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, n^o 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, n^o 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, n^o 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, n^o 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, n^o 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

• 11A. Charfi.
  Study of a membrane bioreactor for the treatment of wastewaters : effect of biotic and abiotic parameters on membrane fouling, Université de Carthage, December 2014.
  https://hal.archives-ouvertes.fr/tel-01098726
• 12C. Fritsch.
  Probabilistic and numerical approaches of individual-based chemostat model, Université Montpellier 2, December 2014.
  https://tel.archives-ouvertes.fr/tel-01099048

Articles in International Peer-Reviewed Journals

• 13G. 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
• 14T. Babey, J.-R. De Dreuzy, C. Casenave.
  Multi-Rate Mass Transfer (MRMT) models for general diffusive porosity structures, in: Advances in Water Resources, December 2014, 42 p. [ DOI : 10.1016/j.advwatres.2014.12.006 ]
  https://hal.inria.fr/hal-01102049
• 15T. Bayen, F. Mairet.
  Optimization of the separation of two species in a chemostat, in: Automatica, April 2014, vol. 50, n^o 4, pp. 1243-1248. [ DOI : 10.1016/j.automatica.2014.02.024 ]
  https://hal.archives-ouvertes.fr/hal-00817147
• 16T. 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, June 2014, 24 p. [ DOI : 10.1002/oca.2127 ]
  https://hal.archives-ouvertes.fr/hal-00860570
• 17T. 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, n^o 1, pp. 39-58. [ DOI : 10.3934/dcdsb.2015.20.39 ]
  https://hal.archives-ouvertes.fr/hal-00879385
• 18T. Bayen, A. Rapaport, M. Sebbah.
  Minimal time control of the two tanks gradostat model under a cascade Input constraint, in: SIAM Journal on Control and Optimization, 2014, vol. 52, n^o 4, pp. 2568–2594. [ DOI : 10.1137/130950379 ]
  https://hal.inria.fr/hal-01086153
• 19W. Bouhafs, N. Abdellatif, F. Jean, J. Harmand.
  Commande optimale en temps minimal d'un procédé biologique d'épuration de l'eau, in: ARIMA, 2014, vol. 18, pp. 37-51.
  https://hal.inria.fr/hal-00859549
• 20F. Campillo, C. Fritsch.
  Weak Convergence of a Mass-Structured Individual-Based Model, in: Applied Mathematics & Optimization, October 2014, 37 p. [ DOI : 10.1007/s00245-014-9271-3 ]
  https://hal.inria.fr/hal-01090727
• 21F. Campillo, D. Hervé, A. Raherinirina, R. Rakotozafy.
  Markov analysis of land use dynamics: A Case Study in Madagascar, in: ARIMA, 2014, vol. 17, pp. 1-22.
  https://hal.inria.fr/hal-00936315
• 22F. Campillo, M. Joannides, I. Larramendy-Valverde.
  Approximation of the Fokker-Planck equation of the stochastic chemostat, in: Mathematics and Computers in Simulation, May 2014, vol. 99, pp. 37-53, MAMERN IV–2011: The 4th International Conference on Approximation Methods and Numerical Modeling in Environment and Natural Resources- PART I. [ DOI : 10.1016/j.matcom.2013.04.012 ]
  https://hal.inria.fr/hal-00821857
• 23C. Casenave, D. Dochain, G. Alvarez, M. Arellano, H. Benkhelifa, D. Leducq.
  Model identification and reduction for the control of an ice cream crystallization process, in: Chemical Engineering Science, 2014, vol. 119, pp. 274-287. [ DOI : 10.1016/j.ces.2014.08.030 ]
  https://hal.archives-ouvertes.fr/hal-01063877
• 24A. Charfi, J. Harmand, N. Ben Amar, A. Grasmick, M. Héran.
  Deposit membrane fouling: influence of specific cake layer resistance and tangential shear stresses, in: Water Science and Technology, 2014, vol. 70, n^o 1, pp. 40-46. [ DOI : 10.2166/wst.2014.186 ]
  https://hal.inria.fr/hal-01090596
• 25A. Charfi, Y. Yang, J. Harmand, N. Ben Amar, M. Héran, A. Grasmick.
  Soluble Microbial Products and Suspended Solids influence in membrane fouling dynamics andinterest of punctual relaxation and/or backwashing, in: Journal of Membrane Science, 2014, 8 p.
  https://hal.inria.fr/hal-01090637
• 26R. Fekih-Salem, N. Abdellatif, T. Sari, J. Harmand.
  Analyse mathématique d'un modèle de digestion anaérobie à trois étapes, in: ARIMA, 2014, vol. 17, pp. 53 - 71.
  https://hal.inria.fr/hal-01090610
• 27C. 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
• 28B. Haegeman, T. Sari, R. S. Etienne.
  Predicting coexistence of plants subject to a tolerance-competition trade-off, in: Journal of Mathematical Biology, June 2014, vol. 68, n^o 7, pp. 1815-1847. [ DOI : 10.1007/s00285-013-0692-4 ]
  https://hal.inria.fr/hal-00859548
• 29B. Jaillard, A. Rapaport, J. Harmand, A. Brauman, N. Nunan.
  Community assembly effects shape the biodiversity ecosystem functioning relationships, in: Functional Ecology, 2014, vol. 28, n^o 6, pp. 1523-1533. [ DOI : 10.1111/1365-2435.12267 ]
  https://hal.inria.fr/hal-00937779
• 30N. Perveen, S. Barot, G. Alvarez, K. Klumpp, A. Rapaport, S. Fontaine.
  Priming effect and microbial diversity in ecosystem functioning and response to global change: a modeling approach using the SYMPHONY model, in: Global Change Biology, April 2014, vol. 20, n^o 4, pp. 1174-1190. [ DOI : 10.1111/gcb.12493 ]
  https://hal.inria.fr/hal-00914045
• 31E. Pulido-Villena, A.-C. Baudoux, I. Obernosterer, M. Landa, J. Caparros, P. Catala, C. Georges, J. Harmand, C. Guieu.
  Corrigendum to "Microbial food web dynamics in response to a Saharan dust event: results from a mesocosm study in the oligotrophic Mediterranean Sea" published in Biogeosciences, in: Biogeosciences Discussions, 2014, vol. 11, pp. 6355 - 6356. [ DOI : 10.5194/bg-11-6355-2014 ]
  http://hal.univ-brest.fr/hal-01104305
• 32E. Pulido-Villena, A.-C. Baudoux, I. Obernosterer, M. Landa, J. Caparros, P. Catala, C. Georges, J. Harmand, C. Guieu.
  Microbial food web dynamics in response to a Saharan dust event: results from a mesocosm study in the oligotrophic Mediterranean Sea, in: Biogeosciences Discussions, 2014, vol. 11, pp. 5607 - 5619. [ DOI : 10.5194/bg-11-5607-2014 ]
  https://hal.inria.fr/hal-01090615
• 33A. 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
• 34J. Rodriguez, H. Ramirez, P. Gajardo, A. Rapaport.
  Optimality of affine control system of several species in competition on a Sequential Batch Reactor, in: International Journal of Control, March 2014, vol. 87, n^o 9, pp. 1877-1885. [ DOI : 10.1080/00207179.2014.891360 ]
  https://hal.inria.fr/hal-01088224
• 35E. Tapia, A. Donoso-Bravo, L. Cabrol, M. M. Alves, A. Pereira, A. Rapaport, G. Ruiz-Filippi.
  A methodology for a functional interpretation of DGGE with the help of mathematical modelling. Application in bio-hydrogen production, in: Water Science and Technology, 2014, vol. 69, n^o 3, pp. 511-517. [ DOI : 10.2166/wst.2013.719 ]
  https://hal.inria.fr/hal-00914058

