J. Besson, C. Robardet, B. , and J. F. , Mining Formal Concepts with a Bounded Number of Exceptions from Transactional Data, pp.33-45, 2005.
DOI : 10.1007/978-3-540-31841-5_3

B. , S. Pensa, R. G. Besson, J. Robartdet, C. Boulicaut et al., Clustering formal concepts to discover biologically relevant knowledge from gene expression data, In silico biology, vol.7, issue.4, pp.467-483, 2007.
URL : https://hal.archives-ouvertes.fr/hal-00294025

B. , K. Terrile, M. Bray, I. M. Domingo-fernandézfernand´fernandéz, R. Watters et al., Discovery and visualization of miRNAmRNA functional modules within integrated data using bicluster analysis, Nucleic Acids Research, vol.42, issue.3, p.17, 2014.

C. , S. W. Zang, J. B. Mele, A. , and D. R. , Argonaute HITS-CLIP decodes microRNAmRNA interaction maps, Nature, vol.460, pp.479-486, 2009.

E. , A. J. John, B. Gaul, U. Tuschl, T. Sander et al., MicroRNA targets in Drosophila, Genome biology, vol.5, issue.1, pp.1-1, 2003.

G. , A. Shigenobu, S. Hashiyama, T. Jaubert-possamai, S. et al., Sexual and asexual oogenesis require the expression of unique and shared sets of genes in the insect Acyrthosiphon pisum, BMC genomics, vol.13, issue.1, p.76, 2012.
URL : https://hal.archives-ouvertes.fr/hal-01208668

G. , A. Farh, K. K. Johnston, W. K. Garrett-engele, P. Lim et al., MicroRNA targeting specificity in mammals: determinants beyond seed pairing, Molecular cell, vol.27, issue.1, pp.91-105, 2007.

K. , M. Obiedkov, S. , R. , and C. , Approaches to the Selection of Relevant Concepts in the Case of Noisy Data Formal Concept Analysis, pp.255-266, 2010.

R. , P. H. Ficarra, E. , A. A. , and M. E. , miREE: miRNA recognition elements ensemble, BMC Bioinformatics, vol.12, pp.454-473, 2011.

R. Bloch, G. Hazan, E. Rafaeli, and A. , Circadian rhythms and endocrine functions in adult insects, Journal of Insect Physiology, vol.59, issue.1, pp.56-69, 2012.
DOI : 10.1016/j.jinsphys.2012.10.012

S. E. Celniker, L. A. Dillon, and M. B. Gerstein, Unlocking the secrets of the genome, Nature, vol.12, issue.7249, pp.927-930, 2009.
DOI : 10.1038/459927a

T. S. Corbitt and J. Hardie, Juvenile hormone effects on polymorphism in the pea aphid, A cyrthosiphon pisum, Entomologia Experimentalis et Applicata, vol.15, issue.2, pp.131-135, 1985.
DOI : 10.1111/j.1570-7458.1985.tb03509.x

T. Cortés, D. Tagu, and J. Simon, Sex versus parthenogenesis: A transcriptomic approach of photoperiod response in the model aphid Acyrthosiphon pisum (Hemiptera: Aphididae), Gene, vol.408, issue.1-2, pp.146-156, 2008.
DOI : 10.1016/j.gene.2007.10.030

T. Cortés, B. Ortiz-rivas, and D. Martínez-torres, Identification and characterization of circadian clock genes in the pea aphid Acyrthosiphon pisum, Insect Molecular Biology, vol.6, pp.123-139, 2010.
DOI : 10.1111/j.1365-2583.2009.00931.x

H. Danks, How similar are daily and seasonal biological clocks?, Journal of Insect Physiology, vol.51, issue.6, pp.609-619, 2005.
DOI : 10.1016/j.jinsphys.2005.01.005

C. Davis and R. D. Levitan, Seasonality and seasonal affective disorder (SAD): An evolutionary viewpoint tied to energy conservation and reproductive cycles, Journal of Affective Disorders, vol.87, issue.1, pp.3-10, 2005.
DOI : 10.1016/j.jad.2005.03.006

