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Identifying the signaling cascades and regulatory mechanisms that control osmotic stress response

ABSTRACT: We performed knockout and wild type expression experiments in yeast grown in soribtol to identify genes invovled in controling osmotic stress response.

ORGANISM(S): Saccharomyces cerevisiae

PROVIDER: GSE28213 | GEO | 2012/07/10

SECONDARY ACCESSION(S): PRJNA139661

REPOSITORIES: GEO

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Identifying the signaling cascades and regulatory mechanisms that control osmotic stress response

Project description:We performed knockout and wild type expression experiments in yeast grown in soribtol to identify genes invovled in controling osmotic stress response. Soribitol experiments were performed by growing to logarithmic phase in synthetic complete (SC) medium and then washing and resuspending in SC medium with 1M sorbitol for 30 minutes. Two replicates were performed per knockout strain and compared with two or four control replicates depending on the platform.

2012-07-09 | E-GEOD-28213 | biostudies-arrayexpress

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mRNA amount analysis of wild type strain subjected to osmotic stress

Project description:mRNA amount (RA) analysis of W303-1a yeast strain growing in exponential phase in YPD subjected to osmotic stress Keywords: time course

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Transcription rate analysis of wild type strain subjected to osmotic stress

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Project description:The euryhaline marine yeast Debaromyces hansenii is a model system for the study of genes related to osmotic stress. To study the transcriptional response of this organism to osmotic stress we have used the two color microarray based gene expression analysis of 6211 genes which constitutes the whole genome. Analysis was done at three time points after induction with salt (0.5h, 3h and 6h.) The mRNA level of 64 genes significantly increased at least 3-fold after induction with 2M NaCl whereas that of 45 genes was 3-fold diminished. The induced as well as the repressed genes were grouped into functional categories to identify biochemical processes possibly affected by osmotic shock. 53% of the induced genes encode for ribosomal proteins, 12.5% for mitochondrial and redox, 6% for aminoacid, cell wall and carbohydrate, and 1.5%for heat shock, protein transport and glycerol proteins. The function of 31% of repressed genes is currently unknown. 15% of the repressed genes are involved in carbohydrate metabolism and protective function, 6% are associated with cell wall, redox and signal transduction, and 4% in vacuolar and lipid functions. Surprisingly, the activity of NAD+ glycerol 3-phosphate dehydrogenase gene (GPD1) involved in the glycerol biosynthesis in response to osmotic stress did not show induction. Keywords: time course, stress response, mRNA expression

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