J. De-lorgeril, R. Zenagui, R. Rosa, D. Piquemal, and E. Bachere, Whole Transcriptome Profiling of Successful Immune Response to Vibrio Infections in the Oyster Crassostrea gigas by Digital Gene Expression Analysis, PLoS ONE, vol.29, issue.8, p.23142, 2011.
DOI : 10.1371/journal.pone.0023142.s005

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

T. Renault, N. Faury, V. Barbosa-solomieu, and K. Moreau, Suppression substractive hybridisation (SSH) and real time PCR reveal differential gene expression in the Pacific cupped oyster, Crassostrea gigas, challenged with Ostreid herpesvirus 1, Developmental & Comparative Immunology, vol.35, issue.7, pp.725-735, 2011.
DOI : 10.1016/j.dci.2011.02.004

A. Segarra, L. Baillon, D. Tourbiez, A. Benabdelmouna, N. Faury et al., Ostreid herpesvirus type 1 replication and host response in adult Pacific oysters, Crassostrea gigas, Veterinary Research, vol.32, issue.1, p.103, 2014.
DOI : 10.1186/s13567-014-0103-x
URL : https://hal.archives-ouvertes.fr/hal-01290599

A. Segarra, F. Mauduit, N. Faury, S. Trancart, L. Dégremont et al., Dual transcriptomics of virus-host interactions: comparing two Pacific oyster families presenting contrasted susceptibility to ostreid herpesvirus 1, BMC Genomics, vol.15, issue.1, p.580, 2014.
DOI : 10.1186/1471-2164-15-580

L. Zhang, L. Li, X. Guo, G. Litman, L. Dishaw et al., Massive expansion and functional divergence of innate immune genes in a protostome, Scientific Reports, vol.493, p.8693, 2015.
DOI : 10.1038/srep08693

Y. He, A. Jouaux, S. Ford, C. Lelong, P. Sourdaine et al., Transcriptome analysis reveals strong and complex antiviral response in a mollusc, Fish & Shellfish Immunology, vol.46, issue.1, pp.131-144, 2015.
DOI : 10.1016/j.fsi.2015.05.023

C. Sauvage, N. Bierne, S. Lapegue, and P. Boudry, Single Nucleotide polymorphisms and their relationship to codon usage bias in the Pacific oyster Crassostrea gigas, Gene, vol.406, issue.1-2, pp.13-22, 2007.
DOI : 10.1016/j.gene.2007.05.011
URL : https://hal.archives-ouvertes.fr/halsde-00450670

A. Meistertzheim, S. Arnaud-haond, P. Boudry, and M. Thebault, Genetic structure of wild European populations of the invasive Pacific oyster Crassostrea gigas due to aquaculture practices, Marine Biology, vol.12, issue.3, pp.453-463, 2013.
DOI : 10.1007/s00227-012-2102-7
URL : https://hal.archives-ouvertes.fr/hal-00785362

J. Pepin, A. Riou, and R. T. , Rapid and sensitive detection of ostreid herpesvirus 1 in oyster samples by real-time PCR, Journal of Virological Methods, vol.149, issue.2, pp.269-276, 2008.
DOI : 10.1016/j.jviromet.2008.01.022

D. Schikorski, R. T. Saulnier, D. Faury, N. Moreau, P. Pepin et al., Experimental infection of Pacific oyster Crassostrea gigas spat by ostreid herpesvirus 1: demonstration of oyster spat susceptibility, Veterinary Research, vol.42, issue.1, p.27, 2011.
DOI : 10.1186/1297-9716-42-27

T. Renault and I. Arzul, Herpes-like virus infections in hatchery-reared bivalve larvae in Europe: specific viral DNA detection by PCR, Journal of Fish Diseases, vol.230, issue.3, pp.161-167, 2001.
DOI : 10.1016/S0166-0934(00)00175-0

A. Segarra, J. Pepin, I. Arzul, B. Morga, N. Faury et al., Detection and description of a particular Ostreid herpesvirus 1 genotype associated with massive mortality outbreaks of Pacific oysters, Crassostrea gigas, in France in 2008, Virus Research, vol.153, issue.1, pp.92-99, 2008.
DOI : 10.1016/j.virusres.2010.07.011

M. Gay, R. T. Pons, A. , L. Roux, and F. , Two Vibrio splendidus related strains collaborate to kill Crassostrea gigas: taxonomy and host alterations, Diseases of Aquatic Organisms, vol.62, pp.65-74, 2004.
DOI : 10.3354/dao062065