A. Gallot, C. Rispe, and N. Leterme, Cuticular proteins and seasonal photoperiodism in aphids, Insect Biochemistry and Molecular Biology, vol.40, issue.3, pp.235-240, 2010.
DOI : 10.1016/j.ibmb.2009.12.001

A. Gallot, S. Shigenobu, and T. Hashiyama, Sexual and asexual oogenesis require the expression of unique and shared sets of genes in the insect Acyrthosiphon pisum, BMC Genomics, vol.13, issue.1, p.76, 2012.
DOI : 10.1101/gr.9.9.868
URL : https://hal.archives-ouvertes.fr/hal-01208668

N. Gao and J. Hardie, Melatonin and the pea aphid, Acyrthosiphon pisum, Journal of Insect Physiology, vol.43, issue.7, pp.615-620, 1997.
DOI : 10.1016/S0022-1910(97)00015-2

N. Gao, M. Von-schantz, R. G. Foster, and J. Hardie, The putative brain photoperiodic photoreceptors in the vetch aphid, Megoura viciae, Journal of Insect Physiology, vol.45, issue.11, pp.1011-1019, 1999.
DOI : 10.1016/S0022-1910(99)00082-7

E. Gwinner, Circannual rhythms in birds, Current Opinion in Neurobiology, vol.13, issue.6, pp.770-778, 2003.
DOI : 10.1016/j.conb.2003.10.010

J. Hardie and A. Lees, The induction of normal and teratoid viviparae by a juvenile hormone and kinoprene in two species of aphids, Physiological Entomology, vol.67, issue.1, pp.65-74, 1985.
DOI : 10.1016/0022-1910(82)90079-8

B. G. Hunt, J. A. Brisson, V. Y. Soojin, and M. A. Goodisman, Functional Conservation of DNA Methylation in the Pea Aphid and the Honeybee, Genome Biology and Evolution, vol.2, p.719, 2010.
DOI : 10.1093/gbe/evq057

J. Huybrechts, J. Bonhomme, and S. Minoli, Neuropeptide and neurohormone precursors in the pea aphid, Acyrthosiphon pisum, Insect Molecular Biology, vol.271, pp.87-95, 2010.
DOI : 10.1111/j.1365-2583.2009.00951.x

S. Jaubert-possamai, G. Le-trionnaire, and J. Bonhomme, Gene knockdown by RNAi in the pea aphid Acyrthosiphon pisum, BMC Biotechnology, vol.7, issue.1, p.63, 2007.
DOI : 10.1186/1472-6750-7-63

S. Jaubert-possamai, C. Rispe, and S. Tanguy, Expansion of the miRNA Pathway in the Hemipteran Insect Acyrthosiphon pisum, Molecular Biology and Evolution, vol.27, issue.5, pp.979-987, 2010.
DOI : 10.1093/molbev/msp256

N. Kaplan, I. K. Moore, and Y. Fondufe-mittendorf, The DNA-encoded nucleosome organization of a eukaryotic genome, Nature, vol.12, issue.7236, pp.362-366, 2008.
DOI : 10.1038/nature07667

P. V. Kharchenko, A. A. Alekseyenko, and Y. B. Schwartz, Comprehensive analysis of the chromatin landscape in Drosophila melanogaster, Nature, vol.97, issue.7339, pp.471-480, 2011.
DOI : 10.1038/nature09725

V. N. Kim, J. Han, and M. C. Siomi, Biogenesis of small RNAs in animals, Nature Reviews Molecular Cell Biology, vol.274, issue.2, pp.126-139, 2009.
DOI : 10.1038/nrm2632

L. Trionnaire, G. Jaubert, S. Sabater-munoz, and B. , Seasonal photoperiodism regulates the expression of cuticular and signalling protein genes in the pea aphid, Insect Biochemistry and Molecular Biology, vol.37, issue.10, pp.1094-1102, 2007.
DOI : 10.1016/j.ibmb.2007.06.008

L. Trionnaire, G. Francis, F. Jaubert-possamai, and S. , Transcriptomic and proteomic analyses of seasonal photoperiodism in the pea aphid, BMC Genomics, vol.10, issue.1, p.46, 2009.
DOI : 10.1186/1471-2164-10-456
URL : https://hal.archives-ouvertes.fr/inria-00435791

