent genes suggesting regulation by common transcription factors.
Overall design 4 phases
Contributor(s) Remes B, Rische-Grahl T, Förstner KU, Peuser V, Klug G
Citation(s) 27802301, 29486719, 28692405, 31835540, 33549057
Submission date Aug 07, 2015
Last update date Feb 16, 2021
Contact name Konrad U. Förstner
Organization name ZB MED - Information Centre for Life Sciences
Department Information Services
Lab Förstner Lab
Street address Gleueler Str. 60
City Cologne
State/province North Rhine-Westphalia
ZIP/Postal code 50931
Country Germany
Platforms (1)
GPL17213 Illumina HiSeq 2000 (Rhodobacter sphaeroides 2.4.1)
Samples (8)
GSM1846676 R_s_exponential_phase_TEX_neg
GSM1846677 R_s_exponential_phase_TEX_pos
GSM1846678 R_s_transitional_phase_TEX_neg
BioProject PRJNA292315
SRA SRP062174

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Supplementary file Size Download File type/resource
GSE71844_RAW.tar 90.4 Mb (http)(custom) TAR (of WIG)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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