A feed-forward loop guarantees robust behavior in Escherichia coli carbohydrate uptake

Bioinformatics
A KremlingErnst Dieter Gilles

Abstract

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. 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. 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 th...Continue Reading

References

Jun 26, 1997·Nature·N Barkai, S Leibler
Aug 31, 2002·Biophysical Journal·Radhakrishnan MahadevanFrancis J Doyle
Nov 15, 2002·Nature·Jörg StellingErnst Dieter Gilles
Mar 3, 2004·Biophysical Journal·Moisés Santillán, Michael C Mackey
Nov 3, 2005·The Journal of Biological Chemistry·Katja BettenbrockErnst-Dieter Gilles
Jun 27, 2007·Biotechnology and Bioengineering·Christophe ChassagnoleMatthias Reuss
Sep 15, 2007·BMC Systems Biology·Andreas KremlingErnst Dieter Gilles

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Citations

Jan 2, 2013·Proceedings of the National Academy of Sciences of the United States of America·Karl KochanowskiMatthias Heinemann
Jan 8, 2009·Bioinformatics·Oliver Kotte, Matthias Heinemann
Apr 24, 2010·Algorithms for Molecular Biology : AMB·Pierre-Yves BourguignonOlivier C Martin
Sep 2, 2009·BMC Systems Biology·Javier MacíaRicard Solé
Nov 8, 2012·PLoS Computational Biology·Maja Skataric, Eduardo D Sontag
Dec 17, 2009·IET Systems Biology·E D Sontag
Jul 4, 2012·Biochimica Et Biophysica Acta·Tomoaki YamamotoyaHiroshi Matsuno
May 24, 2011·Current Opinion in Biotechnology·Luca Gerosa, Uwe Sauer
Mar 12, 2010·Current Opinion in Microbiology·Matthias Heinemann, Uwe Sauer
Jul 16, 2015·Current Opinion in Chemical Biology·Chiam Yu NgCostas D Maranas
Dec 18, 2008·The FEBS Journal·Andreas KremlingKatja Bettenbrock
Mar 10, 2010·Molecular Systems Biology·Oliver KotteMatthias Heinemann
Jan 9, 2015·IET Systems Biology·Maja SkataricEduardo D Sontag
Jul 6, 2012·Journal of Theoretical Biology·Andreas Kremling, Dietrich Flockerzi
Jan 1, 2012·Metabolites·Nikolaus SonnenscheinMarc-Thorsten Hütt
Jan 1, 2012·Metabolites·Andreas KremlingKatja Bettenbrock
Feb 10, 2016·The Journal of Biological Chemistry·Tahel NoyJohn S Blanchard
Apr 23, 2019·Metabolic Engineering Communications·Joseph A WaymanJeffrey D Varner

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