L. Trionnaire, G. Jaubert-possamai, S. Bonhomme, and J. , Transcriptomic profiling of the reproductive mode switch in the pea aphid in response to natural autumnal photoperiod, Journal of Insect Physiology, vol.58, issue.12, pp.1517-1524, 2012.
DOI : 10.1016/j.jinsphys.2012.07.009
URL : https://hal.archives-ouvertes.fr/hal-00753429

A. D. Lees, Photoperiodic time measurement in the aphid Megoura viciae, Journal of Insect Physiology, vol.19, issue.12, pp.2279-2316, 1973.
DOI : 10.1016/0022-1910(73)90237-0

A. D. Lees, The photoperiodic responses and phenology of an English strain of the pea aphid Acyrthosiphon pisum, Ecological Entomology, vol.107, issue.1, pp.69-78, 1989.
DOI : 10.1016/0022-1910(69)90199-1

F. Legeai, G. Rizk, and T. Walsh, Bioinformatic prediction, deep sequencing of microRNAs and expression analysis during © 2013 The Royal Entomological Society, Physiological Entomology, vol.38, pp.117-125, 2010.

F. Lyko, S. Foret, and R. Kucharski, The Honey Bee Epigenomes: Differential Methylation of Brain DNA in Queens and Workers, PLoS Biology, vol.27, issue.11, p.1000506, 2010.
DOI : 10.1371/journal.pbio.1000506.s014

Z. Ma, W. Guo, and X. Guo, Modulation of behavioral phase changes of the migratory locust by the catecholamine metabolic pathway, Proceedings of the National Academy of Sciences of the United States of America, pp.3882-3887, 2011.
DOI : 10.1073/pnas.1015098108

M. Mandrioli and F. Borsatti, Analysis of heterochromatic epigenetic markers in the holocentric chromosomes of the aphid Acyrthosiphon pisum, Chromosome Research, vol.20, issue.8, pp.1015-1037, 2007.
DOI : 10.1007/s10577-007-1176-4

T. Miura, C. Braendle, and A. Shingleton, A comparison of parthenogenetic and sexual embryogenesis of the pea aphid Acyrthosiphon pisum (Hemiptera : Aphidoidea), Journal of Experimental Zoology Part B-Molecular and Developmental Evolution, vol.295, pp.59-81, 2003.

N. S. Mutti, J. Louis, and L. K. Pappan, A protein from the salivary glands of the pea aphid, Acyrthosiphon pisum, is essential in feeding on a host plant, Proceedings of the National Academy of Sciences of the United States of America, pp.9965-9969, 2008.
DOI : 10.1073/pnas.0708958105

B. Ortiz-rivas, S. Jaubert-possamai, and S. Tanguy, Evolutionary study of duplications of the miRNA machinery in aphids associated with striking rate acceleration and changes in expression profiles, BMC Evolutionary Biology, vol.12, issue.1, p.216, 2012.
DOI : 10.1073/pnas.0409034102
URL : https://hal.archives-ouvertes.fr/hal-01208607

S. Patalano, T. A. Hore, W. Reik, and S. Sumner, Shifting behaviour: epigenetic reprogramming in eusocial insects, Current Opinion in Cell Biology, vol.24, issue.3, pp.367-373, 2012.
DOI : 10.1016/j.ceb.2012.02.005

M. Pitino and S. A. Hogenhout, Aphid Protein Effectors Promote Aphid Colonization in a Plant Species-Specific Manner, Molecular Plant-Microbe Interactions, vol.26, issue.1, pp.130-139, 2013.
DOI : 10.1094/MPMI-07-12-0172-FI

M. Pitino, A. D. Coleman, and M. E. Maffei, Silencing of Aphid Genes by dsRNA Feeding from Plants, PLoS ONE, vol.19, issue.10, 2011.
DOI : 10.1371/journal.pone.0025709.s004

S. Ramos, A. Moya, and D. Martínez-torres, Identification of a gene overexpressed in aphids reared under short photoperiod, Insect Biochemistry and Molecular Biology, vol.33, issue.3, pp.289-298, 2003.
DOI : 10.1016/S0965-1748(02)00243-6

S. Richards, R. A. Gibbs, and N. M. Gerardo, Genome sequence of the pea aphid Acyrthosiphon pisum, PLoS Biology, vol.8, p.1000313, 2010.

