Literature DB >> 34825985

On the Validity of the Stochastic Quasi-Steady-State Approximation in Open Enzyme Catalyzed Reactions: Timescale Separation or Singular Perturbation?

Justin Eilertsen1,2, Santiago Schnell3,4,5.   

Abstract

The quasi-steady-state approximation is widely used to develop simplified deterministic or stochastic models of enzyme catalyzed reactions. In deterministic models, the quasi-steady-state approximation can be mathematically justified from singular perturbation theory. For several closed enzymatic reactions, the homologous extension of the quasi-steady-state approximation to the stochastic regime, known as the stochastic quasi-steady-state approximation, has been shown to be accurate under the analogous conditions that permit the quasi-steady-state reduction in the deterministic counterpart. However, it was recently demonstrated that the extension of the stochastic quasi-steady-state approximation to an open Michaelis-Menten reaction mechanism is only valid under a condition that is far more restrictive than the qualifier that ensures the validity of its corresponding deterministic quasi-steady-state approximation. In this paper, we suggest a possible explanation for this discrepancy from the lens of geometric singular perturbation theory. In so doing, we illustrate a misconception in the application of the quasi-steady-state approximation: timescale separation does not imply singular perturbation.
© 2021. The Author(s), under exclusive licence to Society for Mathematical Biology.

Entities:  

Keywords:  Fenichel theory; Langevin equation; Linear noise approximation; Michaelis–Menten reaction mechanism; Quasi-steady-state approximation; Singular perturbation; Slow scale linear noise approximation; Stochastic process; Tikhonov’s theorem

Mesh:

Substances:

Year:  2021        PMID: 34825985      PMCID: PMC8768927          DOI: 10.1007/s11538-021-00966-5

Source DB:  PubMed          Journal:  Bull Math Biol        ISSN: 0092-8240            Impact factor:   1.758


  18 in total

1.  Quasi-steady state assumptions for non-isolated enzyme-catalysed reactions.

Authors:  I Stoleriu; F A Davidson; J L Liu
Journal:  J Math Biol       Date:  2003-08-20       Impact factor: 2.259

2.  Communication: limitations of the stochastic quasi-steady-state approximation in open biochemical reaction networks.

Authors:  Philipp Thomas; Arthur V Straube; Ramon Grima
Journal:  J Chem Phys       Date:  2011-11-14       Impact factor: 3.488

3.  Stochastic chemical kinetics and the total quasi-steady-state assumption: application to the stochastic simulation algorithm and chemical master equation.

Authors:  Shev Macnamara; Alberto M Bersani; Kevin Burrage; Roger B Sidje
Journal:  J Chem Phys       Date:  2008-09-07       Impact factor: 3.488

4.  Legitimacy of the stochastic Michaelis-Menten approximation.

Authors:  K R Sanft; D T Gillespie; L R Petzold
Journal:  IET Syst Biol       Date:  2011-01       Impact factor: 1.615

5.  Rigorous elimination of fast stochastic variables from the linear noise approximation using projection operators.

Authors:  Philipp Thomas; Ramon Grima; Arthur V Straube
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2012-10-08

6.  On the precision of quasi steady state assumptions in stochastic dynamics.

Authors:  Animesh Agarwal; Rhys Adams; Gastone C Castellani; Harel Z Shouval
Journal:  J Chem Phys       Date:  2012-07-28       Impact factor: 3.488

7.  The validity of quasi-steady-state approximations in discrete stochastic simulations.

Authors:  Jae Kyoung Kim; Krešimir Josić; Matthew R Bennett
Journal:  Biophys J       Date:  2014-08-05       Impact factor: 4.033

8.  Analysis of the quasi-steady-state approximation for an enzymatic one-substrate reaction.

Authors:  M Schauer; R Heinrich
Journal:  J Theor Biol       Date:  1979-08-21       Impact factor: 2.691

9.  Beyond the Michaelis-Menten equation: Accurate and efficient estimation of enzyme kinetic parameters.

Authors:  Boseung Choi; Grzegorz A Rempala; Jae Kyoung Kim
Journal:  Sci Rep       Date:  2017-12-05       Impact factor: 4.379

10.  The relationship between stochastic and deterministic quasi-steady state approximations.

Authors:  Jae Kyoung Kim; Krešimir Josić; Matthew R Bennett
Journal:  BMC Syst Biol       Date:  2015-11-23
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