R. Gonzalez-romero, C. Rivera-casas, J. Fernandez-tajes, J. Ausio, J. Mendez et al., Chromatin specialization in bivalve molluscs: A leap forward for the evaluation of Okadaic Acid genotoxicity in the marine environment, Comparative Biochemistry and Physiology Part C: Toxicology & Pharmacology, vol.155, issue.2, pp.175-81, 2011.
DOI : 10.1016/j.cbpc.2011.09.003

A. Schwindt, Parental effects of endocrine disrupting compounds in aquatic wildlife: Is there evidence of transgenerational inheritance?, General and Comparative Endocrinology, vol.219, pp.152-64, 2015.
DOI : 10.1016/j.ygcen.2015.01.020

G. Burdge and K. Lillycrop, Nutrition, Epigenetics, and Developmental Plasticity: Implications for Understanding Human Disease, Annual Review of Nutrition, vol.30, issue.1, pp.315-354, 2010.
DOI : 10.1146/annurev.nutr.012809.104751

F. Champagne, Epigenetic mechanisms and the transgenerational effects of maternal care, Frontiers in Neuroendocrinology, vol.29, issue.3, pp.386-97, 2008.
DOI : 10.1016/j.yfrne.2008.03.003

B. Angers, E. Castonguay, and R. Massicotte, Environmentally induced phenotypes and DNA methylation: how to deal with unpredictable conditions until the next generation and after, Molecular Ecology, vol.39, issue.7, pp.1283-95, 2010.
DOI : 10.1111/j.1365-294X.2010.04580.x

D. Hala, D. Huggett, and W. Burggren, Environmental stressors and the epigenome, Drug Discovery Today: Technologies, vol.12, pp.3-8, 2014.
DOI : 10.1016/j.ddtec.2012.05.004

V. Cortessis, D. Thomas, A. Levine, C. Breton, T. Mack et al., Environmental epigenetics: prospects for studying epigenetic mediation of exposure???response relationships, Human Genetics, vol.125, issue.2, pp.1565-89, 2012.
DOI : 10.1007/s00439-012-1189-8

T. Day and R. Bonduriansky, A Unified Approach to the Evolutionary Consequences of Genetic and Nongenetic Inheritance, The American Naturalist, vol.178, issue.2, pp.18-36, 2011.
DOI : 10.1086/660911

J. Geoghegan and H. Spencer, Population-epigenetic models of selection, Theoretical Population Biology, vol.81, issue.3, pp.232-274, 2012.
DOI : 10.1016/j.tpb.2011.08.001

M. Skinner, C. Gurerrero-bosagna, M. Haque, E. Nilsson, J. Koop et al., Epigenetics and the Evolution of Darwin???s Finches, Genome Biology and Evolution, vol.6, issue.8, pp.1972-89, 2014.
DOI : 10.1093/gbe/evu158

B. Heijmans, E. Tobi, A. Stein, H. Putter, G. Blauw et al., Persistent epigenetic differences associated with prenatal exposure to famine in humans, Proceedings of the National Academy of Sciences, vol.105, issue.12, pp.17046-17055, 2008.
DOI : 10.1073/pnas.0712251105

URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2579375

R. Steenaard, S. Ligthart, L. Stolk, M. Peters, J. Van-meurs et al., Tobacco smoking is associated with methylation of genes related to coronary artery disease, Clinical Epigenetics, vol.59, issue.5, p.54, 2015.
DOI : 10.1186/s13148-015-0088-y

F. Xin, M. Susiarjo, and M. Bartolomei, Multigenerational and transgenerational effects of endocrine disrupting chemicals: A role for altered epigenetic regulation?, Seminars in Cell & Developmental Biology, vol.43, pp.66-75, 2015.
DOI : 10.1016/j.semcdb.2015.05.008