Invited Conferences

• 36J. Harmand.
  Contrôle de paramètres dans un chémostat, in: Colloque National d'Assimilation de Données, Toulouse, France, December 2014.
  https://hal.inria.fr/hal-01090655

International Conferences with Proceedings

• 37G. Araujo Pimentel, A. Vande Wouwer, A. Rapaport.
  Stabilizing the cake evolution for a class of submerged membrane bioreactors using a Lyapunov controller, in: 33rd Benelux Meeting on Systems and Control, Heijden, Netherlands, March 2014.
  https://hal.inria.fr/hal-01088858
• 38T. Bayen, J. Harmand.
  Minimal time problem for a chemostat model with growth rate of Haldane type, in: ECC 2014 : European Control Conference, Strasbourg, France, June 2014, pp. 1562-1567. [ DOI : 10.1109/ECC.2014.6862401 ]
  https://hal.inria.fr/hal-01090654
• 39T. Bayen, F. Mairet, M. Mazade.
  Minimal time problem for a fed-batch bioreactor with a non admissible singular arc, in: ECC - European Control Conference, Strasbourg, France, June 2014, pp. 165-170. [ DOI : 10.1109/ECC.2014.6862444 ]
  https://hal.inria.fr/hal-01095694
• 40T. Bayen, A. Rapaport, M. Sebbah.
  Minimal time control of the two tanks gradostat model under cascade inputs constraint, in: ECC - European Control Conference, Strasbourg, France, June 2014, pp. 1256 - 1261. [ DOI : 10.1109/ECC.2014.6862435 ]
  https://hal.inria.fr/hal-01086152
• 42A. Raherinirina, D. Hervé, F. Campillo.
  Inferring land use dynamics by semi-Markov model, in: 12th African Conference on Research in Computer Science and Applied Mathematics, Université Gaston Berger Saint-Louis, Senegal, October 2014, pp. 1-8.
  https://hal.inria.fr/hal-01100087

