A. Stams, Metabolic interactions between anaerobic bacteria in methanogenic environments, Antonie van Leeuwenhoek, vol.138, issue.1-3, pp.271-294, 1994.
DOI : 10.1007/BF00871644

W. Dejonghe, E. Berteloot, J. Goris, N. Boon, K. Crul et al., Synergistic Degradation of Linuron by a Bacterial Consortium and Isolation of a Single Linuron-Degrading Variovorax Strain, Applied and Environmental Microbiology, vol.69, issue.3, pp.1532-1541, 2003.
DOI : 10.1128/AEM.69.3.1532-1541.2003

E. Costa, J. Pérez, and J. Kreft, Why is metabolic labour divided in nitrification? Trends in microbiology, pp.213-219, 2006.

C. Katsuyama, S. Nakaoka, Y. Takeuchi, K. Tago, M. Hayatsu et al., Complementary cooperation between two syntrophic bacteria in pesticide degradation, Journal of Theoretical Biology, vol.256, issue.4, pp.644-654, 2009.
DOI : 10.1016/j.jtbi.2008.10.024

P. Rainey and M. Travisano, Adaptive radiation in a heterogeneous environment, Nature, vol.394, issue.6688, pp.69-72, 1998.
DOI : 10.1038/27900

P. Rainey and K. Rainey, Evolution of cooperation and conflict in experimental bacterial populations, Nature, vol.425, issue.6953, pp.72-74, 2003.
DOI : 10.1038/nature01906

R. Helling, C. Vargas, and J. Adams, Evolution of Escherichia coli during growth in a constant environment, Genetics, vol.116, issue.3, pp.349-358, 1987.

R. Rosenzweig, R. Sharp, D. Treves, and J. Adams, Microbial evolution in a simple unstructured environment: genetic differentiation in Escherichia coli, Genetics, vol.137, issue.4, pp.903-917, 1994.

P. Turner, V. Souza, and R. Lenski, Tests of Ecological Mechanisms Promoting the Stable Coexistence of Two Bacterial Genotypes, Ecology, vol.77, issue.7, pp.2119-2129, 1996.
DOI : 10.2307/2265706

D. Treves, S. Manning, and J. Adams, Repeated evolution of an acetate-crossfeeding polymorphism in long-term populations of Escherichia coli, Molecular Biology and Evolution, vol.15, issue.7, pp.789-797, 1998.
DOI : 10.1093/oxfordjournals.molbev.a025984

D. Rozen and R. Lenski, Long-Term Experimental Evolution in Escherichia coli. VIII. Dynamics of a Balanced Polymorphism, The American Naturalist, vol.155, issue.1, pp.24-35, 2000.
DOI : 10.2307/3079013

URL : https://hal.archives-ouvertes.fr/hal-00173266

D. Rozen, D. Schneider, and R. Lenski, Long-Term Experimental Evolution in Escherichia coli. XIII. Phylogenetic History of a Balanced Polymorphism, Journal of Molecular Evolution, vol.15, issue.103, pp.171-180, 2005.
DOI : 10.1007/s00239-004-0322-2

URL : https://hal.archives-ouvertes.fr/hal-00173266

D. Rozen, P. N. Arjan-de-visser, J. Lenski, R. Schneider, and D. , Death and cannibalism in a seasonal environment facilitate bacterial coexistence, Ecology Letters, vol.155, issue.1, pp.34-44, 2009.
DOI : 10.1111/j.1461-0248.2008.01257.x

URL : https://hal.archives-ouvertes.fr/hal-00342476

F. Cohan, What are Bacterial Species?, Annual Review of Microbiology, vol.56, issue.1, pp.457-487, 2002.
DOI : 10.1146/annurev.micro.56.012302.160634

URL : http://wesscholar.wesleyan.edu/cgi/viewcontent.cgi?article=1366&context=div3facpubs

S. Elena and R. Lenski, Microbial genetics: Evolution experiments with microorganisms: the dynamics and genetic bases of adaptation, Nature Reviews Genetics, vol.4, issue.6, pp.457-469, 2003.
DOI : 10.1038/nrg1088

T. Großkopf, J. Consuegra, J. Gaffé, J. Willison, R. Lenski et al., Metabolic modelling in a dynamic evolutionary framework predicts adaptive diversification of bacteria in a long-term evolution experiment, BMC Evolutionary Biology, vol.3, issue.1, pp.163-27544664, 2016.
DOI : 10.1186/s12862-016-0733-x

C. Spencer, G. Saxer, M. Travisano, and M. Doebeli, Seasonal resource oscillations maintain diversity in bacterial microcosms, Evolutionary Ecology Research, vol.9, issue.5, pp.775-787, 2007.

T. Pfeiffer and S. Bonhoeffer, Evolution of cross-feeding in microbial populations. The American naturalist, pp.126-135, 2004.

P. Gerlee and T. Lundh, Rock-Paper-Scissors Dynamics in a Digital Ecology, pp.285-294, 2010.

T. Hindré, C. Knibbe, G. Beslon, and D. Schneider, New insights into bacterial adaptation through in vivo and in silico experimental evolution, Nature Reviews Microbiology, vol.1158, issue.5, pp.352-365, 2012.
DOI : 10.1038/nrmicro2750

O. Neill and B. , Digital evolution):e18. https, PLoS Biol, vol.1, issue.1, p.14551915, 2003.

F. Stewart and B. Levin, Partitioning of Resources and the Outcome of Interspecific Competition: A Model and Some General Considerations, The American Naturalist, vol.107, issue.954, pp.171-198, 1973.
DOI : 10.1086/282825

M. Doebeli, A model for the evolutionary dynamics of cross-feeding polymorphisms in microorganisms, Population Ecology, vol.44, issue.2, pp.59-70, 2002.
DOI : 10.1007/s101440200008

I. Gudelj, M. Kinnersley, P. Rashkov, K. Schmidt, and F. Rosenzweig, Stability of Cross-Feeding Polymorphisms in Microbial Communities):e1005269. https, PLOS Computational Biology, vol.12, issue.12, p.28036324, 2016.

