Bibliography produced during the project

  1. Aissiouene, M.-O. Bristeau, E. Godlewski, A. Mangeney, C. Parés, and J. Sainte- Marie. Application of a combined finite element -finite volume method to a 2D nonhydrostatic shallow water problem. In Finite Volumes for Complex Applications 8, Springer Proceedings in Mathematics & Statistics, 2017.
  2. Nora Aissiouene, Marie-Odile Bristeau, Edwige Godlewski, and Jacques Sainte-Marie. A combined finite volume-finite element scheme for a dispersive shallow water system. Networks and Heterogeneous Media, 11(1):1:27, January 2016.
  3. Meziane Aite, Marie Chevallier, Clémence Frioux, Camille Trottier, Jeanne Got, María Paz Cortés, Sebastián Mendoza, Gregory Carrier, Olivier Dameron, Nicolas Guillaudeux, Mauricio Latorre, Nicolas Loira, Gabriel Markov, Alejandro Maass, and Anne Siegel. Traceability, reproducibility and wiki-exploration for “à-la-carte” reconstructions of genome-scale metabolic models. PLoS Computational Biology, 14(5):1: 25, May 2018.
  4. Caroline Baroukh and Olivier Bernard. Metabolic modeling of c. sorokiniana diauxic heterotrophic growth. IFAC-PapersOnLine, 49(26):330:335, 2016.
  5. Caroline Baroukh, Rafael Muñoz Tamayo, Jean-Philippe Steyer, and Olivier Bernard. DRUM: A New Framework for Metabolic Modeling under Non-Balanced Growth. Application to the Carbon Metabolism of Unicellular Microalgae. PLoS ONE, 9(8), August 2014. e104499.
  6. Caroline Baroukh, Rafael Munoz Tamayo, Olivier Bernard, and Jean-Philippe Steyer. Mathematical modeling of unicellular microalgae and cyanobacteria metabolism for biofuel production. Current Opinion in Biotechnology, 33:198:205, 2015.
  7. Caroline Baroukh, Rafael Muñoz-Tamayo, Olivier A. Bernard, and Jean-Philippe Steyer. Reply to the Comment on “Mathematical modeling of unicellular microalgae and cyanobacteria metabolism for biofuel production” by Baroukh et al. [Curr. Opin. Biotechnol. 2015, 33:198:20. Current Opinion in Biotechnology, 38:200 : 202, March 2016.
  8. Caroline Baroukh, Rafael Munoz Tamayo, Jean-Philippe Steyer, and Olivier Bernard. A state of the art of metabolic networks of unicellular microalgae and cyanobacteria for biofuel production. Metabolic Engineering, 30:49:60, 2015.
  9. Caroline Baroukh, Violette Turon, and Olivier Bernard. Dynamic metabolic modeling of heterotrophic and mixotrophic microalgal growth on fermentative wastes. PLoS Computational Biology, 13(6), June 2017.
  10. Bayen and F. Mairet. Optimisation of strain selection in evolutionary continuous culture. International Journal of Control, pages 1 – 12, July 2017.
  11. Quentin Béchet, Noémie Coulombier, Christophe Vasseur, Thomas Lasserre, Loic Le Dean, and Olivier Bernard. Full-scale validation of an algal productivity model including nitrogen limitation. Algal research, 31:377-386, 2018.
  12. Quentin Béchet, Martin Laviale, Nicolas Arsapin, Hubert Bonnefond, and Olivier Bernard. Modeling the impact of high temperatures on microalgal viability and photosynthetic activity. Biotechnology for Biofuels, 10(1):136, December 2017.
  13. Quentin Béchet, Philippe Moussion, and Olivier A. Bernard. Calibration of a productivity model for the microalgae Dunaliella salina accounting for light and temperature. Algal Research, 21:156 – 160, November 2016.
  14. Quentin Béchet, Andy Shilton, and Benoit Guieysse. Maximizing Productivity and Reducing Environmental Impacts of Full-Scale Algal Production through Optimization of Open Pond Depth and Hydraulic Retention Time. Environmental Science & Technology, 50(7):4102 – 4110, April 2016.
  15. Olivier Bernard. La production de micro-algues sous serre photovoltaique : évolution ou révolution ? Revue de l’Energie, 621:385-392, November 2014.
  16. Olivier Bernard, Anne-Céline Boulanger, Marie-Odile Bristeau, and Jacques Sainte- Marie. A 2D model for hydrodynamics and biology coupling applied to algae growth simulations. ESAIM: Mathematical Modelling and Numerical Analysis, 47(5):1387- 1412, September 2013.
  17. Olivier Bernard, Francis Mairet, and Benoît Chachuat. Modelling of Microalgae Culture Systems with Applications to Control and Optimization. In Advances in Bio- chemical Engineering/Biotechnology, volume Microalgae Biotechnology, pages 59-87. 2015.
  18. Bonnans, Frederic, Daphne Giorgi, Vincent Grelard, Benjamin Heymann, Stephan Maindrault, Pierre Martinon, Olivier Tissot, and Jinyan Liu. Bocop: A collection of examples. Technical report, INRIA, 2017.
