C. Darwin, The Origin of Species by Means of Natural Selection, 1859.
DOI : 10.5962/bhl.title.24329

D. Chu, Criteria for Conceptual and Operational Notions of Complexity, Artificial Life, vol.1, issue.1, pp.313-323, 2008.
DOI : 10.1207/s15326969eco1801_2

C. Gershenson and T. Lenaerts, Evolution of Complexity, Artificial Life, vol.14, issue.3, pp.241-243, 2008.
DOI : 10.1162/106454605774270606

E. Szathmary, F. Jordan, and C. Pal, Molecular biology and evolution. Can genes explain biological complexity? Science, pp.1315-1316, 2001.

S. Carroll, Chance and necessity: the evolution of morphological complexity and diversity, Nature, vol.409, issue.6823, pp.1102-1109, 2001.
DOI : 10.1038/35059227

S. Prochnik, J. Umen, A. Nedelcu, A. Hallmann, S. Miller et al., Genomic Analysis of Organismal Complexity in the Multicellular Green Alga Volvox carteri, Science, vol.329, issue.5988, pp.329223-226, 2010.
DOI : 10.1126/science.1188800

H. Orr, ADAPTATION AND THE COST OF COMPLEXITY, Evolution, vol.50, issue.103, pp.13-20, 2000.
DOI : 10.1111/j.0014-3820.2000.tb00002.x

S. Arnold, R. Burger, P. Hohenlohe, B. Ajie, and A. Jones, UNDERSTANDING THE EVOLUTION AND STABILITY OF THE G-MATRIX, Evolution, vol.51, issue.10, pp.622451-2461, 2008.
DOI : 10.1111/j.1558-5646.2008.00472.x

M. Doebeli and I. Ispolatov, Complexity and Diversity, Science, vol.328, issue.5977, pp.494-497, 2010.
DOI : 10.1126/science.1187468

C. Adami, C. Ofria, and T. Collier, Evolution of biological complexity, Proceedings of the National Academy of Sciences, vol.97, issue.9, pp.4463-4468, 2000.
DOI : 10.1073/pnas.97.9.4463

G. Martin and T. Lenormand, A GENERAL MULTIVARIATE EXTENSION OF FISHER'S GEOMETRICAL MODEL AND THE DISTRIBUTION OF MUTATION FITNESS EFFECTS ACROSS SPECIES, Evolution, vol.157, issue.5, pp.893-907, 2006.
DOI : 10.1554/02-587

O. Tenaillon, O. Silander, J. Uzan, and L. Chao, Quantifying Organismal Complexity using a Population Genetic Approach, PLoS ONE, vol.441, issue.2, p.217, 2007.
DOI : 10.1371/journal.pone.0000217.g003

R. Fisher, The genetical theory of natural selection Oxford, 1930.

H. Orr, The Population Genetics of Adaptation: The Distribution of Factors Fixed during Adaptive Evolution, Evolution, vol.52, issue.4, pp.935-949, 1998.
DOI : 10.2307/2411226

D. Hartl and C. Taubes, Compensatory Nearly Neutral Mutations: Selection without Adaptation, Journal of Theoretical Biology, vol.182, issue.3, pp.303-309, 1996.
DOI : 10.1006/jtbi.1996.0168

A. Poon and S. Otto, COMPENSATING FOR OUR LOAD OF MUTATIONS: FREEZING THE MELTDOWN OF SMALL POPULATIONS, Evolution, vol.135, issue.1, pp.1467-1479, 2000.
DOI : 10.1073/pnas.89.9.3904

G. Martin, S. Elena, and T. Lenormand, Distributions of epistasis in microbes fit predictions from a fitness landscape model, Nature Genetics, vol.94, issue.4, pp.555-560, 2007.
DOI : 10.1038/ng1998

URL : https://hal.archives-ouvertes.fr/halsde-00353548

L. Chevin, G. Martin, and T. Lenormand, FISHER'S MODEL AND THE GENOMICS OF ADAPTATION: RESTRICTED PLEIOTROPY, HETEROGENOUS MUTATION, AND PARALLEL EVOLUTION, Evolution, vol.18, issue.11, pp.3213-3231, 2010.
DOI : 10.1111/j.1558-5646.2010.01058.x

C. Burch and L. Chao, Evolution by small steps and rugged landscapes in the RNA virus phi6, Genetics, vol.151, issue.3, pp.921-927, 1999.