N. Ribeck and R. Lenski, Modeling and quantifying frequency-dependent fitness in microbial populations with cross-feeding interactions, Evolution, vol.31, issue.5, pp.1313-1320, 2015.
DOI : 10.1111/evo.12645

T. Johnson and C. Wilke, Evolution of Resource Competition between Mutually Dependent Digital Organisms, Artificial Life, vol.10, issue.2, pp.145-156, 2004.
DOI : 10.1038/nature01767

C. Ofria and C. Wilke, Avida: A Software Platform for Research in Computational Evolutionary Biology, Artificial Life, vol.75, issue.2, pp.191-229, 2004.
DOI : 10.1038/nature01151

H. Williams and T. Lenton, Evolutionary regime shifts in simulated ecosystems, Oikos, vol.105, issue.12, pp.1887-1899, 2010.
DOI : 10.1111/j.1600-0706.2010.18127.x

A. Crombach and P. Hogeweg, Evolution of resource cycling in ecosystems and individuals):1. https://doi.org/10, BMC evolutionary biology, vol.9, issue.1, pp.1471-2148, 1186.

R. Boyle, H. Williams, and T. Lenton, Natural selection for costly nutrient recycling in simulated microbial metacommunities, Journal of Theoretical Biology, vol.312, pp.1-12, 2012.
DOI : 10.1016/j.jtbi.2012.07.018

S. Chow, C. Wilke, C. Ofria, R. Lenski, and C. Adami, Adaptive Radiation from Resource Competition in Digital Organisms, Science, vol.305, issue.5680, pp.84-86, 2004.
DOI : 10.1126/science.1096307

URL : http://authors.library.caltech.edu/51960/7/Chow.SOM.pdf

P. Gerlee and T. Lundh, PRODUCTIVITY AND DIVERSITY IN A CROSS-FEEDING POPULATION OF ARTIFICIAL ORGANISMS, Evolution, vol.173, issue.9, pp.2716-2730, 2010.
DOI : 10.1111/j.1558-5646.2010.01020.x

Y. Liu and D. Sumpter, Insights into resource consumption, cross-feeding, system collapse, stability and biodiversity from an artificial ecosystem, Journal of The Royal Society Interface, vol.7, issue.126, pp.20160816-28100827, 2017.
DOI : 10.1016/j.jembe.2008.07.013

L. Gac, M. Plucain, J. Hindré, T. Lenski, R. Schneider et al., Ecological and evolutionary dynamics of coexisting lineages during a long-term experiment with Escherichia coli, Proceedings of the National Academy of Sciences, vol.36, issue.suppl_1, pp.9487-9492, 2012.
DOI : 10.1093/nar/gkm994

URL : https://hal.archives-ouvertes.fr/hal-00800698

A. Crombach and P. Hogeweg, Evolution of evolvability in gene regulatory networks):e1000112. https, PLoS Comput Biol, vol.4, issue.7, p.18617989, 2008.

G. Beslon, D. Parsons, Y. Sanchez-dehesa, J. Pena, and C. Knibbe, Scaling laws in bacterial genomes: A side-effect of selection of mutational robustness?, Biosystems, vol.102, issue.1, pp.32-40, 2010.
DOI : 10.1016/j.biosystems.2010.07.009

URL : https://hal.archives-ouvertes.fr/inria-00593709

S. Fischer, S. Bernard, G. Beslon, and C. Knibbe, A model for genome size evolution Bulletin of mathematical biology, pp.2249-2291, 2014.

A. Frenoy, F. Taddei, and D. Misevic, Genetic Architecture Promotes the Evolution and Maintenance of Cooperation, PLoS Computational Biology, vol.14, issue.11, p.24278000, 2013.
DOI : 10.1371/journal.pcbi.1003339.s004

C. Hauert and M. Doebeli, Spatial structure often inhibits the evolution of cooperation in the snowdrift game, Nature Materials, vol.428, issue.6983, pp.643-646, 2004.
DOI : 10.1038/nature02360

P. Gerlee and T. Lundh, Effect of space in the game ???war of attrition???, Physical Review E, vol.85, issue.4, pp.41115-22680427, 2012.
DOI : 10.1103/PhysRevE.85.041115

L. Chevin, On measuring selection in experimental evolution, Biology Letters, vol.54, issue.1, pp.210-213, 2011.
DOI : 10.1554/0014-3820(2000)054[0013:AATCOC]2.0.CO;2

J. Gilbert, J. Steele, J. Caporaso, L. Steinbrück, J. Reeder et al., Defining seasonal marine microbial community dynamics, The ISME Journal, vol.73, issue.2, pp.298-308, 2012.
DOI : 10.1038/ismej.2011.107

URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3260500

J. Grover, Dynamics of Competition in a Variable Environment: Experiments with Two Diatom Species, Ecology, vol.69, issue.2, pp.408-417, 1988.
DOI : 10.2307/1940439