Quantitative analysis of flux regulation through hierarchical regulation analysis
| Autor: | van Eunen, Karen, Rossell, Sergio, Bouwman, Jildau, Westerhoff, Hans V., Bakker, Barbara M., Jameson, D, Verma, M, Westerhoff, HV |
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| Přispěvatelé: | Center for Liver, Digestive and Metabolic Diseases (CLDM), Lifestyle Medicine (LM), Jameson, D., Verma, M., Westerhoff, H.V., Molecular Cell Physiology, AIMMS |
| Jazyk: | angličtina |
| Rok vydání: | 2011 |
| Předmět: |
Regulation of gene expression
FORM TRYPANOSOMA-BRUCEI POSTTRANSLATIONAL MODIFICATIONS MESSENGER-RNA DECAY biology GENE-EXPRESSION REGULATION TIME-DEPENDENT REGULATION Systems biology TRANSCRIPTIONAL REGULATION Saccharomyces cerevisiae NITROGEN STARVATION biology.organism_classification SACCHAROMYCES-CEREVISIAE Biochemistry SYSTEMS BIOLOGY Transcriptional regulation METABOLIC-CONTROL ANALYSIS |
| Zdroj: | Vrije Universiteit Amsterdam METHODS IN ENZYMOLOGY, VOL 500, 571-595 STARTPAGE=571;ENDPAGE=595;TITLE=METHODS IN ENZYMOLOGY, VOL 500 van Eunen, K, Rossell, S, Bouwman, J, Westerhoff, H V & Bakker, B M 2011, Quantitative analysis of flux regulation through hierarchical regulation analysis. in D Jameson, M Verma & H V Westerhoff (eds), Methods in Enzymology . Methods in Systems Biology, no. 500, Academic Press, Burlington, pp. 571-595 . Methods in Enzymology, 571-595 STARTPAGE=571;ENDPAGE=595;TITLE=Methods in Enzymology |
| Popis: | Regulation analysis is a methodology that quantifies to what extent a change in the flux through a metabolic pathway is regulated by either gene expression or metabolism. Two extensions to regulation analysis were developed over the past years: (i) the regulation of V(max) can be dissected into the various levels of the gene-expression cascade, such as transcription, translation, protein degradation, etc. and (ii) a time-dependent version allows following flux regulation when cells adapt to changes in their environment. The methodology of the original form of regulation analysis as well as of the two extensions will be described in detail. In addition, we will show what is needed to apply regulation analysis in practice.Studies in which the different versions of regulation analysis were applied revealed that flux regulation was distributed over various processes and depended on time, enzyme, and condition of interest. In the case of the regulation of glycolysis in baker's yeast, it appeared, however, that cells that remain under respirofermentative conditions during a physiological challenge tend to invoke more gene-expression regulation, while a shift between respirofermentative and respiratory conditions invokes an important contribution of metabolic regulation. The complexity of the regulation observed in these studies raises the question what is the advantage of this highly distributed and condition-dependent flux regulation. |
| Databáze: | OpenAIRE |
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