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DNA microarray analysis of E.coli K12 MG1655 exposed to prolonged stationary phase

ABSTRACT: This study explores the effects of prolonged stationary phase, on whole genome expression of Escherichia coli. In summary these results imply that prolonged stationary phase cells have shown less growth rate compared to fresh cells due to the low abundance of transcripts for translation initiation factor infC, and for all the seven rrn operons of 5S, 16S, 23S ribosomal RNA which further delayed in protein synthesis leading to low biomass in prolonged stationary phase cells.

ORGANISM(S): Escherichia coli

PROVIDER: GSE50828 | GEO | 2013/09/12

SECONDARY ACCESSION(S): PRJNA219098

REPOSITORIES: GEO

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DNA microarray analysis of E.coli K12 MG1655 exposed to prolonged stationary phase

Project description:This study explores the effects of prolonged stationary phase, on whole genome expression of Escherichia coli. In summary these results imply that prolonged stationary phase cells have shown less growth rate compared to fresh cells due to the low abundance of transcripts for translation initiation factor infC, and for all the seven rrn operons of 5S, 16S, 23S ribosomal RNA which further delayed in protein synthesis leading to low biomass in prolonged stationary phase cells. 28 days old E.coli cells were grown in the presence of LB broth and LB broth supplemented with 10% v/v glycerol. RNA was extracted from these samples, cDNA was prepared, fragmented cDNA was labled with labeling reagent and hybridized with Affymetrix E.coli2.0 genome array chips.Data was analysed to get the effect of glycerol on E.coli gene expression

2013-09-12 | E-GEOD-50828 | biostudies-arrayexpress

Transcriptome analysis of E.coli MG1655 under multiple growth conditions

2009-11-04 | GSE15534 | GEO

E. coli MG1655 pJV300 stationary phase

Project description:E. coli MG1655 pJV300 stationary phase

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Global gene expression analysis of long-term stationary phase effects in E. coli K12 MG1655.

Project description: Not available

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Transcription profiling of yeast in stationary phase

Project description:Gene expression vs. DNA turnover in prolonged stationary phase Saccharomyces cerevisiae

2008-12-31 | E-MEXP-1938 | biostudies-arrayexpress

Transcriptome analysis of E.coli MG1655 under multiple growth conditions

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2009-11-03 | E-GEOD-15534 | biostudies-arrayexpress

Acinetobacter oleivorans DR1 : WT stationary phase vs. aqsR mutant stationary phase

Project description:Transcriptional profiling of A. oleivorans DR1 cells comparing wild type stationary phase cells with aqsR mutant stationary phase cells.

2013-02-16 | GSE44347 | GEO

Quantitative analysis of Escherichia coli sigma factor alleles wildtype rpoS, rpoS819 and rpoS92 transcriptomes in stationary-phase (16 hours)

Project description:The goal of this study was to compare system level changes in gene-expression in naturally isolated alleles of stationary-phase sigma factor rpoS and two variants of it isolated during evolution under prolonged stationary-phase. We show that while rpoS819 was an attenuated form of wild type rpoS, rpoS92 partially reverses rpoS819 expression compensating rpoS819.

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Thermotoga maritima transcription during exponential and stationary phase growth on 1 and 5 g/l yeast extract

Project description:Although proteins and peptides encoded in small open reading frames (ORFs < 100 AA) in microbial genomes can play critical roles as toxins, bacteriocins, transcriptional regulators, signaling molecules, and chaperones, many such ORFs remain annotated as M-bM-^@M-^\hypothetical proteinsM-bM-^@M-^]. In the genome of the hyperthermophilic bacterium, Thermotoga maritima, nearly 2/3 of the 167 small ORFs have no known function. As a strategy for investigating the potential significance of specific small ORFs, growth conditions that could trigger the expression of genes encoding small ORFs were sought. A defined medium supplemented with either 1 or 5 g/L yeast extract was used to track transcriptional response during the transition from exponential to stationary phase. RNA derived from exponential (1E) and stationary (1S) phase cultures grown on 1 g/l yeast extract was compared to RNA derived from exponential (5E) and stationary (5S) phase cultures grown on 5 g/l yeast extract using a four-slide loop design.

2013-08-28 | E-GEOD-47072 | biostudies-arrayexpress

Stationary phase stimulon and CspC regulon

Project description:The cold shock proteins belong to a family of RNA binding proteins presenting a highly conserved domain, called cold shock domain (CSD). They are involved in various cellular processes, including adaptation to low temperature, nutritional stress, cell growth and stationary phase. Here we investigate the role of CspC in C. crescentus stationary phase and the molecular mechanisms underlying gene regulation by this protein. A global transcriptional profiling experiment comparing cspC and the wild type strain both at exponential and stationary phases was carried out. The results showed that the absence of cspC affected the transcription of 20 genes at exponential phase and 65 genes at stationary phase. Genes encoding enzymes of the glyoxylate cycle were severely downregulated in the mutant at stationary phase. The stationary phase-induced RNA binding protein CspC has an important role in gene expression at this phase. It is required for the expression of the essential gene sciP, the ECF sigma factor sigU, as well as of the genes for the glyoxylate cycle enzymes and for oxidative stress response.

2015-08-24 | GSE61726 | GEO

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