Impact of the solvent capacity constraint on E. coli metabolism.

BMC Systems Biology
Alexei VazquezZoltan N Oltvai

Abstract

Obtaining quantitative predictions for cellular metabolic activities requires the identification and modeling of the physicochemical constraints that are relevant at physiological growth conditions. Molecular crowding in a cell's cytoplasm is one such potential constraint, as it limits the solvent capacity available to metabolic enzymes. Using a recently introduced flux balance modeling framework (FBAwMC) here we demonstrate that this constraint determines a metabolic switch in E. coli cells when they are shifted from low to high growth rates. The switch is characterized by a change in effective optimization strategy, the excretion of acetate at high growth rates, and a global reorganization of E. coli metabolic fluxes, the latter being partially confirmed by flux measurements of central metabolic reactions. These results implicate the solvent capacity as an important physiological constraint acting on E. coli cells operating at high metabolic rates and for the activation of a metabolic switch when they are shifted from low to high growth rates. The relevance of this constraint in the context of both the aerobic ethanol excretion seen in fast growing yeast cells (Crabtree effect) and the aerobic glycolysis observed in rapidly d...Continue Reading

References

Jan 1, 1983·Proceedings of the National Academy of Sciences of the United States of America·B Lee
Feb 17, 1999·FEMS Microbiology Reviews·P J Kiley, H Beinert
Dec 26, 2001·Nucleic Acids Research·Ida SchomburgDietmar Schomburg
Jun 25, 2002·Biophysical Journal·Daniel A BeardHong Qian
Nov 5, 2002·Proceedings of the National Academy of Sciences of the United States of America·Daniel SegrèGeorge M Church
Jan 7, 2004·Biotechnology and Bioengineering·Markus W CovertBernhard O Palsson
Jan 22, 2004·Nature Reviews. Genetics·Albert-László Barabási, Zoltán N Oltvai
Jun 15, 2004·Current Opinion in Structural Biology·Vassily HatzimanikatisLinda J Broadbelt
Oct 21, 2004·Nature Reviews. Microbiology·Nathan D PriceBernhard Ø Palsson
Mar 10, 2005·Microbiology and Molecular Biology Reviews : MMBR·Alan J Wolfe
Nov 22, 2005·Biophysical Journal·Christopher S HenryVassily Hatzimanikatis
Jul 11, 2006·Journal of Cell Science·Allen P Minton
Feb 9, 2007·Proceedings of the National Academy of Sciences of the United States of America·G N VemuriJ Nielsen
Jun 7, 2007·Journal of Bioenergetics and Biomembranes·Zhao ChenPeng Huang
Jul 27, 2007·Proceedings of the National Academy of Sciences of the United States of America·Q K BegZ N Oltvai

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Citations

Jun 10, 2008·Nature Biotechnology·Adam M Feist, Bernhard Ø Palsson
Sep 3, 2011·Nature Protocols·Jan SchellenbergerBernhard Ø Palsson
Jul 17, 2010·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Adrián López García De LomanaJordi Villà-Freixa
May 13, 2010·BMC Systems Biology·Alexei VazquezZoltán N Oltvai
Mar 27, 2012·BMC Systems Biology·Milan J A van Hoek, Roeland M H Merks
Aug 10, 2013·BMC Systems Biology·Ali EbrahimDaniel R Hyduke
Sep 8, 2012·PLoS Computational Biology·Jennifer L Reed
Jul 20, 2010·Current Opinion in Biotechnology·Ross P Carlson, Reed L Taffs
Feb 23, 2010·Journal of Theoretical Biology·Alexei Vazquez
Dec 25, 2015·Cancer & Metabolism·Elke Katrin Markert, Alexei Vazquez
May 28, 2009·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·David S Thaler
Aug 20, 2009·Molecular Systems Biology·Jie YuanJoshua D Rabinowitz
Nov 6, 2009·Molecular Systems Biology·Douwe MolenaarBas Teusink
Jun 23, 2011·Molecular Systems Biology·Kai ZhuangRadhakrishnan Mahadevan
Dec 7, 2011·Journal of Internal Medicine·A Bordbar, B O Palsson
Nov 30, 2011·Biotechnology Journal·Hyun Uk KimSang Yup Lee
May 2, 2013·Molecular Systems Biology·Douglas McCloskeyAdam M Feist
Aug 21, 2015·Journal of the Royal Society, Interface·Oriol GüellM Ángeles Serrano
Apr 19, 2015·BMC Systems Biology·John A ColeZaida Luthey-Schulten
Jun 22, 2011·Biochimica Et Biophysica Acta·A Goelzer, V Fromion
Apr 19, 2015·BMC Systems Biology·André Schultz, Amina A Qutub
Dec 3, 2014·Journal of Theoretical Biology·Steffen WaldherrAlexander Bockmayr
Dec 4, 2013·Journal of Theoretical Biology·Stefan MüllerRalf Steuer
Feb 6, 2015·Frontiers in Bioengineering and Biotechnology·Robert L Burnap
Oct 27, 2015·Metabolic Engineering·Anne GoelzerVincent Fromion
Nov 28, 2013·Cancer & Metabolism·Sonia C DolfiAlexei Vazquez
May 21, 2015·PloS One·Armin S Khonsari, Markus Kollmann
Aug 4, 2016·Scientific Reports·Alexei Vazquez, Zoltán N Oltvai
Jun 30, 2016·PLoS Computational Biology·Matteo MoriEnzo Marinari
May 16, 2017·PLoS Computational Biology·Siu Hung Joshua ChanCostas D Maranas
May 27, 2014·Applied and Environmental Microbiology·A MetrisJ Baranyi
Jul 9, 2017·Biochemical Society Transactions·Anne Goelzer, Vincent Fromion
Nov 1, 2015·Molecular Systems Biology·Markus BasanTerence Hwa

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Methods Mentioned

BETA
NMR

Software Mentioned

mass isotopomer analysis ( MIDA )
FBAwMC
BRENDA

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