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Yeast glucose pathways converge on the transcriptional regulation of trehalose biosynthesis.

BMC genomics | Jun 14, 2012

BACKGROUND: Cellular glucose availability is crucial for the functioning of most biological processes. Our understanding of the glucose regulatory system has been greatly advanced by studying the model organism Saccharomyces cerevisiae, but many aspects of this system remain elusive. To understand the organisation of the glucose regulatory system, we analysed 91 deletion mutants of the different glucose signalling and metabolic pathways in Saccharomyces cerevisiae using DNA microarrays. RESULTS: In general, the mutations do not induce pathway-specific transcriptional responses. Instead, one main transcriptional response is discerned, which varies in direction to mimic either a high or a low glucose response. Detailed analysis uncovers established and new relationships within and between individual pathways and their members. In contrast to signalling components, metabolic components of the glucose regulatory system are transcriptionally more frequently affected. A new network approach is applied that exposes the hierarchical organisation of the glucose regulatory system. CONCLUSIONS: The tight interconnection between the different pathways of the glucose regulatory system is reflected by the main transcriptional response observed. Tps2 and Tsl1, two enzymes involved in the biosynthesis of the storage carbohydrate trehalose, are predicted to be the most downstream transcriptional components. Epistasis analysis of tps2Δ double mutants supports this prediction. Although based on transcriptional changes only, these results suggest that all changes in perceived glucose levels ultimately lead to a shift in trehalose biosynthesis.

Pubmed ID: 22697265 RIS Download

Mesh terms: Gene Expression Regulation | Glucose | Glucosyltransferases | Oligonucleotide Array Sequence Analysis | Saccharomyces cerevisiae | Saccharomyces cerevisiae Proteins | Transcription, Genetic | Trehalose

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Database of functional genomics experiments including gene expression where you can query and download data collected to MIAME and MINSEQE standards. It includes gene expression data from microarray and high throughput sequencing studies. Gene Expression Atlas contains a subset of curated and re-annotated Archive data which can be queried for individual gene expression under different biological conditions across experiments. The ArrayExpress Archive is one of the three international public repositories of functional genomics data supporting publications. It includes data generated by sequencing or array-based technologies. Data are submitted by users and imported directly from the NCBI Gene Expression Omnibus. The ArrayExpress Archive is closely integrated with the Gene Expression Atlas and the sequence databases at the European Bioinformatics Institute. Advanced queries provided via ontology enabled interfaces include queries based on technology and sample attributes such as disease, cell types and anatomy. The Repository contains data from over 47787 experiments comprising approximately 1361377 assays (March 2014). The majority of the data are array based, but other data types are included, including ultra high-throughput sequencing transcriptomics and epigenetic data. All the data and array designs in ArrayExpress are available for direct download in a number of different formats. Submissions are welcome.

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