M. Skinner, Endocrine disruptors in 2015: Epigenetic transgenerational inheritance, Nature Reviews Endocrinology, vol.10, pp.68-70, 2015.
DOI : 10.1038/nrendo.2015.206

URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5287152

M. Collotta, P. Bertazzi, and V. Bollati, Epigenetics and pesticides, Toxicology, vol.307, pp.35-41, 2013.
DOI : 10.1016/j.tox.2013.01.017

A. Vaiserman, Epidemiologic evidence for association between adverse environmental exposures in early life and epigenetic variation: a potential link to disease susceptibility?, Clinical Epigenetics, vol.40, issue.Suppl 1, p.96, 2015.
DOI : 10.1186/s13148-015-0130-0

P. Alonso-magdalena, F. Rivera, and C. Guerrero-bosagna, Bisphenol-A and metabolic diseases: epigenetic, developmental and transgenerational basis, Environmental Epigenetics, vol.2, issue.3, p.22, 2016.
DOI : 10.1093/eep/dvw022

URL : http://doi.org/10.1093/eep/dvw022

J. Head, Patterns of DNA Methylation in Animals: An Ecotoxicological Perspective, Integrative and Comparative Biology, vol.54, issue.1, pp.77-86, 2014.
DOI : 10.1093/icb/icu025

V. Suarez-ulloa, R. Gonzalez-romero, and J. Eirin-lopez, Environmental epigenetics: A promising venue for developing next-generation pollution biomonitoring tools in marine invertebrates, Marine Pollution Bulletin, vol.98, issue.1-2, pp.5-13, 2015.
DOI : 10.1016/j.marpolbul.2015.06.020

F. Pierron, L. Baillon, M. Sow, S. Gotreau, and P. Gonzalez, Effect of Low-Dose Cadmium Exposure on DNA Methylation in the Endangered European Eel, Environmental Science & Technology, vol.48, issue.1, pp.797-803, 2014.
DOI : 10.1021/es4048347

F. Pierron, . Bureau-du, S. Colombier, A. Moffett, A. Caron et al., Abnormal Ovarian DNA Methylation Programming during Gonad Maturation in Wild Contaminated Fish, Environmental Science & Technology, vol.48, issue.19, pp.11688-95, 2014.
DOI : 10.1021/es503712c

T. Tran, G. Macfarlane, R. Kong, O. Connor, W. Yu et al., Potential mechanisms underlying estrogen-induced expression of the molluscan estrogen receptor (ER) gene, Aquatic Toxicology, vol.179, pp.82-94, 2016.
DOI : 10.1016/j.aquatox.2016.08.015

S. Giacomazzi and N. Cochet, Environmental impact of diuron transformation: a review, Chemosphere, vol.56, issue.11, pp.1021-1053, 2004.
DOI : 10.1016/j.chemosphere.2004.04.061

C. Tixier, M. Sancelme, F. Bonnemoy, A. Cuer, and H. Veschambre, Degradation products of a phenylurea herbicide, diuron: Synthesis, ecotoxicity, and biotransformation, Environmental Toxicology and Chemistry, vol.64, issue.7, pp.1381-1390, 2001.
DOI : 10.1002/etc.5620200701

T. Caquet, M. Roucaute, N. Mazzella, F. Delmas, C. Madigou et al., Risk assessment of herbicides and booster biocides along estuarine continuums in the Bay of Vilaine area (Brittany, France), Environmental Science and Pollution Research, vol.57, issue.2, pp.651-66, 2013.
DOI : 10.1007/s11356-012-1171-y

URL : https://hal.archives-ouvertes.fr/hal-01210182

M. Scheringer, S. Strempel, S. Hukari, C. Ng, M. Blepp et al., How many persistent organic pollutants should we expect?, Atmospheric Pollution Research, vol.3, issue.4, pp.383-91, 2012.
DOI : 10.5094/APR.2012.044

URL : http://doi.org/10.5094/apr.2012.044

M. Korkaric, M. Xiao, R. Behra, and R. Eggen, Acclimation of Chlamydomonas reinhardtii to ultraviolet radiation and its impact on chemical toxicity, Aquatic Toxicology, vol.167, pp.209-228, 2015.
DOI : 10.1016/j.aquatox.2015.08.008

H. Alyü-rü-k, Toxicities of diuron and irgarol on the hatchability and early stage development of Artemia salina, Turkish J Biol, vol.37, pp.151-158, 2013.

