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A PDMP model of the epithelial cell turn-over in the intestinal crypt including microbiota-derived regulations

hal.structure.identifierMathématiques et Informatique Appliquées du Génome à l'Environnement [Jouy-En-Josas] [MaIAGE]
hal.structure.identifierBiology, genetics and statistics [BIGS]
dc.contributor.authorDARRIGADE, Léo
hal.structure.identifierMathématiques et Informatique Appliquées du Génome à l'Environnement [Jouy-En-Josas] [MaIAGE]
hal.structure.identifierDynamiques de populations multi-échelles pour des systèmes physiologiques [MUSCA]
dc.contributor.authorHAGHEBAERT, Marie
hal.structure.identifierMICrobiologie de l'ALImentation au Service de la Santé [MICALIS]
dc.contributor.authorCHERBUY, Claire
hal.structure.identifierPleiade, from patterns to models in computational biodiversity and biotechnology [PLEIADE]
hal.structure.identifierBiodiversité, Gènes & Communautés [BioGeCo]
hal.structure.identifierMathématiques et Informatique Appliquées du Génome à l'Environnement [Jouy-En-Josas] [MaIAGE]
dc.contributor.authorLABARTHE, Simon
hal.structure.identifierMathématiques et Informatique Appliquées du Génome à l'Environnement [Jouy-En-Josas] [MaIAGE]
hal.structure.identifierDynamiques de populations multi-échelles pour des systèmes physiologiques [MUSCA]
dc.contributor.authorLAROCHE, Beatrice
dc.date.accessioned2022-10-12T12:01:06Z
dc.date.available2022-10-12T12:01:06Z
dc.date.issued2022-06
dc.identifier.issn0303-6812
dc.identifier.urihttps://oskar-bordeaux.fr/handle/20.500.12278/155647
dc.description.abstractEnHuman health and physiology is strongly influenced by interactions between human cells and intestinal microbiota in the gut. In mammals, the host-microbiota crosstalk is mainly mediated by regulations at the intestinal crypt level: the epithelial cell turnover in crypts is directly influenced by metabolites produced by the microbiota. Conversely, enterocytes maintain hypoxia in the gut, favorable to anaerobic bacteria which dominate the gut microbiota. We constructed an individual-based model of epithelial cells interacting with the microbiota-derived chemicals diffusing in the crypt lumen. This model is formalized as a piecewise deterministic Markov process (PDMP). It accounts for local interactions due to cell contact (among which are mechanical interactions), for cell proliferation, differentiation and extrusion which are regulated spatially or by chemicals concentrations. It also includes chemicals diffusing and reacting with cells. A deterministic approximated model is also introduced for a large population of small cells, expressed as a system of porous media type equations. Both models are extensively studied through numerical exploration. Their biological relevance is thoroughly assessed by recovering bio-markers of an healthy crypt, such as cell population distribution along the crypt or population turn-over rates. Simulation results from the deterministic model are compared to the PMDP model and we take advantage of its lower computational cost to perform a sensitivity analysis by Morris method. We finally use the crypt model to explore butyrate supplementation to enhance recovery after infections by enteric pathogens.
dc.language.isoen
dc.publisherSpringer Verlag (Germany)
dc.subject.enPiecewise Deterministic Markov Processes
dc.subject.enPorous Media Equation
dc.subject.enCrypt model
dc.subject.enHost-microbiota interactions
dc.title.enA PDMP model of the epithelial cell turn-over in the intestinal crypt including microbiota-derived regulations
dc.typeArticle de revue
dc.identifier.doi10.1007/s00285-022-01766-8
dc.subject.halInformatique [cs]/Modélisation et simulation
dc.subject.halMathématiques [math]/Equations aux dérivées partielles [math.AP]
bordeaux.journalJournal of Mathematical Biology
bordeaux.page1-67
bordeaux.volume84
bordeaux.hal.laboratoriesBioGeCo (Biodiversité Gènes & Communautés) - UMR 1202*
bordeaux.issue7
bordeaux.institutionUniversité de Bordeaux
bordeaux.institutionINRAE
bordeaux.peerReviewedoui
hal.identifierhal-03702825
hal.version1
hal.origin.linkhttps://hal.archives-ouvertes.fr//hal-03702825v1
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