R. Webster, G. Sharp, and E. Claas, Interspecies Transmission of Influenza Viruses, American Journal of Respiratory and Critical Care Medicine, vol.152, issue.4_pt_2, pp.25-30, 1995.
DOI : 10.1164/ajrccm/152.4_Pt_2.S25

Y. Kawaoka, S. Krauss, and R. Webster, Avian-to-human transmission of the PB1 gene of influenza A viruses in the 1957 and 1968 pandemics, J Virol, vol.63, pp.4603-4608, 1989.

S. Lindstrom, N. Cox, and A. Klimov, Genetic analysis of human H2N2 and early H3N2 influenza viruses, 1957???1972: evidence for genetic divergence and multiple reassortment events, Virology, vol.328, issue.1, pp.101-119, 2004.
DOI : 10.1016/j.virol.2004.06.009

F. Dawood, S. Jain, L. Finelli, M. Shaw, S. Lindstrom et al., Emergence of a novel swine-origin influenza A (H1N1) virus in humans, N Engl J Med, vol.360, pp.2605-2615, 2009.

J. Wasilenko, C. Lee, L. Sarmento, E. Spackman, D. Kapczynski et al., NP, PB1, and PB2 Viral Genes Contribute to Altered Replication of H5N1 Avian Influenza Viruses in Chickens, Journal of Virology, vol.82, issue.9, pp.4544-4553, 2008.
DOI : 10.1128/JVI.02642-07

D. Hulse-post, J. Franks, K. Boyd, R. Salomon, E. Hoffmann et al., Molecular Changes in the Polymerase Genes (PA and PB1) Associated with High Pathogenicity of H5N1 Influenza Virus in Mallard Ducks, Journal of Virology, vol.81, issue.16, pp.8515-8524, 2007.
DOI : 10.1128/JVI.00435-07

R. Seyer, E. Hrincius, D. Ritzel, M. Abt, A. Mellmann et al., Synergistic Adaptive Mutations in the Hemagglutinin and Polymerase Acidic Protein Lead to Increased Virulence of Pandemic 2009 H1N1 Influenza A Virus in Mice, Journal of Infectious Diseases, vol.205, issue.2, pp.262-271, 2012.
DOI : 10.1093/infdis/jir716

R. Salomon, J. Franks, E. Govorkova, N. Ilyushina, H. Yen et al., The polymerase complex genes contribute to the high virulence of the human H5N1 influenza virus isolate A/Vietnam/1203/04, The Journal of Experimental Medicine, vol.63, issue.3, pp.689-697, 1203.
DOI : 10.1006/viro.1993.1459

P. Palese, M. Shaw, and P. Howley, Orthomyxoviridae: The Viruses and Their Replication In Fields Virology, pp.1647-1689

T. Toyoda, D. Adyshev, M. Kobayashi, A. Iwata, and A. Ishihama, Molecular Assembly of the Influenza Virus RNA Polymerase: Determination of the Subunit-Subunit Contact Sites, Journal of General Virology, vol.77, issue.9, pp.772149-2157, 1996.
DOI : 10.1099/0022-1317-77-9-2149

M. Kobayashi, T. Toyoda, and A. Ishihama, Influenza virus PB1 protein is the minimal and essential subunit of RNA polymerase, Archives of Virology, vol.88, issue.3-4, pp.525-539, 1996.
DOI : 10.1007/BF01718315

S. Biswas and D. Nayak, Mutational analysis of the conserved motifs of influenza A virus polymerase basic protein 1, J Virol, vol.68, pp.1819-1826, 1994.

I. Ulmanen, B. Broni, and R. Krug, Role of two of the influenza virus core P proteins in recognizing cap 1 structures (m7GpppNm) on RNAs and in initiating viral RNA transcription, Proceedings of the National Academy of Sciences, vol.78, issue.12, pp.7355-7359, 1981.
DOI : 10.1073/pnas.78.12.7355

M. Li, P. Rao, and R. Krug, The active sites of the influenza cap-dependent endonuclease are on different polymerase subunits, The EMBO Journal, vol.20, issue.8, pp.2078-2086, 2001.
DOI : 10.1093/emboj/20.8.2078

D. Blaas, E. Patzelt, and E. Kuechler, Cap-recognizing protein of influenza virus, Virology, vol.116, issue.1, pp.339-348, 1982.
DOI : 10.1016/0042-6822(82)90425-1

T. Crepin, A. Dias, A. Palencia, C. Swale, S. Cusack et al., Mutational and Metal Binding Analysis of the Endonuclease Domain of the Influenza Virus Polymerase PA Subunit, Journal of Virology, vol.84, issue.18, pp.9096-9104, 2010.
DOI : 10.1128/JVI.00995-10