S. Né-lieu, F. Bonnemoy, J. Bonnet, L. Lefeuvre, D. Baudiffier et al., Ecotoxicological effects of diuron and chlorotoluron nitrate-induced photodegradation products: Monospecific and aquatic mesocosm-integrated studies, Environmental Toxicology and Chemistry, vol.2, issue.12, pp.2644-52, 2010.
DOI : 10.1002/etc.341

X. Guo, D. Hedgecock, W. Hershberger, K. Cooper, and S. Allen, Genetic Determinants of Protandric Sex in the Pacific Oyster, Crassostrea gigas Thunberg, Evolution, vol.52, issue.2, pp.394-402, 1998.
DOI : 10.2307/2411076

C. Fabioux, S. Pouvreau, L. Roux, F. Huvet, and A. , The oyster vasa-like gene: a specific marker of the germline in Crassostrea gigas, Biochemical and Biophysical Research Communications, vol.315, issue.4, pp.897-904, 2004.
DOI : 10.1016/j.bbrc.2004.01.145

A. Naimi, A. Martinez, M. Specq, B. Diss, M. Mathieu et al., Molecular cloning and gene expression of Cg-Foxl2 during the development and the adult gametogenetic cycle in the oyster Crassostrea gigas, Comparative Biochemistry and Physiology Part B: Biochemistry and Molecular Biology, vol.154, issue.1, pp.134-176, 2009.
DOI : 10.1016/j.cbpb.2009.05.011

M. Obata and A. Komaru, The mechanisms of primordial germ cell determination during embryogenesis in molluscan species, Isj-Invert Surviv, vol.9, pp.223-232, 2012.

G. Zhang, X. Fang, X. Guo, L. Li, R. Luo et al., The oyster genome reveals stress adaptation and complexity of shell formation, Nature, vol.10, issue.7418, pp.49-54, 2012.
DOI : 10.1038/nature11413

C. Olson and S. Roberts, Genome-wide profiling of DNA methylation and gene expression in Crassostrea gigas male gametes, Frontiers in Physiology, vol.2, issue.116, p.224, 2014.
DOI : 10.3389/fphys.2011.00116

S. Roberts and M. Gavery, Is There a Relationship between DNA Methylation and Phenotypic Plasticity in Invertebrates?, Frontiers in Physiology, vol.2, p.116, 2012.
DOI : 10.3389/fphys.2011.00116

A. Barranger, F. Akcha, J. Rouxel, R. Brizard, E. Maurouard et al., Study of genetic damage in the Japanese oyster induced by an environmentally-relevant exposure to diuron: Evidence of vertical transmission of DNA damage, Aquatic Toxicology, vol.146, pp.93-104, 2014.
DOI : 10.1016/j.aquatox.2013.10.032

A. Barranger, A. Benabdelmouna, L. Degremont, T. Burgeot, and F. Akcha, Parental exposure to environmental concentrations of diuron leads to aneuploidy in embryos of the Pacific oyster, as evidenced by fluorescent in situ hybridization, Aquatic Toxicology, vol.159, pp.36-43, 2015.
DOI : 10.1016/j.aquatox.2014.11.011

R. Rondon, F. Akcha, P. Alonso, D. Menard, J. Rouxel et al., Transcriptional changes in Crassostrea gigas oyster spat following a parental exposure to the herbicide diuron, Aquatic Toxicology, vol.175, pp.47-55, 2016.
DOI : 10.1016/j.aquatox.2016.03.007