  19. Hubert Bonnefond, Ghjuvan Micaelu Grimaud, Judith Rumin, Gaël Bougaran, Amélie Talec, M O Gachelin, M O Boutoute, Eric Pruvost, Olivier Bernard, and Antoine Sciandra. Continuous selection pressure to improve temperature acclimation of Tisochrysis lutea. PLoS ONE, August 2017.
  20. Marie-Odile Bristeau, Cindy Guichard, Bernard Di Martino, and Jacques Sainte- Marie. Layer-averaged Euler and Navier-Stokes equations. Communications in Mathematical Sciences, 2017.
  21. Marie-Odile Bristeau, Anne Mangeney, Jacques Sainte-Marie, and Nicolas Seguin. An energy-consistent depth-averaged Euler system: derivation and properties. Discrete and Continuous Dynamical Systems – Series B, 20(4):28, 2015.
  22. Margaux Caia, Olivier Bernard, and Quentin Béchet. Optimizing co2 transfer in algal open ponds. Algal Research, 35:530:538, 2018.
  23. Pierre Collet, Arnaud Hélias, Laurent Lardon, Jean-Philippe Steyer, and Olivier Bernard. Recommendations for Life Cycle Assessment of algal fuels. Applied Energy, 154:1089:1102, September 2015.
  24. Pierre Collet, Laurent Lardon, Arnaud Helias, Stéphanie Bricout, Isabelle Lombaert- Valot, Béatrice Perrier, Olivier Lépine, Jean-Philippe Steyer, and Olivier Bernard. Biodiesel from microalgae : Life cycle assessment and recommendations for potential improvements. Renewable Energy, 71:525:533, 2014.
  25. Charlotte Combe, Philipp Hartmann, Sophie Rabouille, Amélie Talec, Olivier Bernard, and Antoine Sciandra. Long-term adaptive response to high-frequency light signals in the unicellular photosynthetic eukaryote Dunaliella salina. Biotechnology and Bioengineering, 112(6):1111:1121, January 2015.
  26. Riccardo De-Luca, Quentin Béchet, Fabrizio Bezzo, and Olivier Bernard. Optimal operation of algal ponds accounting for future meteorology. IFAC-PapersOnLine, 49(7):1062:1067, 2016.
  27. Riccardo De-Luca, Quentin Béchet, Fabrizio Bezzo, and Olivier A. Bernard. Optimal operation of algal ponds accounting for future meteorology. In 11th IFAC Symposium on Dynamics and Control of Process Systems, including Biosystems, volume 49, pages 1062 : 1067, Trondheim, Norway, June 2016.
  28. Riccardo De-Luca, Fabrizio Bezzo, Quentin Béchet, and Olivier Bernard. Exploiting meteorological forecasts for the optimal operation of algal ponds. Journal of Process Control, 55:55 : 65, July 2017.
  29. David Demory, Laure Arsenief, Nathalie Simon, Christophe Six, Fabienne Rigaut- Jalabert, Dominique Marie, Pei Ge, Estelle Bigeard, Stéphan Jacquet, Antoine Sciandra, Olivier Bernard, Sophie Rabouille, and Anne-Claire Baudoux. Temperature is a key factor in Micromonas-virus interactions. ISME Journal, 11:601:612, 2017.
  30. David Demory, Anne-Claire Baudoux, Adam Monier, Nathalie Simon, Christophe Six, Pei Ge, Fabienne Rigaut-Jalabert, Dominique Marie, Antoine Sciandra, Olivier Bernard, et al. Picoeukaryotes of the micromonas genus: sentinels of a warming ocean. The ISME journal, page 1, 2018.
  31. David Demory, Charlotte Combe, Philipp Hartmann, Amélie Talec, Eric Pruvost, Raouf Hamouda, Fabien Souillé, Pierre-Olivier Lamare, Marie-Odile Bristeau, Jacques Sainte-Marie, et al. How do microalgae perceive light in a high-rate pond? towards more realistic lagrangian experiments. Royal Society open science, 5(5):180523, 2018.
  32. Walid Djema, Laetitia Giraldi, and Olivier Bernard. An Optimal Control Strategy Separating Two Species of Microalgae in Photobioreactors. In Dynamics and Control of Process Systems, including Biosystems – 12th DYCOPS 2019, Florianopolis, Brazil, April 2019 (submitted).
  33. Jérôme Droniou, Robert Eymard, Thierry Gallouët, Cindy Guichard, and Raphaele Herbin. The gradient discretisation method: a framework for the discretisation and numerical analysis of linear and nonlinear elliptic and parabolic problems. Springer, November 2017. Accepted for publication in “Mathématiques et Applications” Series.
  34. Enrique D. Fernandez-Nieto, Martin Parisot, Yohan Penel, and Jacques Sainte-Marie. A hierarchy of dispersive layer-averaged approximations of Euler equations for free surface flows. Communications in Mathematical Sciences, accepted for publication.
  35. Nils Giordano, Francis Mairet, Jean-Luc Gouzé, Johannes Geiselmann, and Hidde De Jong. Dynamical allocation of cellular resources as an optimal control problem: Novel insights into microbial growth strategies. PLoS Computational Biology, 12(3):e1004802, March 2016.
