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| Registros recuperados: 17 | |
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| Mairet, Francis. |
| Homeostasis is the capacity of living organisms to keep internal conditions regulated at a constant level, despite environmental fluctuations. Integral feedback control is known to play a key role in this behaviour. Here, I show that a feedback system involving transcriptional and post-translational regulations of the same executor protein acts as a proportional integral (PI) controller, leading to enhanced transient performances in comparison with a classical integral loop. Such a biomolecular controller-which I call a level and activity-PI controller (LA-PI)-is involved in the regulation of ammonium uptake by Escherichia coli through the transporter AmtB. The P-II molecules, which reflect the nitrogen status of the cell, inhibit both the production of... |
| Tipo: Text |
Palavras-chave: Homeostasis; Perfect adaptation; Regulatory motif; Transcriptional and post-translational regulations. |
| Ano: 2018 |
URL: https://archimer.ifremer.fr/doc/00434/54598/55968.pdf |
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| Mairet, Francis; Baron, Regis. |
| The Droop model allows to represent microalgae growth limited by a nutrient, using a cell quota (also referred to as variable-yield) approach. Single-cell measurements have revealed quota heterogeneity in phytoplankton collected from field studies. Such heterogeneity can be due, among other factors, to spatial structure (e.g. in biogeochemical cycles in the ocean, or for photobioreactors connected in series). Nonetheless, quota heterogeneity is generally omitted in modelling studies, using an average quota approach, or included in size-structured or individual-based models. Here, we propose a distributed Droop equation to tackle this problem, considering subpopulation growth -in line with Droop macroscopic view- rather than cell division dynamics. We... |
| Tipo: Text |
Palavras-chave: Population Balance Model; Variable-yield model; Cell Quota; Phytoplankton; Microalgae. |
| Ano: 2019 |
URL: https://archimer.ifremer.fr/doc/00600/71187/69542.pdf |
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| Nef, Charlotte; Henry, Céline; Nicolau, Elodie; Bérard, Jean-baptiste; Hervé, Fabienne; Caruana, Amandine; Kaas, Raymond; Mairet, Francis; Garnier, Matthieu. |
| Cobalamin (vitamin B12) is a cobalt-containing enzymatic cofactor involved in methionine synthesis. Provided only by select bacteria and archaea in marine systems, this vitamin is known to limit primary production in different oceanic areas. Understanding the consequences of cobalamin limitation on phytoplankton physiology is of great interest, notably for cobalamin-dependent haptophytes that significantly contribute to oceanic carbon fixation and sulfur cycle through dimethyl sulfonio propionate (DMSP) synthesis. Here, the effect of cobalamin limitation was compared to nitrogen limitation on the model haptophyte Tisochrysis lutea grown in chemostats, combining comparative proteomics with the analysis of major macromolecules and specific osmolytes. Our... |
| Tipo: Text |
Palavras-chave: Cobalamin; Vitamin B-12; Haptophyte microalgae; Tisochrysis lutea; DMSP; Chemostat; Comparative proteomics; Metabolism. |
| Ano: 2020 |
URL: https://archimer.ifremer.fr/doc/00654/76575/77711.pdf |
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| Martínez, Carlos; Mairet, Francis; Martinon, Pierre; Bernard, Olivier. |
| Microalgae cultivation with wastewater is a promising way of reducing the energetic needs for wastewater treatment and the costs of biofuel production. However, the very turbid medium is not favorable for the development of microalgae. Indeed, light, the key element for photosynthesis, rapidly vanishes along depth due to absorption and scattering. Therefore it is crucial to understand the effects of the depth on turbid cultures. In this work, we study theoretically the long-term behavior of a continuous culture of microalgae exposed to a periodic source of light. By allowing periodic variations of the depth and the hydraulic retention time, we show that the microalgae population is forced to a periodic regime. Finally, we address numerically the problem of... |
| Tipo: Text |
Palavras-chave: Dynamics and control; Industrial biotechnology; Wastewater; Biomass productivity; Microalgae. |
| Ano: 2019 |
URL: https://archimer.ifremer.fr/doc/00505/61623/65654.pdf |
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| Martinez, Carlos; Mairet, Francis; Bernard, Olivier. |
| The periodically forced light-limited Droop model represents microalgae growth under co-limitation by light and a single substrate, accounting for periodic fluctuations of factors such as light and temperature. In this paper, we describe the global dynamics of this model, considering general monotone growth and uptake rate functions. Our main result gives necessary and sufficient conditions for the existence of a positive periodic solution (i.e. a periodic solution characterized by the presence of microalgae) which is globally attractive. In our approach, we reduce the model to a cooperative planar periodic system. Using results on periodic Kolmogorov equations and on monotone sub-homogeneous dynamical systems, we describe the global dynamics of the... |
| Tipo: Text |
Palavras-chave: Variable quota model; Positive periodic solution; Global stability; Microalgae; Cooperative system. |
| Ano: 2020 |
URL: https://archimer.ifremer.fr/doc/00599/71140/69455.pdf |
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| Demory, David; Combe, Charlotte; Hartmann, Philipp; Talec, Amelle; Pruvost, Eric; Hamouda, Raouf; Souille, Fabien; Lamarea, Pierre-olivier; Bristeau, Marie-odile; Sainte-marie, Jacques; Rabouille, Sophie; Mairet, Francis; Sciandra, Antoine; Bernard, Olivier. |
| Hydrodynamics in a high-rate production reactor for microalgae cultivation affects the light history perceived by cells. The interplay between cell movement and medium turbidity leads to a complex light pattern, whose forcing effects on photosynthesis and photoacclimation dynamics are nontrivial. Hydrodynamics of high density algal ponds mixed by a paddle wheel has been studied recently, although the focus has never been on describing its impact on photosynthetic growth efficiency. In this multidisciplinary downscaling study, we first reconstructed single cell trajectories in an open raceway using an original hydrodynamical model offering a powerful discretization of the Navier-Stokes equations tailored to systems with free surfaces. The trajectory of a... |