Internal Reports

• 43F. Campillo, M. Joannides, I. Larramendy-Valverde.
  Stochastic models of the chemostat, June 2014.
  https://hal.archives-ouvertes.fr/hal-00999937
• 44C. Fritsch, J. Harmand, F. Campillo.
  A modeling approach of the chemostat, May 2014.
  https://hal.inria.fr/hal-00998194

Scientific Popularization

• 45A. Rapaport.
  Un bioréacteur optimisé : la « configuration poche », January 2014, La lettre INRA aux entreprises N° 59.
  https://hal.inria.fr/hal-01087422
• 46A. Rousseau, A. Rapaport, A. Pacholik, C. Leininger.
  Action Dépollution, 2014, A strategic game to learn how to quickly purify a contaminated lake.
  https://hal.inria.fr/hal-01086759

Patents

• 47A. Rapaport, A. Rousseau, J. Harmand.
  Procédé de traitement d'une ressource fluide, programme d'ordinateur et module de traitement associés, February 2014, n^o FA 78 4546 - FR 13 55129.
  https://hal.inria.fr/hal-00859584

Other Publications

• 48T. Bayen, F. J. Silva.
  Second order analysis for strong solutions in the optimal control of parabolic equations, December 2014.
  https://hal.archives-ouvertes.fr/hal-01096149
• 49K. Cauvin, R. Condé.
  Un modèle du chémostat. Compétition entre espèces au sein d’un bioréacteur, Université de Montpellier II, June 2014.
  https://hal.inria.fr/hal-01086221
• 50M. Lestienne.
  Modélisation mathématique et simulation numérique d’écosystèmes microbiens en batch, pour l’étude de leurs performances, Université Montpellier II, July 2014.
  https://hal.inria.fr/hal-01086225
• 51A. Pacholik.
  Conception d’un simulateur de traitement d'une ressource hydrique à destination du grand public, Institut Supérieur d'Informatique, de Modélisation et d'Informatique, September 2014.
  https://hal.inria.fr/hal-01086529
• 52H. Ramirez, A. Rapaport, V. Riquelme.
  Minimal time bioremediation of water resources with two patches, September 2014.
  https://hal.archives-ouvertes.fr/hal-01069581
• 53A. Rapaport, T. Bayen, M. Sebbah, A. Donoso-Bravo, A. Torrico.
  Dynamical modelling and optimal control of landfills, November 2014.
  https://hal.inria.fr/hal-01087946
• 54C. Richon.
  Détermination de la meilleure partition d’un pool régional d’espèces sous les règles d’interactions de diversité et de dominance, Université Montpellier II, June 2014.
  https://hal.inria.fr/hal-01086224
• 55T. Sari, J. Harmand.
  Maintenance does not affect the stability of a two-tiered microbial 'food chain', July 2014.
  https://hal.archives-ouvertes.fr/hal-01026149
• 56M. Veruete.
  Etude mathématique et numérique de modèles dynamiques de croissance de micro-algues, Université de Montpellier II, August 2014.
  https://hal.inria.fr/hal-01086222

References in notes

• 57F. Campillo, M. Joannides, I. Larramendy-Valverde.
  Stochastic modeling of the chemostat, in: Ecological Modelling, 2011, vol. 222, n^o 15, pp. 2676–2689.
• 58M. H. A. Davis.
  Piecewise-deterministic Markov processes: a general class of nondiffusion stochastic models, in: J. Roy. Statist. Soc. Ser. B, 1984, vol. 46, n^o 3, pp. 353–388, With discussion.
• 59S. Ethier, T. Kurtz.
  Markov Processes – Characterization and Convergence, John Wiley & Sons, 1986.
• 60S. J. Pirt.
  Principles of microbe and cell cultivation, John Wiley & Sons, 1975.
• 61H. Smith, P. Waltman.
  The Theory of the Chemostat: Dynamics of Microbial Competition, Cambridge University Press, 1995.
• 62O. 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.
• 63A. 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.