M. Duperthuy, J. Binesse, L. Roux, F. Romestand, B. Caro et al., The major outer membrane protein OmpU of Vibrio splendidus contributes to host antimicrobial peptide resistance and is required for virulence in the oyster Crassostrea gigas, Environmental Microbiology, vol.149, issue.4, pp.951-963, 2010.
DOI : 10.1111/j.1462-2920.2009.02138.x

D. Saulnier, D. Decker, S. Haffner, and P. , Real-time PCR assay for rapid detection and quantification of Vibrio aestuarianus in oyster and seawater: A useful tool for epidemiologic studies, Journal of Microbiological Methods, vol.77, issue.2, pp.191-197, 2009.
DOI : 10.1016/j.mimet.2009.01.021

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

E. Fleury, A. Huvet, C. Lelong, J. De-lorgeril, V. Boulo et al., Generation and analysis of a 29,745 unique Expressed Sequence Tags from the Pacific oyster (Crassostrea gigas) assembled into a publicly accessible database: the GigasDatabase, BMC Genomics, vol.10, issue.1, p.341, 2009.
DOI : 10.1186/1471-2164-10-341
URL : https://hal.archives-ouvertes.fr/inria-00435769

K. Livak and T. Schmittgen, Analysis of Relative Gene Expression Data Using Real-Time Quantitative PCR and the 2???????CT Method, Methods, vol.25, issue.4, pp.402-408, 2001.
DOI : 10.1006/meth.2001.1262

P. Azema, M. Travers, D. Lorgeril, J. Tourbiez, D. Degremont et al., Can selection for resistance to OsHV-1 infection modify susceptibility to Vibrio aestuarianus infection in Crassostrea gigas? First insights from experimental challenges using primary and successive exposures, Veterinary Research, vol.408, issue.1, p.139, 2015.
DOI : 10.1186/s13567-015-0282-0
URL : https://hal.archives-ouvertes.fr/hal-01259809

A. Segarra, N. Faury, J. Pepin, and R. T. , Transcriptomic study of 39 ostreid herpesvirus 1 genes during an experimental infection, Journal of Invertebrate Pathology, vol.119, pp.5-11, 2014.
DOI : 10.1016/j.jip.2014.03.002

J. Normand, R. Li, V. Quillien, J. Nicolas, P. Boudry et al., Contrasted survival under field or controlled conditions displays associations between mRNA levels of candidate genes and response to OsHV-1 infection in the Pacific oyster Crassostrea gigas, Marine Genomics, vol.15, pp.95-102, 2014.
DOI : 10.1016/j.margen.2014.02.002

F. Pernet, J. Barret, L. Gall, P. Corporeau, C. Dégremont et al., Mass mortalities of Pacific oysters Crassostrea gigas reflect infectious diseases and vary with farming practices in the Mediterranean Thau lagoon, France, Aquaculture Environment Interactions, vol.2, issue.3, pp.215-237, 2012.
DOI : 10.3354/aei00041

L. Degremont, Size and genotype affect resistance to mortality caused by OsHV-1 in Crassostrea gigas, Aquaculture, vol.416, issue.417, pp.129-134, 2013.
DOI : 10.1016/j.aquaculture.2013.09.011

C. Martenot, E. Oden, E. Travaille, J. Males, and M. Houssin, Detection of different variants of Ostreid Herpesvirus 1 in the Pacific oyster, Crassostrea gigas between 2008 and 2010, Virus Research, vol.160, issue.1-2, pp.25-31, 2008.
DOI : 10.1016/j.virusres.2011.04.012

E. Oden, C. Martenot, M. Berthaux, E. Travaille, J. Malas et al., Quantification of ostreid herpesvirus 1 (OsHV-1) in Crassostrea gigas by real-time PCR: Determination of a viral load threshold to prevent summer mortalities, Aquaculture, vol.317, issue.1-4, pp.27-31, 2011.
DOI : 10.1016/j.aquaculture.2011.04.001

I. Paul-pont, N. Dhand, and R. Whittington, Influence of husbandry practices on OsHV-1 associated mortality of Pacific oysters Crassostrea gigas, Aquaculture, vol.412, issue.413, pp.202-214, 2013.
DOI : 10.1016/j.aquaculture.2013.07.038

C. Martenot, S. Fourour, E. Oden, A. Jouaux, E. Travaille et al., Houssin M (2012) Detection of the OsHV-1 ?Var in the Pacific oyster Crassostrea gigas before 2008 in France and description of two new microvariants of the Ostreid hepesvirus 1 (OsHV-1), Aquaculture, vol.338, pp.293-296

