A feed-forward loop guarantees robust behavior in Escherichia coli carbohydrate uptake
Motivation: In Escherichia coli, the phosphoenolpyruvate: carbohydrate phosphotransferase system acts like a sensory element which is able to measure the flux through glycolysis. Since the output of the sensor, the phosphorylated form of protein EIIA, is connected to the activity of the global trans...
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| Veröffentlicht in: | Bioinformatics 2008-03, Vol.24 (5), p.704-710 |
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| creator | Kremling, A. Bettenbrock, K. Gilles, E. D. |
| description | Motivation: In Escherichia coli, the phosphoenolpyruvate: carbohydrate phosphotransferase system acts like a sensory element which is able to measure the flux through glycolysis. Since the output of the sensor, the phosphorylated form of protein EIIA, is connected to the activity of the global transcription factor Crp, the kinetic and structural properties of the system are important for the understanding of the overall cellular behavior. Results: A family of mathematical models is presented, varying with respect to their degree of complexity (number of reactions that are taken into account, number of parameters) that show a structurally and quantitatively robust behavior. The models describe a set of experimental data that relates the output of the sensor to the specific growth rate. A central element that is responsible for the structural robustness is a feed-forward loop in the glycolysis, namely the activation of the pyruvate kinase reaction by a metabolite of the upper part of the glycolysis. The robustness is shown for variations of the measured data as well as for variations of the parameters. Availability: MATLAB files for model simulations are available on http://www.mpi-magdeburg.mpg.de/people/kre/robust/ A short description of the files provided on this site can be found in the Supporting information. Contact: kremling@mpi-magdeburg.mpg.de |
| doi_str_mv | 10.1093/bioinformatics/btn010 |
| format | Article |
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D.</creator><creatorcontrib>Kremling, A. ; Bettenbrock, K. ; Gilles, E. D.</creatorcontrib><description>Motivation: In Escherichia coli, the phosphoenolpyruvate: carbohydrate phosphotransferase system acts like a sensory element which is able to measure the flux through glycolysis. Since the output of the sensor, the phosphorylated form of protein EIIA, is connected to the activity of the global transcription factor Crp, the kinetic and structural properties of the system are important for the understanding of the overall cellular behavior. Results: A family of mathematical models is presented, varying with respect to their degree of complexity (number of reactions that are taken into account, number of parameters) that show a structurally and quantitatively robust behavior. The models describe a set of experimental data that relates the output of the sensor to the specific growth rate. A central element that is responsible for the structural robustness is a feed-forward loop in the glycolysis, namely the activation of the pyruvate kinase reaction by a metabolite of the upper part of the glycolysis. The robustness is shown for variations of the measured data as well as for variations of the parameters. Availability: MATLAB files for model simulations are available on http://www.mpi-magdeburg.mpg.de/people/kre/robust/ A short description of the files provided on this site can be found in the Supporting information. Contact: kremling@mpi-magdeburg.mpg.de</description><identifier>ISSN: 1367-4803</identifier><identifier>EISSN: 1460-2059</identifier><identifier>EISSN: 1367-4811</identifier><identifier>DOI: 10.1093/bioinformatics/btn010</identifier><identifier>PMID: 18187443</identifier><identifier>CODEN: BOINFP</identifier><language>eng</language><publisher>Oxford: Oxford University Press</publisher><subject>Biological and medical sciences ; Carbohydrate Metabolism ; Escherichia coli ; Escherichia coli - growth & development ; Escherichia coli - metabolism ; Fundamental and applied biological sciences. Psychology ; General aspects ; Kinetics ; Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects) ; Models, Theoretical</subject><ispartof>Bioinformatics, 2008-03, Vol.24 (5), p.704-710</ispartof><rights>The Author 2008. Published by Oxford University Press. All rights reserved. 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D.</creatorcontrib><title>A feed-forward loop guarantees robust behavior in Escherichia coli carbohydrate uptake</title><title>Bioinformatics</title><addtitle>Bioinformatics</addtitle><description>Motivation: In Escherichia coli, the phosphoenolpyruvate: carbohydrate phosphotransferase system acts like a sensory element which is able to measure the flux through glycolysis. Since the output of the sensor, the phosphorylated form of protein EIIA, is connected to the activity of the global transcription factor Crp, the kinetic and structural properties of the system are important for the understanding of the overall cellular behavior. Results: A family of mathematical models is presented, varying with respect to their degree of complexity (number of reactions that are taken into account, number of parameters) that show a structurally and quantitatively robust behavior. The models describe a set of experimental data that relates the output of the sensor to the specific growth rate. A central element that is responsible for the structural robustness is a feed-forward loop in the glycolysis, namely the activation of the pyruvate kinase reaction by a metabolite of the upper part of the glycolysis. The robustness is shown for variations of the measured data as well as for variations of the parameters. Availability: MATLAB files for model simulations are available on http://www.mpi-magdeburg.mpg.de/people/kre/robust/ A short description of the files provided on this site can be found in the Supporting information. Contact: kremling@mpi-magdeburg.mpg.de</description><subject>Biological and medical sciences</subject><subject>Carbohydrate Metabolism</subject><subject>Escherichia coli</subject><subject>Escherichia coli - growth & development</subject><subject>Escherichia coli - metabolism</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>General aspects</subject><subject>Kinetics</subject><subject>Mathematics in biology. 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| subjects | Biological and medical sciences Carbohydrate Metabolism Escherichia coli Escherichia coli - growth & development Escherichia coli - metabolism Fundamental and applied biological sciences. Psychology General aspects Kinetics Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects) Models, Theoretical |
| title | A feed-forward loop guarantees robust behavior in Escherichia coli carbohydrate uptake |
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