O. Silander, O. Tenaillon, and L. Chao, Understanding the Evolutionary Fate of Finite Populations: The Dynamics of Mutational Effects, PLoS Biology, vol.152, issue.4, p.94, 2007.
DOI : 10.1371/journal.pbio.0050094.sd001

URL : https://hal.archives-ouvertes.fr/inserm-00708255

G. Martin and T. Lenormand, The Distribution of Beneficial and Fixed Mutation Fitness Effects Close to an Optimum, Genetics, vol.179, issue.2, pp.907-916, 2008.
DOI : 10.1534/genetics.108.087122

URL : https://hal.archives-ouvertes.fr/halsde-00353583

J. Welch and D. Waxman, MODULARITY AND THE COST OF COMPLEXITY, Evolution, vol.161, issue.8, pp.1723-1734, 2003.
DOI : 10.2307/2409239

D. Hartl and C. Taubes, Towards a theory of evolutionary adaptation, Genetica, issue.16, pp.102-103525, 1998.
DOI : 10.1007/978-94-011-5210-5_39

P. Gros, L. Nagard, H. Tenaillon, and O. , The Evolution of Epistasis and Its Links With Genetic Robustness, Complexity and Drift in a Phenotypic Model of Adaptation, Genetics, vol.182, issue.1, pp.277-293, 2009.
DOI : 10.1534/genetics.108.099127

P. Gros and O. Tenaillon, Selection for Chaperone-Like Mediated Genetic Robustness at Low Mutation Rate: Impact of Drift, Epistasis and Complexity, Genetics, vol.182, issue.2, pp.555-564, 2009.
DOI : 10.1534/genetics.108.099366

R. Lenski, C. Ofria, T. Collier, and C. Adami, Genome complexity, robustness and genetic interactions in digital organisms [see comments], Nature, vol.400, issue.6745, pp.661-664, 1999.
DOI : 10.1038/23245

R. Lenski, C. Ofria, R. Pennock, and C. Adami, The evolutionary origin of complex features, Nature, vol.148, issue.6936, pp.139-144, 2003.
DOI : 10.1038/35076523

S. Geritz, E. Kisdi, G. Meszéna, and J. Metz, Evolutionarily singular strategies and the adaptive growth and branching of the evolutionary tree, Evolutionary Ecology, vol.34, issue.1, pp.35-57, 1998.
DOI : 10.1023/A:1006554906681

G. Sella and A. Hirsh, The application of statistical physics to evolutionary biology, Proceedings of the National Academy of Sciences, vol.102, issue.27, pp.9541-9546, 2005.
DOI : 10.1073/pnas.0501865102

R. Gutenkunst, J. Waterfall, F. Casey, K. Brown, C. Myers et al., Universally sloppy parameter sensitivities in systems biology models, Plos Computational Biology, vol.3, issue.10, pp.1871-1878, 2007.

W. Huang, C. Ofria, and E. Torng, Measuring Biological Complexity in Digital Organisms, Ninth International Conference on Artificial Life, vol.9, pp.315-321, 2004.

M. Barber, Modularity and community detection in bipartite networks, Physical Review E, vol.76, issue.6, p.66102, 2007.
DOI : 10.1103/PhysRevE.76.066102

S. Gould and E. Vrba, Exaptation???a Missing Term in the Science of Form, Paleobiology, vol.76, issue.01, pp.4-15, 1982.
DOI : 10.2307/2412538

J. Lourenco, N. Galtier, and S. Glemin, COMPLEXITY, PLEIOTROPY, AND THE FITNESS EFFECT OF MUTATIONS, Evolution, vol.57, issue.103, pp.1559-1571, 2011.
DOI : 10.1111/j.1558-5646.2011.01237.x

F. Stearns, One Hundred Years of Pleiotropy: A Retrospective, Genetics, vol.186, issue.3, pp.767-773, 2010.
DOI : 10.1534/genetics.110.122549

G. Wagner and J. Zhang, The pleiotropic structure of the genotype???phenotype map: the evolvability of complex organisms, Nature Reviews Genetics, vol.456, issue.103, pp.204-213, 2011.
DOI : 10.1038/nrg2949

G. Wagner, J. Kenney-hunt, M. Pavlicev, J. Peck, D. Waxman et al., Pleiotropic scaling of gene effects and the ???cost of complexity???, Nature, vol.296, issue.7186, pp.452470-472, 2008.
DOI : 10.1038/nature06756

Z. Wang, B. Liao, and J. Zhang, Genomic patterns of pleiotropy and the evolution of complexity, Proceedings of the National Academy of Sciences, vol.107, issue.42, pp.18034-18039, 2010.
DOI : 10.1073/pnas.1004666107

O. Tenaillon, F. Taddei, M. Radmian, and I. Matic, 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

S. Ohno, Evolution by gene duplication Berlin, 1970.

M. Lynch and J. Conery, The Origins of Genome Complexity, Science, vol.302, issue.5649, pp.1401-1404, 2003.
DOI : 10.1126/science.1089370