Project-Team Modemic
Members
Overall Objectives
Research Program
Application Domains
Highlights of the Year
New Software and Platforms
New Results
Partnerships and Cooperations
Dissemination
Bibliography
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Bibliography

Major publications by the team in recent years
  • 1B. Benyahia, T. Sari, B. Cherki, J. Harmand.
    Anaerobic Membrane BioReactor modeling in the presence of Soluble Microbial Products (SMP) - the Anaerobic Model AM2b, in: Chemical Engineering Journal, 2013, vol. 228, pp. 1011-1022, aeres : ACL. [ DOI : 10.1016/j.cej.2013.05.073 ]
    http://hal.inria.fr/hal-00859541
  • 2F. Campillo, C. Lobry.
    Effect of population size in a predator-prey model, in: Ecological Modelling, August 2012, vol. 246, pp. 1-10. [ DOI : 10.1016/j.ecolmodel.2012.07.015 ]
    https://hal.inria.fr/hal-00723793
  • 3A. Charfi, N. Ben Amar, J. Harmand.
    Analysis of fouling mechanisms in anaerobic membrane bioreactors, in: Water Research, 2012, vol. 46, pp. 2637-2650, aeres : ACL.
    https://hal.inria.fr/hal-00859550
  • 4D. Dochain, A. Rapaport, J. Harmand.
    Long run coexistence in the chemostat with multiple species, in: Journal of Theoretical Biology, March 2009, vol. 257, no 2, pp. 252-259. [ DOI : 10.1016/j.jtbi.2008.11.015 ]
    https://hal.inria.fr/hal-01092009
  • 5M. Dumont, J. Harmand, A. Rapaport, J.-J. Godon.
    Towards functional molecular fingerprints, in: Environmental Microbiology, 2009, vol. 11, pp. 1717-1727, aeres : ACL. [ DOI : 10.1111/j.1462-2920.2009.01898.x ]
    https://hal.inria.fr/hal-00858540
  • 6R. Fekih-Salem, J. Harmand, C. Lobry, A. Rapaport, T. Sari.
    Extension of the chemostat model with flocculation, in: Journal of Mathematical Analysis and applications, 2013, vol. 397, no 1, pp. 292-306. [ DOI : 10.1016/j.jmaa.2012.07.055 ]
    http://hal.inria.fr/hal-00777539
  • 7B. Jaillard, A. Rapaport, J. Harmand, A. Brauman, N. Nunan.
    Community assembly effects shape the biodiversity ecosystem functioning relationships, in: Functional Ecology, 2014, vol. 28, no 6, pp. 1523-1533. [ DOI : 10.1111/1365-2435.12267 ]
    https://hal.inria.fr/hal-00937779
  • 8C. Lobry, J. Harmand.
    A new hypothesis to explain the coexistence of n species in the presence of a single resource, in: Comptes Rendus Biologies, 2006, vol. 329, no 1, pp. 40-46. [ DOI : 10.1016/j.crvi.2005.10.004 ]
    https://hal.archives-ouvertes.fr/hal-01001131
  • 9N. Mabrouk, G. Deffuant, T. Tolker-Nielsen, C. Lobry.
    Bacteria can form interconnected microcolonies when a self-excreted product reduces their surface motility: evidence from individual-based model simulations, in: Theorie in den Biowissenschaften / Theory in Biosciences, June 2010, vol. 129, no 1, pp. 1-13. [ DOI : 10.1007/s12064-009-0078-8 ]
    https://hal.inria.fr/hal-01091999
  • 10A. Rapaport, I. Haidar, J. Harmand.
    Global dynamics of the buffered chemostat for a general class of response functions, in: Journal of Mathematical Biology, 2014, 30 p. [ DOI : 10.1007/s00285-014-0814-7 ]
    https://hal.inria.fr/hal-00923826
Publications of the year