URL : https://hal.archives-ouvertes.fr/hal-01311107

S. Foret, R. Kucharski, M. Pellegrini, S. Feng, S. Jacobsen et al., DNA methylation dynamics, metabolic fluxes, gene splicing, and alternative phenotypes in honey bees, Proceedings of the National Academy of Sciences, vol.38, issue.suppl_1, pp.4968-73, 2012.
DOI : 10.1093/nar/gkp896

N. Youngson and E. Whitelaw, Transgenerational Epigenetic Effects, Annual Review of Genomics and Human Genetics, vol.9, issue.1, pp.233-57, 2008.
DOI : 10.1146/annurev.genom.9.081307.164445

URL : http://arrow.latrobe.edu.au:8080/vital/access/manager/Repository/latrobe:35829/SOURCE1

R. Kucharski, J. Maleszka, S. Foret, and R. Maleszka, Nutritional Control of Reproductive Status in Honeybees via DNA Methylation, Science, vol.16, issue.11, pp.1827-1857, 2008.
DOI : 10.1101/gr.5012006

K. Verhoeven, J. Jansen, P. Van-dijk, and A. Biere, Stress-induced DNA methylation changes and their heritability in asexual dandelions, New Phytologist, vol.39, issue.4, pp.1108-1126, 2010.
DOI : 10.1111/j.1469-8137.2009.03121.x

P. Talbert and S. Henikoff, Environmental responses mediated by histone variants, Trends in Cell Biology, vol.24, issue.11, pp.642-50, 2014.
DOI : 10.1016/j.tcb.2014.07.006

A. Baccarelli and V. Bollati, Epigenetics and environmental chemicals, Current Opinion in Pediatrics, vol.21, issue.2, pp.243-51, 2009.
DOI : 10.1097/MOP.0b013e32832925cc

URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3035853

M. Skinner, M. Manikkam, and C. Guerrero-bosagna, Epigenetic transgenerational actions of environmental factors in disease etiology, Trends in Endocrinology & Metabolism, vol.21, issue.4, pp.214-236, 2010.
DOI : 10.1016/j.tem.2009.12.007

A. Devries and D. Vercelli, Epigenetics in allergic diseases, Current Opinion in Pediatrics, vol.27, issue.6, pp.719-742, 2015.
DOI : 10.1097/MOP.0000000000000285

X. Huo, D. Chen, Y. He, W. Zhu, W. Zhou et al., Bisphenol-A and Female Infertility: A Possible Role of Gene-Environment Interactions, International Journal of Environmental Research and Public Health, vol.1154, issue.9, pp.11101-11117, 2015.
DOI : 10.1016/j.reprotox.2010.10.012

M. Vandegehuchte and C. Janssen, Epigenetics in an ecotoxicological context, Mutation Research/Genetic Toxicology and Environmental Mutagenesis, vol.764, issue.765, pp.764-76536, 2014.
DOI : 10.1016/j.mrgentox.2013.08.008

S. Foo and M. Byrne, Acclimatization and Adaptive Capacity of Marine Species in a Changing Ocean, Adv Mar Biol, vol.74, pp.69-116, 2016.
DOI : 10.1016/bs.amb.2016.06.001

P. Calosi, D. Wit, P. Thor, P. Dupont, and S. , Will life find a way? Evolution of marine species under global change, Evolutionary Applications, vol.283, issue.9, pp.1035-1077, 2016.
DOI : 10.1111/eva.12418

L. Parker, O. Connor, W. Raftos, D. Portner, H. Ross et al., Persistence of Positive Carryover Effects in the Oyster, Saccostrea glomerata, following Transgenerational Exposure to Ocean Acidification, PLOS ONE, vol.6, issue.17, p.132276, 2015.
DOI : 10.1371/journal.pone.0132276.t001