| Tipo: Text |
Palavras-chave: Photosynthesis; Hydrodynamics; Modelling; Photoacclimation; Dunaliella salina; Non-photochemical quenching. |
| Ano: 2018 |
URL: https://archimer.ifremer.fr/doc/00445/55692/57352.pdf |
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| Nef, Charlotte; Jung, Sebastien; Mairet, Francis; Kaas, Raymond; Grizeau, Dominique; Garnier, Matthieu. |
| Vitamin B-12 (cobalamin) can control phytoplankton development and community composition, with around half of microalgal species requiring this vitamin for growth. B-12 dependency is determined by the absence of cobalamin-independent methionine synthase and is unrelated across lineages. Despite their important role in carbon and sulphur biogeochemistry, little is known about haptophytes utilization of vitamin B-12 and their ability to cope with its limitation. Here we report the first evaluation of B-12 auxotrophy among this lineage based on molecular data of 19 species from 9 families. We assume that all species encode only a B-12-dependent methionine synthase, suggesting ubiquitous B-12 auxotrophy in this phylum. We further address the effect of... |
| Tipo: Text |
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| Ano: 2019 |
URL: https://archimer.ifremer.fr/doc/00504/61523/65398.pdf |
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| Mairet, Francis; Gouzé, Jean-luc; De Jong, Hidde. |
| Although the effect of temperature on microbial growth has been widely studied, the role of proteome allocation in bringing about temperature-induced changes remains elusive. To tackle this problem, we propose a coarse-grained model of microbial growth, including the processes of temperature-sensitive protein unfolding and chaperone-assisted (re)folding. We determine the proteome sector allocation that maximizes balanced growth rate as a function of nutrient limitation and temperature. Calibrated with quantitative proteomic data for Escherichia coli, the model allows us to clarify general principles of temperature-dependent proteome allocation and formulate generalized growth laws. The same activation energy for metabolic enzymes and ribosomes leads to an... |
| Tipo: Text |
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| Ano: 2021 |
URL: https://archimer.ifremer.fr/doc/00686/79829/82633.pdf |
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| Mairet, Francis; Bayen, Térence. |
| 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... |
| Tipo: Text |
Palavras-chave: Bi-level optimization; Optimal control; Pontryagin’s principle; Chattering; Microbial growth; Microalgae. |
| Ano: 2020 |
URL: https://archimer.ifremer.fr/doc/00690/80163/83228.pdf |
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| Martinez, Carlos; Mairet, Francis; Plaza, Luis; Sciandra, Antoine; Bernard, Olivier. |
| The main resources limiting microalgae growth are typically phosphorus, nitrogen, and light. Based on the theory of the light limited chemostat, the variable cell quota approach, and photoacclimation models, we build a mathematical model for describing microalgae growth under limitation by these resources. The model is calibrated with a data set from the literature. Then, by numerical simulations, we find that under constant operation of the culture and constant environmental conditions (illumination, temperature, pH, etc.), solutions of the model approach towards either a positive or an extinction steady state. Based on the positive steady state, and in the context of wastewater treatment, we evaluate the capacity of microalgae to remove contaminants. We... |
| Tipo: Text |
Palavras-chave: Control; Biotechnology; Wastewater treatment; Microalgae; Cell quota model. |
| Ano: 2019 |
URL: https://archimer.ifremer.fr/doc/00600/71188/69541.pdf |
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| Martinez, Carlos; Mairet, Francis; Bernard, Olivier. |
| Microalgae can be cultivated in closed or open photobioreactors (PBR). In these systems, light rapidly decreases as it passes through the culture due to the turbidity of the medium. Thus, microalgae experiment different light intensities depending on their position in the medium. In this paper, we study theoretically how the growth rate of microalgae is affected by different factors; incident light intensity, form of the PBR, microalgae population density, turbidity of non-microalgae components, and light path-length of the reactor. We show that for different types of PBR the average growth rate is completely determined by the incident light intensity and the optical depth. In the case of vertical cylindrical PBRs illuminated from above (e.g. race-way or... |
| Tipo: Text |
Palavras-chave: Photobioreactor; Optical depth; Photoinhibition; Light limitation; Turbidity; Modelling. |
| Ano: 2018 |
URL: https://archimer.ifremer.fr/doc/00450/56133/57675.pdf |
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| Mairet, Francis; Bernard, Olivier. |
| Because of the inherent complexity of bioprocesses, mathematical models are more and more used for process design, control, optimization, etc. These models are generally based on a set of biochemical reactions. Model equations are then derived from mass balance, coupled with empirical kinetics. Biological models are nonlinear and represent processes, which by essence are dynamic and adaptive. The temptation to embed most of the biology is high, with the risk that calibration would not be significant anymore. The most important task for a modeler is thus to ensure a balance between model complexity and ease of use. Since a model should be tailored to the objectives, which will depend on applications and environment, a universal model representing any... |
| Tipo: Text |
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| Ano: 2019 |
URL: https://archimer.ifremer.fr/doc/00512/62336/66596.pdf |
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| Registros recuperados: 17 | |
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