Doctoral Dissertations and Habilitation Theses

Articles in International Peer-Reviewed Journals

  • 14G. Araujo Pimentel, A. Vande Wouwer, J. Harmand, A. Rapaport.
    Design, Analysis and Validation of a Simple Dynamic Model of a Submerged Membrane Bioreactor, in: Water Research, March 2015, vol. 70, pp. 97-108. [ DOI : 10.1016/j.watres.2014.11.043 ]
    https://hal.inria.fr/hal-01087630
  • 15R. Arditi, C. Lobry, T. Sari.
    Is dispersal always beneficial to carrying capacity? New insights from the multi-patch logistic equation, in: Theoretical Population Biology, October 2015, vol. 106, pp. 45-59. [ DOI : 10.1016/j.tpb.2015.10.001 ]
    https://hal.inria.fr/hal-01235210
  • 16T. Babey, J.-R. De Dreuzy, C. Casenave.
    Multi-Rate Mass Transfer (MRMT) models for general diffusive porosity structures, in: Advances in Water Resources, 2015, vol. 76, pp. 146-156. [ DOI : 10.1016/j.advwatres.2014.12.006 ]
    https://hal.inria.fr/hal-01102049
  • 17S. Barbier, A. Rapaport, A. Rousseau.
    Modelling of biological decontamination of a water resource in natural environment and related feedback strategies, in: Journal of Scientific Computing, 2016.
    https://hal.inria.fr/hal-01138335
  • 18T. Bayen, F. Mairet, P. Martinon, M. Sebbah.
    Analysis of a periodic optimal control problem connected to microalgae anaerobic digestion, in: Optimal Control Applications and Methods, November 2015, 24 p. [ DOI : 10.1002/oca.2127 ]
    https://hal.archives-ouvertes.fr/hal-00860570
  • 19T. Bayen, M. Mazade, F. Mairet.
    Analysis of an optimal control problem connected to bioprocesses involving a saturated singular arc, in: Discrete and Continuous Dynamical Systems - Series B, January 2015, vol. 20, no 1, pp. 39-58. [ DOI : 10.3934/dcdsb.2015.20.39 ]
    https://hal.archives-ouvertes.fr/hal-00879385
  • 20T. Bayen, A. Rapaport.
    About Moreau-Yosida regularization of the minimal time crisis problem, in: Journal of Convex Analysis, 2016, vol. 23, no 1, 19 p.
    https://hal.inria.fr/hal-01174135
  • 21M. Benaïm, B. Cloez.
    A stochastic approximation approach to quasi-stationary distributions on finite spaces, in: Electronic Communications in Probability, January 2015, vol. 20, no 37, pp. 1-14. [ DOI : 10.1214/ECP.v20-3956 ]
    https://hal.inria.fr/hal-01185942
  • 22A. Charfi, Y. Yang, J. Harmand, N. Ben Amar, M. Heran, A. Grasmick.
    Soluble microbial products and suspended solids influence in membrane fouling dynamics and interest of punctual relaxation and/or backwashing, in: Journal of Membrane Science, 2015, vol. 475, no 0, pp. 156-166. [ DOI : 10.1016/j.memsci.2014.09.059 ]
    https://hal.archives-ouvertes.fr/hal-01159247
  • 23A. Courties, T. Riedel, A. Rapaport, P. Lebaron, M. Suzuki.
    Light-driven increase in carbon yield is linked to maintenance in the proteorhodopsin-containing Photobacterium angustum S14, in: Frontiers in microbiology, July 2015. [ DOI : 10.3389/fmicb.2015.00688 ]
    http://hal.upmc.fr/hal-01228516
  • 24C. Fritsch, J. Harmand, F. Campillo.
    A modeling approach of the chemostat, in: Ecological Modelling, March 2015, pp. 1-13. [ DOI : 10.1016/j.ecolmodel.2014.11.021 ]
    https://hal.inria.fr/hal-01090651
  • 25A. Ghouali, T. Sari, J. Harmand.
    Maximizing biogas production from the anaerobic digestion, in: Journal of Process Control, December 2015, vol. 36, pp. 79-88. [ DOI : 10.1016/j.jprocont.2015.09.007 ]
    https://hal.archives-ouvertes.fr/hal-01243657
  • 26S. Hassam, E. Ficara, A. Leva, J. Harmand.
    A generic and systematic procedure to derive a simplified model from the anaerobic digestion model No. 1 (ADM1), in: Biochemical Engineering Journal, July 2015, vol. 99. [ DOI : 10.1016/j.bej.2015.03.007 ]
    https://hal.archives-ouvertes.fr/hal-01243661
  • 27C. Lobry, T. Sari.
    Migrations in the Rosenzweig-MacArthur model and the "atto-fox" problem, in: Revue Africaine de la Recherche en Informatique et Mathématiques Appliquées, 2015, vol. 20, pp. 95-125.
    https://hal.inria.fr/hal-01235211
  • 28E. Montseny, C. Casenave.
    Analysis, simulation and impedance operator of a nonlocal model of porous medium for acoustic control, in: Journal of Vibration and Control, April 2015, vol. 21, no 5, pp. 1012-1028. [ DOI : 10.1177/1077546313493815 ]
    https://hal.archives-ouvertes.fr/hal-00854312
  • 29A. Rapaport, T. Bayen, M. Sebbah, A. Donoso-Bravo, A. Torrico.
    Dynamical modelling and optimal control of landfills, in: Mathematical Models and Methods in Applied Sciences, 2016, vol. 26, no 3. [ DOI : 10.1142/S0218202516500214 ]
    https://hal.inria.fr/hal-01230162
  • 30A. Rapaport, I. Haidar, J. Harmand.
    Global dynamics of the buffered chemostat for a general class of response functions, in: Journal of Mathematical Biology, July 2015, vol. 71, no 1, pp. 69-98. [ DOI : 10.1007/s00285-014-0814-7 ]
    https://hal.inria.fr/hal-00923826
  • 31M. J. Wade, J. Harmand, B. BENYAHIA, T. Bouchez, S. Chaillou, B. Cloez, J.-J. Godon, C. Lobry, B. Moussa Boubjemaa, A. Rapaport, T. Sari, R. Arditi.
    Perspectives in Mathematical Modelling for Microbial Ecology, in: Ecological Modelling, February 2016, vol. 321, no 64-74. [ DOI : 10.1016/j.ecolmodel.2015.11.002 ]
    https://hal.inria.fr/hal-01227423