P. Ross, L. Parker, and M. Byrne, Transgenerational responses of molluscs and echinoderms to changing ocean conditions, ICES Journal of Marine Science: Journal du Conseil, vol.73, issue.3, pp.537-586, 2016.
DOI : 10.1093/icesjms/fsv254

H. Nice, D. Morritt, M. Crane, and M. Thorndyke, Long-term and transgenerational effects of nonylphenol exposure at a key stage in the development of Crassostrea gigas. Possible endocrine disruption?, Marine Ecology Progress Series, vol.256, pp.293-300, 2003.
DOI : 10.3354/meps256293

D. Metzger and P. Schulte, Epigenomics in marine fishes, Marine Genomics, vol.30, pp.43-54, 2016.
DOI : 10.1016/j.margen.2016.01.004

H. Putnam, J. Davidson, and R. Gates, Ocean acidification influences host DNA methylation and phenotypic plasticity in environmentally susceptible corals, Evolutionary Applications, vol.116, issue.9, pp.1165-78, 2016.
DOI : 10.7717/peerj.215

URL : http://doi.org/10.1111/eva.12408

A. Marsh and A. Pasqualone, DNA methylation and temperature stress in an Antarctic polychaete, Spiophanes tcherniai, Frontiers in Physiology, vol.286, p.173, 2014.
DOI : 10.1126/science.286.5439.481

URL : http://doi.org/10.3389/fphys.2014.00173

F. Akcha, C. Spagnol, and J. Rouxel, Genotoxicity of diuron and glyphosate in oyster spermatozoa and embryos, Aquatic Toxicology, vol.106, issue.107, pp.104-117, 2012.
DOI : 10.1016/j.aquatox.2011.10.018

H. Mai, B. Morin, P. Pardon, P. Gonzalez, H. Budzinski et al., Environmental concentrations of irgarol, diuron and S-metolachlor induce deleterious effects on gametes and embryos of the Pacific oyster, Crassostrea gigas, Marine Environmental Research, vol.89, pp.1-8, 2013.
DOI : 10.1016/j.marenvres.2013.04.003

K. Bouilly, M. Bonnard, B. Gagnaire, R. T. Lapegue, and S. , Impact of Diuron on Aneuploidy and Hemocyte Parameters in Pacific Oyster, Crassostrea gigas, Archives of Environmental Contamination and Toxicology, vol.123, issue.1, pp.58-63, 2007.
DOI : 10.1007/s00244-005-0256-8

R. Dirks, H. Stunnenberg, and H. Marks, Genome-wide epigenomic profiling for biomarker discovery, Clinical Epigenetics, vol.10, issue.12, p.122, 2016.
DOI : 10.1038/nprot.2015.127

URL : http://doi.org/10.1186/s13148-016-0284-4

Y. Zhang, L. Breitling, Y. Balavarca, B. Holleczek, B. Schottker et al., Comparison and combination of blood DNA methylation at smoking-associated genes and at lung cancer-related genes in prediction of lung cancer mortality, International Journal of Cancer, vol.7, issue.11
DOI : 10.1002/ijc.30374

A. Partin, L. Van-neste, E. Klein, J. Gee, D. Troyer et al., Clinical Validation of an Epigenetic Assay to Predict Negative Histopathological Results in Repeat Prostate Biopsies, The Journal of Urology, vol.192, issue.4, pp.1081-1088, 2014.
DOI : 10.1016/j.juro.2014.04.013

M. Lebaron, R. Rasoulpour, J. Klapacz, R. Ellis-hutchings, H. Hollnagel et al., Epigenetics and chemical safety assessment, Mutation Research/Reviews in Mutation Research, vol.705, issue.2, pp.83-95, 2010.
DOI : 10.1016/j.mrrev.2010.04.003

L. Mirbahai and J. Chipman, Epigenetic memory of environmental organisms: A reflection of lifetime stressor exposures, Mutation Research/Genetic Toxicology and Environmental Mutagenesis, vol.764, issue.765
DOI : 10.1016/j.mrgentox.2013.10.003

