Yeast glycolytic oscillations that are not controlled by a single oscillophore: A new definition of oscillophore strength.

K.A. Reijenga, Y.M.G.A. van Megen, B.W. Kooi, B.M. Bakker, J.L. Snoep, H.W. van Verseveld, H.V. Westerhoff

Research output: Contribution to JournalArticleAcademicpeer-review

Abstract

Biochemical oscillations, such as glycolytic oscillations, are often believed to be caused by a single so-called 'oscillophore'. The main characteristics of yeast glycolytic oscillations, such as frequency and amplitude, are however controlled by several enzymes. In this paper, we develop a method to quantify to which extent any enzyme determines the occurrence of oscillations. Principles extrapolated from metabolic control analysis are applied to calculate the control exerted by individual enzymes on the real and imaginary parts of the eigenvalues of the Jacobian matrix. We propose that the control exerted by an enzyme on the real part of the smallest eigenvalue, in terms of absolute value, quantifies to which extent that enzyme contributes to the emergence of instability. Likewise the control exerted by an enzyme on the imaginary part of complex eigenvalues may serve to quantify the extent to which that enzyme contributes to the tendency of the system to oscillate. The method was applied both to a core model and to a realistic model of yeast glycolytic oscillations. Both the control over stability and the control over oscillatory tendency were distributed among several enzymes, of which glucose transport, pyruvate decarboxylase and ATP utilization were the most important. The distributions of control were different for stability and oscillatory tendency, showing that control of instability does not imply control of oscillatory tendency nor vice versa. The control coefficients summed up to 1, suggesting the existence of a new summation theorem. These results constitute proof that glycolytic oscillations in yeast are not caused by a single oscillophore and provide a new, subtle, definition for the oscillophore strength of an enzyme. © 2004 Elsevier Ltd. All rights reserved.
Original languageEnglish
Pages (from-to)385-398
JournalJournal of Theoretical Biology
Volume232
DOIs
Publication statusPublished - 2005

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Yeast
oscillation
Yeasts
Enzymes
Oscillation
yeasts
enzymes
Quantify
Pyruvate Decarboxylase
pyruvate decarboxylase
Eigenvalue
Jacobian matrices
Smallest Eigenvalue
Adenosinetriphosphate
Jacobian matrix
Glucose
Absolute value
Summation
Adenosine Triphosphate
glucose

Cite this

@article{006528c177784aed9fec7092008deaf4,
title = "Yeast glycolytic oscillations that are not controlled by a single oscillophore: A new definition of oscillophore strength.",
abstract = "Biochemical oscillations, such as glycolytic oscillations, are often believed to be caused by a single so-called 'oscillophore'. The main characteristics of yeast glycolytic oscillations, such as frequency and amplitude, are however controlled by several enzymes. In this paper, we develop a method to quantify to which extent any enzyme determines the occurrence of oscillations. Principles extrapolated from metabolic control analysis are applied to calculate the control exerted by individual enzymes on the real and imaginary parts of the eigenvalues of the Jacobian matrix. We propose that the control exerted by an enzyme on the real part of the smallest eigenvalue, in terms of absolute value, quantifies to which extent that enzyme contributes to the emergence of instability. Likewise the control exerted by an enzyme on the imaginary part of complex eigenvalues may serve to quantify the extent to which that enzyme contributes to the tendency of the system to oscillate. The method was applied both to a core model and to a realistic model of yeast glycolytic oscillations. Both the control over stability and the control over oscillatory tendency were distributed among several enzymes, of which glucose transport, pyruvate decarboxylase and ATP utilization were the most important. The distributions of control were different for stability and oscillatory tendency, showing that control of instability does not imply control of oscillatory tendency nor vice versa. The control coefficients summed up to 1, suggesting the existence of a new summation theorem. These results constitute proof that glycolytic oscillations in yeast are not caused by a single oscillophore and provide a new, subtle, definition for the oscillophore strength of an enzyme. {\circledC} 2004 Elsevier Ltd. All rights reserved.",
author = "K.A. Reijenga and {van Megen}, Y.M.G.A. and B.W. Kooi and B.M. Bakker and J.L. Snoep and {van Verseveld}, H.W. and H.V. Westerhoff",
year = "2005",
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language = "English",
volume = "232",
pages = "385--398",
journal = "Journal of Theoretical Biology",
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}

Yeast glycolytic oscillations that are not controlled by a single oscillophore: A new definition of oscillophore strength. / Reijenga, K.A.; van Megen, Y.M.G.A.; Kooi, B.W.; Bakker, B.M.; Snoep, J.L.; van Verseveld, H.W.; Westerhoff, H.V.