Invited Conferences

  • 32A. Rapaport.
    Apport de la modélisation et des simulations numériques pour l'écologie microbienne, in: Septième École Interdisciplinaire de Rennes sur les Systèmes Complexes, Rennes, France, October 2015.
    https://hal.inria.fr/hal-01216801

International Conferences with Proceedings

  • 33G. Araujo Pimentel, M. Dalmau, A. Vargas, J. Comas, I. Rodriguez-Roda, A. Rapaport, A. Wouwer Vande.
    Validation of a simple fouling model for submerged membrane bioreactor, in: MATHMOD 2015 - 8th Vienna International Conference on Mathematical Modelling, Vienna, Austria, February 2015.
    https://hal.inria.fr/hal-01132139
  • 34G. Araujo Pimentel, A. Rapaport, A. Vande Wouwer.
    Nonlinear Model Predictive Control of a Wastewater Treatment Process Fitted with a Submerged Membrane Bioreactor, in: International Symposium on Advanced Control of Chemical Processes (ADCHEM 2015), Whistler, British Columbia, Canada, June 2015, pp. 1247-1252.
    https://hal.inria.fr/hal-01154418
  • 35Y. Daoud, N. Abdellatif, J. Harmand.
    Analyse mathématiques de modèles de digestion anaérobie avec phase d'hydrolyse, in: TAMTAM'15, Tanger, Morocco, May 2015.
    https://hal.archives-ouvertes.fr/hal-01250345
  • 36Z. Khedim, J. Harmand, B. Benyahia, S. Hassam.
    Anaerobic digestion models for control purposes: a short survey, in: AD14 World Congress on Anaerobic Digestion, Vina del Mare, Chile, November 2015.
    https://hal.archives-ouvertes.fr/hal-01243689

Conferences without Proceedings

  • 37T. Bayen, A. Rapaport.
    Necessary Optimality Conditions for the Time of Crisis Control Problem, in: SIAM Conference on Control & Applications CT15, Paris, France, July 2015.
    https://hal.inria.fr/hal-01154433
  • 38A. Courties, T. Riedel, A. Rapaport, M. Niesldottir, J. Caparros, P. Catala, C. Salmeron, N. Batailler, P. Lebaron, M. Suzuki.
    Light-driven increase in C yield is linked to maintenance in the proteorhodopsin-containing photobacterium angustum S14, in: ASLO Aquatic Sciences Meeting, Granada, Spain, February 2015.
    https://hal.inria.fr/hal-01147870
  • 39C. Lobry.
    Images mathématiques ou Vérité mathématique ?, in: Séminaire IVI : Idée, Vérité, Image, Nice, France, January 2015.
    https://halshs.archives-ouvertes.fr/halshs-01167427
  • 40A. Rapaport, T. Bayen, M. Sebbah, A. Donoso-Bravo, A. Torrico.
    Optimal Control of Landfills, in: SIAM Conference on Control & Applications CT15, Paris, France, July 2015.
    https://hal.inria.fr/hal-01154434
  • 41V. Riquelme, H. Ramirez, A. Rapaport.
    Minimal-Time Bioremediation of Water Resources with Two Patches, in: SIAM Conference on Control & Applications CT15, Paris, France, July 2015.
    https://hal.inria.fr/hal-01154435
  • 42A. Rojas-Palma, A. Rapaport, J.-R. De Dreuzy, H. Ramirez.
    Comparison between the MINC and MRMT Configurations: The n-dimensional Case, in: SIAM Conference on Control & Applications CT15, Paris, France, July 2015.
    https://hal.inria.fr/hal-01154436

Scientific Books (or Scientific Book chapters)