D. Schubeler, Function and information content of DNA methylation, Nature, vol.62, issue.7534, pp.321-327, 2015.
DOI : 10.1038/ng.2442

A. Zemach, I. Mcdaniel, P. Silva, and D. Zilberman, Genome-Wide Evolutionary Analysis of Eukaryotic DNA Methylation, Science, vol.107, issue.1-3, pp.916-925, 2010.
DOI : 10.1023/A:1003990818251

S. Feng, S. Cokus, X. Zhang, P. Chen, M. Bostick et al., Conservation and divergence of methylation patterning in plants and animals, Proceedings of the National Academy of Sciences, vol.41, issue.8, pp.8689-94, 2010.
DOI : 10.1101/gr.88502

F. Capuano, M. Mulleder, R. Kok, H. Blom, and M. Ralser, , and Other Yeast Species, Analytical Chemistry, vol.86, issue.8, pp.3697-702, 2014.
DOI : 10.1021/ac500447w

V. Simpson, T. Johnson, and R. Hammen, DNA does not contain 5-methylcytosine at any time during development or aging, Nucleic Acids Research, vol.14, issue.16, pp.6711-6730, 1986.
DOI : 10.1093/nar/14.16.6711

URL : http://doi.org/10.1093/nar/14.16.6711

R. Bonasio, Q. Li, J. Lian, N. Mutti, J. L. Zhao et al., Genome-wide and Caste-Specific DNA Methylomes of the Ants Camponotus floridanus and Harpegnathos saltator, Current Biology, vol.22, issue.19, pp.1755-1764, 2012.
DOI : 10.1016/j.cub.2012.07.042

B. Hunt, K. Glastad, S. Yi, and M. Goodisman, Patterning and Regulatory Associations of DNA Methylation Are Mirrored by Histone Modifications in Insects, Genome Biology and Evolution, vol.5, issue.3, pp.591-599, 2013.
DOI : 10.1093/gbe/evt030

S. Beeler, G. Wong, J. Zheng, E. Bush, E. Remnant et al., ), G3: Genes|Genomes|Genetics, vol.4, issue.3, pp.383-391, 2014.
DOI : 10.1534/g3.113.008953

F. Gao, R. Wang, and M. Liu, Trichinella spiralis, potential model nematode for epigenetics and its implication in metazoan parasitism, Frontiers in Physiology, vol.4, p.410, 2014.
DOI : 10.3389/fphys.2013.00410

URL : http://doi.org/10.3389/fphys.2013.00410

X. Wang, Q. Li, J. Lian, L. Li, J. L. Cai et al., Genome-wide and single-base resolution DNA methylomes of the Pacific oyster Crassostrea gigas provide insight into the evolution of invertebrate CpG methylation, BMC Genomics, vol.15, issue.1, p.119, 2014.
DOI : 10.1093/bioinformatics/bth088

E. Dabe, R. Sanford, A. Kohn, Y. Bobkova, and L. Moroz, DNA Methylation in Basal Metazoans: Insights from Ctenophores, Integrative and Comparative Biology, vol.55, issue.6, pp.1096-110, 2015.
DOI : 10.1093/icb/icv086

URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4817592

S. Fneich, N. Dheilly, C. Adema, A. Rognon, M. Reichelt et al., 5-methyl-cytosine and 5-hydroxy-methyl-cytosine in the genome of Biomphalaria glabrata, a snail intermediate host of Schistosoma mansoni, Parasites & Vectors, vol.6, issue.1, p.167, 2013.
DOI : 10.1073/pnas.0900301106

URL : https://hal.archives-ouvertes.fr/halsde-00839033

S. Sarda, J. Zeng, B. Hunt, and S. Yi, The Evolution of Invertebrate Gene Body Methylation, Molecular Biology and Evolution, vol.29, issue.8, pp.1907-1923, 2012.
DOI : 10.1093/molbev/mss062

