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
Experimental evolution. Trends in ecology and evolution, pp.547-560, 2012. ,
URL : https://hal.archives-ouvertes.fr/hal-00162893
Evolution of global regulatory networks during a long-term experiment withEscherichia coli, BioEssays, vol.59, issue.9, pp.846-860, 2007. ,
DOI : 10.1002/bies.20629
Contingency and Statistical Laws in Replicate Microbial Closed Ecosystems, Cell, vol.149, issue.5, pp.1164-1173, 2012. ,
DOI : 10.1016/j.cell.2012.03.040
Large Chromosomal Rearrangements during a Long-Term Evolution Experiment with Escherichia coli, mBio, vol.5, issue.5, pp.1377-1391, 2014. ,
DOI : 10.1128/mBio.01377-14
Adaptive radiation in a heterogeneous environment, Nature, vol.394, issue.6688, pp.69-72, 1998. ,
DOI : 10.1038/27900
Acceleration of Emergence of Bacterial Antibiotic Resistance in Connected Microenvironments, Science, vol.333, issue.6050, pp.333-1764, 2011. ,
DOI : 10.1126/science.1208747
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
Second-order selection in bacterial evolution: selection acting on mutation and recombination rates in the course of adaptation, Research in Microbiology, vol.152, issue.1, pp.11-16, 2001. ,
DOI : 10.1016/S0923-2508(00)01163-3
Evolvability, Proceedings of the National Academy of Sciences, vol.95, issue.15, pp.8420-8427, 1998. ,
DOI : 10.1073/pnas.95.15.8420
Selecting for evolvable representations, Proceedings of the 8th annual conference on Genetic and evolutionary computation , GECCO '06, pp.1297-1304, 2006. ,
DOI : 10.1145/1143997.1144199
Simulation as experiment: a philosophical reassessment for biological modeling, Trends in Ecology & Evolution, vol.19, issue.10, pp.530-534, 2004. ,
DOI : 10.1016/j.tree.2004.07.019
Evolution of digital organisms at high mutation rates leads to survival of the flattest, Nature, issue.6844, pp.412-331, 2001. ,
A Long-Term Evolutionary Pressure on the Amount of Noncoding DNA, Molecular Biology and Evolution, vol.24, issue.10, pp.2344-2353, 2007. ,
DOI : 10.1093/molbev/msm165
URL : https://hal.archives-ouvertes.fr/hal-00391447
From digital genetics to knowledge discovery: Perspectives in genetic network understanding, Intelligent Data Analysis, vol.14, issue.2, pp.173-191, 2010. ,
URL : https://hal.archives-ouvertes.fr/hal-00697024
Evolution of Evolvability in Gene Regulatory Networks, PLoS Computational Biology, vol.10, issue.7, p.1000112, 2008. ,
DOI : 10.1371/journal.pcbi.1000112.s005
Virtual Genomes in Flux: An Interplay of Neutrality and Adaptability Explains Genome Expansion and Streamlining, Genome Biology and Evolution, vol.4, issue.3, pp.212-229, 2012. ,
DOI : 10.1093/gbe/evr141
Not Just a Theory???The Utility of Mathematical Models in Evolutionary Biology, PLoS Biology, vol.272, issue.12, pp.12-1002017, 2014. ,
DOI : 10.1371/journal.pbio.1002017.g001
Artificial Chemistries???A Review, Artificial Life, vol.17, issue.3, pp.225-275, 2001. ,
DOI : 10.1162/106454601753138998
Stochastic Gene Expression in a Single Cell, Science, vol.297, issue.5584, pp.297-1183, 2002. ,
DOI : 10.1126/science.1070919
Single-cell proteomic analysis of S. cerevisiae reveals the architecture of biological noise, Nature, vol.99, issue.7095, pp.441-840, 2006. ,
DOI : 10.1038/nature04785
Noise Contributions in an Inducible Genetic Switch: A Whole-Cell Simulation Study, PLoS Computational Biology, vol.51, issue.3, p.1002010, 2011. ,
DOI : 10.1371/journal.pcbi.1002010.s003
Microbial evolution in vivo and in silico: methods and applications, Integr. Biol., vol.102, issue.103, pp.262-277, 2013. ,
DOI : 10.1039/C2IB20095C
Digital genetics: unravelling the genetic basis of evolution, Nature Reviews Genetics, vol.96, issue.103, p.109, 2006. ,
DOI : 10.1038/nrg1771
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