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Dynamical analysis and optimization of a generalized resource allocation model of microbial growth

Agustín Gabriel Yabo 1, 2, 3 Jean-Baptiste Caillau 1, 4, 3 Jean-Luc Gouzé 2, 1 Hidde de Jong 5 Francis Mairet 6
2 BIOCORE - Biological control of artificial ecosystems
CRISAM - Inria Sophia Antipolis - Méditerranée , LOV - Laboratoire d'océanographie de Villefranche, INRAE - Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement
3 McTAO - Mathematics for Control, Transport and Applications
CRISAM - Inria Sophia Antipolis - Méditerranée
5 MICROCOSME - Analyse, ingénierie et contrôle des micro-organismes
Inria Grenoble - Rhône-Alpes, UGA - Université Grenoble Alpes
Abstract : Gaining a better comprehension of the growth of microorganisms is a major scientific challenge, which has often been approached from a resource allocation perspective. Simple mathematical self-replicator models based on resource allocation principles have been surprisingly effective in accounting for experimental observations of the growth of microorganisms. Previous work, using a three-variable resource allocation model, predicted an optimal resource allocation scheme for the adaptation of microbial cells to a sudden nutrient change in the environment. We here propose an extended version of this model considering also proteins responsible for basic housekeeping functions, and we study their impact on predicted optimal strategies for resource allocation following changes in the environment. A full dynamical analysis of the system shows there is a single globally attractive equilibrium, which can be related to steady-state growth conditions of bacteria observed in experiments. We then explore the optimal allocation strategies using optimization and optimal control theory. We show that the solutions to this dynamical problem have a complicated structure that includes a second-order singular arc given in feedback form, and characterized by i) Fuller's phenomenon, and ii) the turnpike effect, producing a very particular asymptotic behaviour towards the solution of the static optimization problem. Our work thus provides a generalized perspective on the analysis of microbial growth by means of simple self-replicator models.
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Submitted on : Saturday, June 5, 2021 - 8:33:43 PM
Last modification on : Thursday, March 17, 2022 - 2:00:17 PM
Long-term archiving on: : Monday, September 6, 2021 - 6:09:09 PM

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Agustín Gabriel Yabo, Jean-Baptiste Caillau, Jean-Luc Gouzé, Hidde de Jong, Francis Mairet. Dynamical analysis and optimization of a generalized resource allocation model of microbial growth. SIAM Journal on Applied Dynamical Systems, Society for Industrial and Applied Mathematics, 2022, 21 (1), pp.137-165. ⟨10.1137/21M141097X⟩. ⟨hal-03251044⟩

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