K. Glastad, B. Hunt, and M. Goodisman, DNA Methylation and Chromatin Organization in Insects: Insights from the Ant Camponotus floridanus, Genome Biology and Evolution, vol.7, issue.4, pp.931-973, 2015.
DOI : 10.1093/gbe/evv039

F. Lyko, S. Foret, R. Kucharski, S. Wolf, C. Falckenhayn et al., 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

A. Zhu, M. Chen, X. Zhang, and K. Storey, Gene structure, expression, and DNA methylation characteristics of sea cucumber cyclin B gene during aestivation, Gene, vol.594, issue.1, pp.82-90, 2016.
DOI : 10.1016/j.gene.2016.09.006

S. Patalano, A. Vlasova, C. Wyatt, P. Ewels, F. Camara et al., Molecular signatures of plastic phenotypes in two eusocial insect species with simple societies, Proceedings of the National Academy of Sciences, vol.68, issue.1, pp.13970-13975, 2015.
DOI : 10.11646/zootaxa.3647.2.1

D. Galbraith, X. Yang, E. Nino, S. Yi, and C. Grozinger, Parallel Epigenomic and Transcriptomic Responses to Viral Infection in Honey Bees (Apis mellifera), PLOS Pathogens, vol.15, issue.3, p.1004713, 2015.
DOI : 10.1371/journal.ppat.1004713.s004

URL : http://doi.org/10.1371/journal.ppat.1004713

G. Riviere, G. Wu, A. Fellous, D. Goux, P. Sourdaine et al., DNA Methylation Is Crucial for the Early Development in the Oyster C. gigas, Marine Biotechnology, vol.21, issue.6, pp.739-53, 2013.
DOI : 10.1007/s10126-013-9523-2

Y. Li, X. Huang, Y. Guan, Y. Shi, H. Zhang et al., DNA methylation is associated with expression level changes of galectin gene in mantle wound healing process of pearl oyster, Pinctada fucata, Fish & Shellfish Immunology, vol.45, issue.2, pp.912-920, 2015.
DOI : 10.1016/j.fsi.2015.06.016

E. Saint-carlier and G. Riviere, evidences a functional role for promoter DNA methylation in an invertebrate, FEBS Letters, vol.21, issue.13, pp.1459-66, 2015.
DOI : 10.1016/j.febslet.2015.04.043

P. Rajasethupathy, I. Antonov, R. Sheridan, S. Frey, C. Sander et al., A Role for Neuronal piRNAs in the Epigenetic Control of Memory-Related Synaptic Plasticity, Cell, vol.149, issue.3, pp.693-707, 2012.
DOI : 10.1016/j.cell.2012.02.057

M. Denissenko, J. Chen, M. Tang, and G. Pfeifer, Cytosine methylation determines hot spots of DNA damage in the human P53 gene, Proceedings of the National Academy of Sciences, vol.5, issue.7, pp.3893-3901, 1997.
DOI : 10.1093/carcin/5.7.931

D. Munaron, N. Tapie, H. Budzinski, B. Andral, and J. Gonzalez, Pharmaceuticals, alkylphenols and pesticides in Mediterranean coastal waters: Results from a pilot survey using passive samplers, Estuarine, Coastal and Shelf Science, vol.114, pp.82-92, 2012.
DOI : 10.1016/j.ecss.2011.09.009

S. Buisson, V. Bouchart, E. Guerlet, J. Malas, and K. Costil, , reared in a shellfish production area in Normandy (France), Journal of Environmental Science and Health, Part B, vol.37, issue.3, pp.655-64, 2008.
DOI : 10.1080/03601230802352732