  36. Edwige Godlewski, Martin Parisot, Jacques Sainte-Marie, and Fabien Wahl. Congested shallow water model: roof modelling in free surface flow. ESAIM: Mathematical Modelling and Numerical Analysis, 2018.
  37. Ghjuvan Micaelu Grimaud, Valérie Le Guennec, Sakina-Dorothée Ayata, Francis Mairet, Antoine Sciandra, and Olivier Bernard. Modelling the effect of temperature on phytoplankton growth across the global ocean. In 8th Vienna International Conference on Mathematical Modelling – MATHMOD 2015, Vienna, Austria, 2015.
  38. Ghjuvan Micaelu Grimaud, Francis Mairet, Sakina-Dorothée Ayata, Antoine Sciandra, and Olivier Bernard. A simple Adaptive Dynamics model to study the effect of global warming on marine phytoplankton. In Mathematical Models in Ecology and Evolution, Paris, France, 2015. Poster.
  39. Ghjuvan Micaelu Grimaud, Francis Mairet, Antoine Sciandra, and Olivier Bernard. Modeling the temperature effect on the specific growth rate of phytoplankton: a review. Reviews in Environmental Science and Biotechnology, August 2017.
  40. Frédéric Grognard, Pierre Masci, Eric Benoît, and Olivier Bernard. Competition between phytoplankton and bacteria: exclusion and coexistence. Journal of Mathematical Biology, 70(5):959:1006, 2015.
  41. Guillaume Kerlero de Rosbo and Olivier Bernard. Évaluation du gisement potentiel de ressources algales pour l’énergie et la chimie en France à horizon 2030. Technical report, ADEME, November 2014.
  42. -O. Lamare, N. Aguillon, J. Sainte-Marie, J. Grenier, H. Bonnefond, and O. Bernard. Gradient-based optimization of a rotating algal bioproduction process. Under review, 2018.
  43. Julie Laniau, Clémence Frioux, Jacques Nicolas, Caroline Baroukh, María Paz Cortés, Jeanne Got, Camille Trottier, Damien Eveillard, and Anne Siegel. Combining graph and flux-based structures to decipher phenotypic essential metabolites within metabolic networks. PeerJ, 5:e3860, 2017.
  44. Francis Mairet and Olivier Bernard. The Photoinhibistat: Operating Microalgae Culture under Photoinhibition for Strain Selection. In 11th IFAC Symposium on Dynam- ics and Control of Process Systems Including Biosystems DYCOPS-CAB, volume 49 of IFAC-PapersOnLine, Trondheim, Norway, June 2016.
  45. Carlos Martínez, Olivier Bernard, and Francis Mairet. Maximizing microalgae productivity by shading outdoor cultures. In IFAC 2017 – 20th World Congress of the International Federation of Automatic Control, volume 50 of IFAC papers online, pages 8734 -8739, Toulouse, France, July 2017. Elsevier.
  46. Carlos Martínez, Olivier Bernard, and Francis Mairet. Maximizing microalgae productivity in a light-limited chemostat. IFAC-PapersOnLine, 51(2):735 : 740, 2018.
  47. Carlos Martínez, Francis Mairet, and Olivier Bernard. Theory of turbid microalgae cultures. Journal of theoretical biology, 456:190:200, 2018.
  48. Andreas Nikolaou, Philipp Hartmann, Antoine Sciandra, Benoît Chachuat, and Olivier Bernard. Dynamic coupling of photoacclimation and photoinhibition in a model of microalgae growth. Journal of theoretical biology, 390:61:72, 2016.
  49. Béatrice Perrier, Christelle Crampon, Olivier Guézet, Coralie Simon, François Maire, Olivier Lépine, Jérémy Pruvost, Paul Lozano, Olivier Bernard, and Elisabeth Badens. Production of a methyl ester from the microalgae Nannochloropsis grown in raceways on the French west coast. Fuel, 153:640:649, August 2015.
  50. Polizzi, O. Bernard, and M. Ribot. A time-space model for the growth of microalgae biofilms for biofuel production. Journal of Theoretical Biology, August 2017.



  1. Olivier Bernard, Hubert Bonnefond, Antoine Sciandra, Eric Pruvost, and Grimaud Ghjuvan. Bioreactor for selecting microalgae, September 2016. French patent FR1658863.
  2. Olivier Bernard, Filipa Lopes, Eric Pruvost, and Antoine Sciandra. Method and unit for producing microalgae, June 2 2016. US Patent App. 14/905,469.
  3. Olivier Bernard, Antoine Sciandra, Francis Mairet, Hubert Bonnefond, and Eric Pruvost. Selective bioreactor for microalgae, 2017.
  4. Hubert Bonnefond, Olivier Bernard, Eric Pruvost, and Antoine Sciandra. Selective bioreactor for microalgae, April 2016. French patent FR1652933.
  5. Francis Mairet, Olivier Bernard, Eric Pruvost, and Antoine Sciandra. Bioreactor for microalgae, March 2015. French patent FR1552343.


Comments are closed.