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Parameter Estimation for Dynamic Resource Allocation in Microorganisms: A Bi-level Optimization Problem

Abstract : Given their key roles in almost all ecosystems and in several industries, understanding and predicting microorganism growth is of utmost importance. In compliance with evolutionary principles, coarse-grained or genome-scale models of microbial growth can be used to determine optimal resource allocation scheme under dynamic environmental conditions. Resource allocation approaches have given important qualitative results, but it still remains a gap towards quantitiative predictions. The first step in this direction is parameter calibration with experimental data. But fitting these models results in a bi-level optimization problem, whose numerical resolution involves complex optimization issues. As a case study, we present here a coarse-grained model describing how microalgae acclimate to a change in light intensity. We first determine using the Pontryagin maximum principle and numerical simulations the optimal strategy, corresponding to a turnpike with a chattering arc. Then, a bi-level optimization problem is proposed to calibrate the model with experimental data. To solve it, a classical parameter identification routine is used, calling at each iteration the bocop solver to solve the optimal control problem (by a direct method). The calibrated model is able to represent the photoacclimation dynamics of the microalga Dunaliella tertiolecta facing a down-shift of light intensity.
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Contributor : Terence Bayen <>
Submitted on : Monday, August 31, 2020 - 6:25:14 PM
Last modification on : Thursday, September 3, 2020 - 4:12:04 AM
Long-term archiving on: : Tuesday, December 1, 2020 - 1:01:31 PM


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  • HAL Id : hal-02926511, version 1


F. Mairet, Térence Bayen. Parameter Estimation for Dynamic Resource Allocation in Microorganisms: A Bi-level Optimization Problem. International Federation of Automatic Control (IFAC) 2020, Jul 2020, Berlin, Germany. ⟨hal-02926511⟩



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