L. Dégremont, Evidence of herpesvirus (OsHV-1) resistance in juvenile Crassostrea gigas selected for high resistance to the summer mortality phenomenon, Aquaculture, vol.317, issue.1-4, pp.94-98, 2011.
DOI : 10.1016/j.aquaculture.2011.04.029

R. Randall and S. Goodbourn, Interferons and viruses: an interplay between induction, signalling, antiviral responses and virus countermeasures, Journal of General Virology, vol.89, issue.1, pp.1-47, 2008.
DOI : 10.1099/vir.0.83391-0

W. Schneider, D. Chevillotte, M. Rice, and C. , Interferon-Stimulated Genes: A Complex Web of Host Defenses, Annual Review of Immunology, vol.32, issue.1, pp.513-545, 2014.
DOI : 10.1146/annurev-immunol-032713-120231

T. Green, D. Raftos, P. Speck, and C. Montagnani, Antiviral immunity in marine molluscs, Journal of General Virology, vol.96, issue.9, pp.2471-2482, 2015.
DOI : 10.1099/jgv.0.000244
URL : https://hal.archives-ouvertes.fr/hal-01259807

T. Green and C. Montagnani, Poly I:C induces a protective antiviral immune response in the Pacific oyster (Crassostrea gigas) against subsequent challenge with Ostreid herpesvirus (OsHV-1 ??var), Fish & Shellfish Immunology, vol.35, issue.2, pp.382-388, 2013.
DOI : 10.1016/j.fsi.2013.04.051

J. Schoggins and C. Rice, Interferon-stimulated genes and their antiviral effector functions, Current Opinion in Virology, vol.1, issue.6, pp.519-525, 2011.
DOI : 10.1016/j.coviro.2011.10.008

J. Hiscott, N. Grandvaux, S. Sharma, B. Tenoever, M. Servant et al., Convergence of the NF-??B and Interferon Signaling Pathways in the Regulation of Antiviral Defense and Apoptosis, Annals of the New York Academy of Sciences, vol.300, issue.1, pp.237-248, 2003.
DOI : 10.1196/annals.1299.042

J. Jin, H. Hu, H. Li, J. Yu, Y. Xiao et al., Noncanonical NF-??B Pathway Controls the Production of Type I Interferons in Antiviral Innate Immunity, Immunity, vol.40, issue.3, pp.342-354, 2014.
DOI : 10.1016/j.immuni.2014.02.006

B. Beutler, C. Eidenschenk, K. Crozat, J. Imler, S. Takeuchi et al., Genetic analysis of resistance to viral infection, Nature Reviews Immunology, vol.409, issue.10, pp.753-766, 2007.
DOI : 10.1038/nri2174

M. Hayden and S. Ghosh, Signaling to NF-??B, Genes & Development, vol.18, issue.18, pp.2195-2224, 2004.
DOI : 10.1101/gad.1228704

F. Mercurio and A. Manning, NF-??B as a primary regulator of the stress response, Oncogene, vol.18, issue.45, pp.6163-6171, 1999.
DOI : 10.1038/sj.onc.1203174

A. Oeckinghaus, M. Hayden, and S. Ghosh, Crosstalk in NF-??B signaling pathways, Nature Immunology, vol.13, issue.8, pp.695-708, 2011.
DOI : 10.1016/j.cell.2007.07.009

S. Ludwig and O. Planz, Influenza viruses and the NF-kappaB signaling pathway?towards a novel concept of antiviral therapy, Biol Chem, vol.389, pp.1307-1312, 2008.

T. Green and A. Barnes, Bacterial diversity of the digestive gland of Sydney rock oysters, Saccostrea glomerata infected with the paramyxean parasite, Marteilia sydneyi, J Appl Microbiol, vol.109, pp.613-622, 2010.

G. Hernandez-zarate and J. Olmos-soto, Identification of bacterial diversity in the oyster Crassostrea gigas by fluorescent in situ hybridization and polymerase chain reaction, Journal of Applied Microbiology, vol.59, issue.4, pp.664-672, 2006.
DOI : 10.1128/AEM.67.1.434-444.2001

S. Domeneghetti, L. Varotto, M. Civettini, U. Rosani, M. Stauder et al., Mortality occurrence and pathogen detection in Crassostrea gigas and Mytilus galloprovincialis close-growing in shallow waters (Goro lagoon, Italy), Fish & Shellfish Immunology, vol.41, issue.1, pp.37-44, 2014.
DOI : 10.1016/j.fsi.2014.05.023