In: Journal of Theoretical Biology, Vol. 232, 2005, p. 385-398.

Research output: Contribution to JournalArticleAcademicpeer-review

TY - JOUR

T1 - Yeast glycolytic oscillations that are not controlled by a single oscillophore: A new definition of oscillophore strength.

AU - Reijenga, K.A.

AU - van Megen, Y.M.G.A.

AU - Kooi, B.W.

AU - Bakker, B.M.

AU - Snoep, J.L.

AU - van Verseveld, H.W.

AU - Westerhoff, H.V.

PY - 2005

Y1 - 2005

N2 - Biochemical oscillations, such as glycolytic oscillations, are often believed to be caused by a single so-called 'oscillophore'. The main characteristics of yeast glycolytic oscillations, such as frequency and amplitude, are however controlled by several enzymes. In this paper, we develop a method to quantify to which extent any enzyme determines the occurrence of oscillations. Principles extrapolated from metabolic control analysis are applied to calculate the control exerted by individual enzymes on the real and imaginary parts of the eigenvalues of the Jacobian matrix. We propose that the control exerted by an enzyme on the real part of the smallest eigenvalue, in terms of absolute value, quantifies to which extent that enzyme contributes to the emergence of instability. Likewise the control exerted by an enzyme on the imaginary part of complex eigenvalues may serve to quantify the extent to which that enzyme contributes to the tendency of the system to oscillate. The method was applied both to a core model and to a realistic model of yeast glycolytic oscillations. Both the control over stability and the control over oscillatory tendency were distributed among several enzymes, of which glucose transport, pyruvate decarboxylase and ATP utilization were the most important. The distributions of control were different for stability and oscillatory tendency, showing that control of instability does not imply control of oscillatory tendency nor vice versa. The control coefficients summed up to 1, suggesting the existence of a new summation theorem. These results constitute proof that glycolytic oscillations in yeast are not caused by a single oscillophore and provide a new, subtle, definition for the oscillophore strength of an enzyme. © 2004 Elsevier Ltd. All rights reserved.

AB - Biochemical oscillations, such as glycolytic oscillations, are often believed to be caused by a single so-called 'oscillophore'. The main characteristics of yeast glycolytic oscillations, such as frequency and amplitude, are however controlled by several enzymes. In this paper, we develop a method to quantify to which extent any enzyme determines the occurrence of oscillations. Principles extrapolated from metabolic control analysis are applied to calculate the control exerted by individual enzymes on the real and imaginary parts of the eigenvalues of the Jacobian matrix. We propose that the control exerted by an enzyme on the real part of the smallest eigenvalue, in terms of absolute value, quantifies to which extent that enzyme contributes to the emergence of instability. Likewise the control exerted by an enzyme on the imaginary part of complex eigenvalues may serve to quantify the extent to which that enzyme contributes to the tendency of the system to oscillate. The method was applied both to a core model and to a realistic model of yeast glycolytic oscillations. Both the control over stability and the control over oscillatory tendency were distributed among several enzymes, of which glucose transport, pyruvate decarboxylase and ATP utilization were the most important. The distributions of control were different for stability and oscillatory tendency, showing that control of instability does not imply control of oscillatory tendency nor vice versa. The control coefficients summed up to 1, suggesting the existence of a new summation theorem. These results constitute proof that glycolytic oscillations in yeast are not caused by a single oscillophore and provide a new, subtle, definition for the oscillophore strength of an enzyme. © 2004 Elsevier Ltd. All rights reserved.

U2 - 10.1016/j.jtbi.2004.08.019

DO - 10.1016/j.jtbi.2004.08.019

M3 - Article

VL - 232

SP - 385

EP - 398

JO - Journal of Theoretical Biology

JF - Journal of Theoretical Biology

SN - 0022-5193

ER -