S. Rider, . Jr, D. Srinivasan, and R. Hilgarth, Chromatin-remodelling proteins of the pea aphid, Acyrthosiphon pisum (Harris), Insect Molecular Biology, vol.18, pp.201-214, 2010.
DOI : 10.1111/j.1365-2583.2009.00972.x

B. Sabater-muñoz, F. Legeai, and C. Rispe, Large-scale gene discovery in the pea aphid Acyrthosiphon pisum (Hemiptera), 2006.

D. S. Saunders, Erwin B??nning and Tony Lees, two giants of chronobiology, and the problem of time measurement in insect photoperiodism, Journal of Insect Physiology, vol.51, issue.6, pp.599-608, 2005.
DOI : 10.1016/j.jinsphys.2004.12.002

D. S. Saunders, R. D. Lewis, and G. R. Warman, Photoperiodic induction of diapause: opening the black box, Physiological Entomology, vol.160, issue.1, pp.1-15, 2004.
DOI : 10.1016/0022-1910(94)00117-Y

A. Shakesby, I. Wallace, and H. Isaacs, A water-specific aquaporin involved in aphid osmoregulation, Insect Biochemistry and Molecular Biology, vol.39, issue.1, pp.1-10, 2009.
DOI : 10.1016/j.ibmb.2008.08.008

J. C. Simon, M. E. Pfrender, and R. Tollrian, Genomics of Environmentally Induced Phenotypes in 2 Extremely Plastic Arthropods, Journal of Heredity, vol.102, issue.5, pp.512-525, 2011.
DOI : 10.1093/jhered/esr020

J. M. Simon, P. G. Giresi, I. J. Davis, and J. D. Lieb, Using formaldehyde-assisted isolation of regulatory elements (FAIRE) to isolate active regulatory DNA, Nature Protocols, vol.791, issue.2, pp.256-267, 2012.
DOI : 10.1093/nar/gkq963

S. J. Simpson, G. A. Sword, and N. Lo, Polyphenism in Insects, Current Biology, vol.22, issue.4, pp.352-363, 2011.
DOI : 10.1016/j.cub.2012.01.051

D. G. Srinivasan and J. A. Brisson, Aphids: A Model for Polyphenism and Epigenetics, Genetics Research International, vol.39, issue.1, p.431531, 2012.
DOI : 10.1126/science.1165171
URL : http://doi.org/10.1155/2012/431531

C. G. Steel and A. D. Lees, The role of neurosecretion in the photoperiodic control of polymorphism in the aphid Megoura viciae, Journal of Experimental Biology, vol.67, pp.117-135, 1977.

D. Tagu, B. Sabater-munoz, and J. C. Simon, Deciphering reproductive polyphenism in aphids, Invertebrate Reproduction & Development, vol.67, issue.1-3, pp.71-80, 2005.
DOI : 10.1146/annurev.ento.49.061802.123236

D. Tagu, J. P. Klingler, A. Moya, and J. Simon, Early Progress in Aphid Genomics and Consequences for Plant???Aphid Interactions Studies, Molecular Plant-Microbe Interactions, vol.21, issue.6, pp.701-708, 2008.
DOI : 10.1094/MPMI-21-6-0701

T. K. Walsh, J. A. Brisson, and H. M. Robertson, A functional DNA methylation system in the pea aphid, Acyrthosiphon pisum, Insect Molecular Biology, vol.39, issue.7, pp.215-228, 2010.
DOI : 10.1111/j.1365-2583.2009.00974.x

M. J. Yanovsky and S. A. Kay, Living by the calendar: how plants know when to flower, Nature Reviews Molecular Cell Biology, vol.4, issue.4, pp.265-275, 2003.
DOI : 10.1038/nrm1077