R. Rosa, P. Alonso, A. Santini, A. Vergnes, and E. Bachere, High polymorphism in big defensin gene expression reveals presence???absence gene variability (PAV) in the oyster Crassostrea gigas, Developmental & Comparative Immunology, vol.49, issue.2, pp.231-239, 2015.
DOI : 10.1016/j.dci.2014.12.002

F. Krueger and S. Andrews, Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications, Bioinformatics, vol.27, issue.11, pp.1571-1573, 2011.
DOI : 10.1093/bioinformatics/btr167

URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3102221

A. Quinlan and I. Hall, BEDTools: a flexible suite of utilities for comparing genomic features, Bioinformatics, vol.26, issue.6, pp.841-843, 2010.
DOI : 10.1093/bioinformatics/btq033

H. Li, B. Handsaker, A. Wysoker, T. Fennell, J. Ruan et al., The Sequence Alignment/Map format and SAMtools, Bioinformatics, vol.25, issue.16, pp.2078-2087, 2009.
DOI : 10.1093/bioinformatics/btp352

URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2723002

A. Akalin, M. Kormaksson, S. Li, F. Garrett-bakelman, M. Figueroa et al., methylKit: a comprehensive R package for the analysis of genome-wide DNA methylation profiles, Genome Biology, vol.13, issue.10, p.87, 2012.
DOI : 10.1038/nbt.2153

G. Barturen, A. Rueda, J. Oliver, and M. Hackenberg, MethylExtract: High-Quality methylation maps and SNV calling from whole genome bisulfite sequencing data, F1000Res, vol.2, p.217, 2013.
DOI : 10.12688/f1000research.2-217.v2

URL : http://doi.org/10.12688/f1000research.2-217.v2

H. Thorvaldsdottir, J. Robinson, and J. Mesirov, Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration, Briefings in Bioinformatics, vol.14, issue.2, pp.178-92, 2012.
DOI : 10.1093/bib/bbs017

URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3603213

P. Danecek, A. Auton, G. Abecasis, C. Albers, E. Banks et al., The variant call format and VCFtools, Bioinformatics, vol.27, issue.15, pp.2156-2164, 2011.
DOI : 10.1093/bioinformatics/btr330

URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3137218

F. Ramirez, D. Ryan, B. Gruning, V. Bhardwaj, F. Kilpert et al., deepTools2: a next generation web server for deep-sequencing data analysis, Nucleic Acids Research, vol.44, issue.W1, pp.160-165, 2016.
DOI : 10.1093/nar/gkw257

C. Grunau, S. Clark, and A. Rosenthal, Bisulfite genomic sequencing: systematic investigation of critical experimental parameters, Nucleic Acids Research, vol.29, issue.13, p.65, 2001.
DOI : 10.1093/nar/29.13.e65

URL : http://doi.org/10.1093/nar/29.13.e65

L. Li and R. Dahiya, MethPrimer: designing primers for methylation PCRs, Bioinformatics, vol.18, issue.11, pp.1427-1458, 2002.
DOI : 10.1093/bioinformatics/18.11.1427

K. Tamura, G. Stecher, D. Peterson, A. Filipski, and S. Kumar, MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0, Molecular Biology and Evolution, vol.30, issue.12, pp.2725-2734, 2013.
DOI : 10.1093/molbev/mst197

URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3840312

A. Dereeper, V. Guignon, G. Blanc, S. Audic, S. Buffet et al., Phylogeny.fr: robust phylogenetic analysis for the non-specialist, Nucleic Acids Research, vol.36, issue.Web Server, pp.465-474, 2008.
DOI : 10.1093/nar/gkn180

URL : https://hal.archives-ouvertes.fr/lirmm-00324099

R. Rosa, J. De-lorgeril, P. Tailliez, R. Bruno, D. Piquemal et al., A hemocyte gene expression signature correlated with predictive capacity of oysters to survive Vibrio infections, BMC Genomics, vol.13, issue.1, p.252, 2012.
DOI : 10.1038/nprot.2008.73