  • 43T. Caraballo, X. Han, P. Kloeden, A. Rapaport.
    Dynamics of Nonautonomous Chemostat Models, in: Continuous and Distributed Systems Theory and Applications Part II, V. A. Sadovnichiy, M. Z. Zgurovsky (editors), Studies in Systems, Decision and Control, Springer, June 2015, vol. 30, pp. 103-120. [ DOI : 10.1007/978-3-319-19075-4_6 ]
    https://hal.inria.fr/hal-01162471

Other Publications

  • 44A. Abdelhamid.
    Etude mathématique et numérique du sur-rendement dans les modèles d’écologie microbienne, Polytech Nice, October 2015, 26 p.
    https://hal.inria.fr/hal-01213904
  • 45R. Arditi, C. Lobry, T. Sari.
    Is dispersal always beneficial to carrying capacity? New insights from the multi-patch logistic equation, September 2015, working paper or preprint.
    https://hal.archives-ouvertes.fr/hal-01153368
  • 46T. Babey, J.-R. De Dreuzy, M. Pinhiero, P. P. Garnier, L. Vieublé, A. Rapaport.
    Modeling the Impact of Heterogeneous Spatial Distribution of Soil Microbes on Pesticide Biodegradation at the Centimeter Scale , December 2015, American Geophysical Union Fall Meeting (AGU 2015), Poster.
    https://hal.inria.fr/hal-01246659
  • 47T. Bayen, J. Harmand, M. Sebbah.
    Time-optimal control of concentrations changes in the chemostat with one single species, December 2015, working paper or preprint.
    https://hal.archives-ouvertes.fr/hal-01250321
  • 48T. Bayen, A. Rapaport.
    About Moreau-Yosida regularization of the minimal time crisis problem, April 2015, working paper or preprint.
    https://hal.archives-ouvertes.fr/hal-01138545
  • 49M. Benaïm, C. Lobry.
    Lotka Volterra in fluctuating environment or "how good can be bad", 2015, working paper or preprint.
    https://hal.inria.fr/hal-01197433
  • 50K. Cauvin-Migliore.
    Variations autour du problème de minimisation du temps de crise : méthode de régularisation de Moreau-Yosida et exploitation de la théorie de la viabilité, Université de Montpellier, June 2015, 48 p.
    https://hal.inria.fr/hal-01169894
  • 51B. Cloez, T. Daufresne, T. Koffel, J. Harmand, C. Lobry, A. Rapaport, T. Sari.
    Ecole chercheurs Modèles ressources-consommateurs, September 2015, Lecture - école co-organisée par les UMR MISTEA et EcoSols, 21-25 septembre 2015, Montpellier. Supports de cours disponibles sur le site de l'école.
    https://hal.inria.fr/cel-01206385
  • 52P. Cuevas.
    Software development and numerical simulation of the heterogeneity in transport diffusion with nutrients , Universidad de Santiago de Chile, October 2015, 49 p.
    https://hal.inria.fr/hal-01246655
  • 53R. Fekih-Salem, A. Rapaport, T. Sari.
    Emergence of coexistence and limit cycles in the chemostat model with flocculation for a general class of functional responses, February 2015, working paper or preprint.
    https://hal.inria.fr/hal-01121201
  • 54T. Sari, J. Harmand.
    A model of a syntrophic relationship between two microbial species in a chemostat including maintenance, July 2015, working paper or preprint.
    https://hal.archives-ouvertes.fr/hal-01026149
References in notes
  • 55M. H. A. Davis.
    Piecewise-deterministic Markov processes: a general class of nondiffusion stochastic models, in: J. Roy. Statist. Soc. Ser. B, 1984, vol. 46, no 3, pp. 353–388, With discussion.
  • 56L. Doyen, P. Saint-Pierre.
    Scale of Viability and Minimal Time of Crisis, in: Set-Valued Analysis, 1997, vol. 5, no 3, pp. 227–246.
  • 57S. Ethier, T. Kurtz.
    Markov Processes – Characterization and Convergence, John Wiley & Sons, 1986.
  • 58S. J. Pirt.
    Principles of microbe and cell cultivation, John Wiley & Sons, 1975.
  • 59H. Smith, P. Waltman.
    The Theory of the Chemostat: Dynamics of Microbial Competition, Cambridge University Press, 1995.
  • 60O. Wanner, H. Eberl, E. Morgenroth, D. Noguera, C. Picioreanu, B. Rittmann, M. Van Loosdrecht.
    Mathematical Modeling of Biofilms, IWA Scientific and Technical Report No.18, IWA Publishing, 2006, IWA Task Group on Biofilm Modeling.
  • 61A. Xu, J. Dolfing, T. Curtis, G. Montague, E. Martin.
    Maintenance affects the stability of a two-tiered microbial `food chain', in: J. Theoret. Biol., 2011, vol. 276, pp. 35–41.

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