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Mol Biosyst. 2012 Jun;8(6):1760-74. doi: 10.1039/c2mb05443d. Epub 2012 Apr 11.

Short- and long-term dynamic responses of the metabolic network and gene expression in yeast to a transient change in the nutrient environment.

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Department of Chemical Engineering, Bogazici University, Istanbul, Turkey.


Quantitative data on the dynamic changes in the transcriptome and the metabolome of yeast in response to an impulse-like perturbation in nutrient availability was integrated with the metabolic pathway information in order to elucidate the long-term dynamic re-organization of the cells. This study revealed that, in addition to the dynamic re-organization of the de novo biosynthetic pathways, salvage pathways were also re-organized in a time-dependent manner upon catabolite repression. The transcriptional and the metabolic responses observed for nitrogen catabolite repression were not as severe as those observed for carbon catabolite repression. Selective up- or down regulation of a single member of a paralogous gene pair during the response to the relaxation from nutritional limitation was identified indicating a differentiation of functions among paralogs. Our study highlighted the role of inosine accumulation and recycling in energy homeostasis and indicated possible bottlenecks in the process.

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