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Linear control analysis of the autocatalytic glycolysis system
Linear control analysis of the autocatalytic glycolysis system,10.1109/ACC.2009.5159925,Fiona A. Chandra,Gentian Buzi,John C. Doyle
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Linear control analysis of the autocatalytic glycolysis system
(
Citations: 5
)
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Fiona A. Chandra
,
Gentian Buzi
,
John C. Doyle
Autocatalysis is necessary and ubiquitous in both engineered and
biological systems
but can aggravate control performance and cause instability. We analyze the properties of autocatalysis in the universal and well studied glycolytic pathway. A simple twostate model incorporating ATP autocatalysis and inhibitory
feedback control
captures the essential dynamics, including
limit cycle
oscillations, observed experimentally.
System performance
is limited by the inherent autocatalytic stoichiometry and higher levels of autocatalysis exacerbate stability and performance. We show that glycolytic
oscillations
are not merely a ldquofrozen accidentrdquo but a result of the intrinsic stability tradeoffs emerging from the autocatalytic mechanism. This model has pedagogical value as well as appearing to be the simplest and most complete illustration yet of Bode's integral formula.
Conference:
American Control Conference  ACC
, pp. 319324, 2009
DOI:
10.1109/ACC.2009.5159925
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Citation Context
(5)
...In [
1
], the effect of autocatalysis in a glycolytic pathway model is studied by tools from linear control theory...
...In this example, we consider the nominal regulated autocatalytic glycolysis model, which is studied in [
1
], as follows...
Nader Motee
,
et al.
Stability analysis of a class of biological network models
...An example of such a pathway is the glycolysis pathway [1], [
2
], [3]...
Gentian Buzi
,
et al.
Compositional analysis of autocatalytic networks in biology
...We use glycolysis as our motivating example and look at a simplified model of glycolysis previously presented in [
11
]...
...We consider the twostate model from [
11
] with ATP (denoted by variable y) and a lumped intermediate metabolite (denoted by variable x) as states...
Nader Motee
,
et al.
Performance limitations in autocatalytic networks in biology
...Using tools from linear systems theory, our previous work on a simple twostate pathway (figure 2a) showed that autocatalysis can aggravate controller performance [
13
]...
...metabolites. In the topologies we investigate, the plants P have right halfplane (RHP) zeros which introduce theoretical limits on performance captured by a special form of the Bode’s integral formula [
13
],...
...Notice that these limits are exacerbated by smaller magnitude RHP zeros, since it severely penalizes performance in frequencies below z. Reference [
13
] characterizes the limits and the tradeoffs involved for a special form of the twostate model shown in figure 2a. In particular it shows that performance improves as the concentration of the intermediate enzyme increases (higher intermediate reaction rate)...
...As shown in [
13
], high concentration of catalyzing enzymes leads to an increase in the rates of the intermediate reactions (ki), which makes the pathway more stable (i.e., there is a larger range of stable gains available) and increases the magnitude of z (i.e., “softens” the hard limits on performance)...
Gentian Buzi
,
et al.
Topological tradeoffs in autocatalytic metabolic pathways
...Using tools from linear systems theory, our previous work on a simple two dimensional model of glycolysis demonstrated that autocatalysis can aggravate control performance and contribute to instability [
3
]...
...Define the parameter ˆ := +1 h that captures the strength of feedback in the linearized dynamics (see [
3
] for a detailed discussion on ˆ h)...
Gentian Buzi
,
et al.
Quantitative nonlinear analysis of autocatalytic pathways with applica...
References
(16)
Negative feedback and ultrasensitivity can bring about oscillations in the mitogenactivated protein kinase cascades
(
Citations: 231
)
B. N. Kholodenko
Published in 2000.
A kinetic mechanism inducing oscillations in simple chemical reactions networks
(
Citations: 2
)
Julien Coatleven
,
Claudio Altafini
Conference:
Conference on Decision and Control  CDC
, pp. 17711776, 2008
Feedback Systems: An Introduction for Scientists and Engineers
(
Citations: 65
)
Richard M. Murray
Control analysis of glycolytic oscillations
(
Citations: 20
)
Martin Bier
,
Bas Teusink
,
Boris N. Kholodenko
,
Hans V. Westerhoff
Journal:
Biophysical Chemistry  BIOPHYS CHEM
, vol. 62, no. 1, pp. 1524, 1996
SystemsLevel Dissection of the CellCycle Oscillator: Bypassing Positive Feedback Produces Damped Oscillations
(
Citations: 84
)
Joseph R. Pomerening
,
Sun Young Kim
,
James E. Ferrell Jr.
Journal:
Cell
, vol. 122, no. 4, pp. 565578, 2005
Sort by:
Citations
(5)
Stability analysis of a class of biological network models
(
Citations: 2
)
Nader Motee
,
Bassam Bamieh
,
Mustafa Khammash
Published in 2010.
Compositional analysis of autocatalytic networks in biology
(
Citations: 2
)
Gentian Buzi
,
Ufuk Topcu
,
John C. Doyle
Published in 2010.
Performance limitations in autocatalytic networks in biology
(
Citations: 1
)
Nader Motee
,
Fiona Chandra
,
Bassam Bamieh
,
Mustafa Khammash
,
John C. Doyle
Conference:
Conference on Decision and Control  CDC
, pp. 47154720, 2010
Topological tradeoffs in autocatalytic metabolic pathways
Gentian Buzi
,
John Doyle
Conference:
Conference on Decision and Control  CDC
, pp. 46974702, 2010
Quantitative nonlinear analysis of autocatalytic pathways with applications to glycolysis
Gentian Buzi
,
Ufuk Topcu
,
John C. Doyle
Published in 2010.