A. Dias, D. Bouvier, T. Crepin, A. Mccarthy, D. Hart et al., The cap-snatching endonuclease of influenza virus polymerase resides in the PA subunit, Nature, vol.13, issue.7240, pp.914-918, 2009.
DOI : 10.1038/nature07745

E. Fodor and G. Brownlee, Influenza virus replication, pp.1-29
DOI : 10.1016/S0168-7069(02)07002-7

K. Hara, F. Schmidt, M. Crow, and G. Brownlee, Amino Acid Residues in the N-Terminal Region of the PA Subunit of Influenza A Virus RNA Polymerase Play a Critical Role in Protein Stability, Endonuclease Activity, Cap Binding, and Virion RNA Promoter Binding, Journal of Virology, vol.80, issue.16, pp.7789-7798, 2006.
DOI : 10.1128/JVI.00600-06

P. Yuan, M. Bartlam, Z. Lou, S. Chen, J. Zhou et al., Crystal structure of an avian influenza polymerase PAN reveals an endonuclease active site, Nature, vol.54, issue.7240, pp.909-913, 2009.
DOI : 10.1038/nature07720

K. Kawakami, K. Mizumoto, and A. Ishihama, RNA polymerase of influenza virus. IV. Catalytic properties of the capped RNA endonuclease associated with the RNA polymerase, Nucleic Acids Research, vol.11, issue.11, pp.3637-3649, 1983.
DOI : 10.1093/nar/11.11.3637

S. Plotch, M. Bouloy, I. Ulmanen, and R. Krug, A unique cap(m7GpppXm)-dependent influenza virion endonuclease cleaves capped RNAs to generate the primers that initiate viral RNA transcription, Cell, vol.23, issue.3, pp.847-858, 1981.
DOI : 10.1016/0092-8674(81)90449-9

R. Krug, F. Alonso-caplan, I. Julkunen, and M. Katze, Expression and Replication of the Influenza Virus Genome, pp.89-152
DOI : 10.1007/978-1-4613-0811-9_2

T. Deng, F. Vreede, and G. Brownlee, Different De Novo Initiation Strategies Are Used by Influenza Virus RNA Polymerase on Its cRNA and Viral RNA Promoters during Viral RNA Replication, Journal of Virology, vol.80, issue.5, pp.2337-2348, 2006.
DOI : 10.1128/JVI.80.5.2337-2348.2006

S. Zhang, J. Wang, Q. Wang, and T. Toyoda, Internal Initiation of Influenza Virus Replication of Viral RNA and Complementary RNA in Vitro, Journal of Biological Chemistry, vol.285, issue.52, pp.41194-41201, 2010.
DOI : 10.1074/jbc.M110.130062

URL : https://hal.archives-ouvertes.fr/pasteur-00624941

G. Neumann, K. Shinya, and Y. Kawaoka, Molecular pathogenesis of H5N1 influenza virus infections, Antivir Ther, vol.12, pp.617-626, 2007.

A. Abdel-ghafar, T. Chotpitayasunondh, Z. Gao, F. Hayden, D. Nguyen et al., Update on avian influenza A (H5N1) virus infection in humans, N Engl J Med, vol.358, pp.261-273, 2008.

T. Uyeki, Global epidemiology of human infections with highly pathogenic avian influenza A (H5N1) viruses, Respirology, vol.12, issue.s1, pp.2-9, 2008.
DOI : 10.1186/1471-2334-7-132

T. Maines, L. Chen, Y. Matsuoka, H. Chen, T. Rowe et al., Lack of transmission of H5N1 avian-human reassortant influenza viruses in a ferret model, Proceedings of the National Academy of Sciences, vol.103, issue.32, pp.12121-12126, 2006.
DOI : 10.1073/pnas.0605134103

C. Li, M. Hatta, S. Watanabe, G. Neumann, and Y. Kawaoka, Compatibility among Polymerase Subunit Proteins Is a Restricting Factor in Reassortment between Equine H7N7 and Human H3N2 Influenza Viruses, Journal of Virology, vol.82, issue.23, pp.11880-11888, 2008.
DOI : 10.1128/JVI.01445-08

L. Chen, C. Davis, H. Zhou, N. Cox, and R. Donis, Genetic Compatibility and Virulence of Reassortants Derived from Contemporary Avian H5N1 and Human H3N2 Influenza A Viruses, PLoS Pathogens, vol.80, issue.5, p.1000072, 2008.
DOI : 10.1371/journal.ppat.1000072.g005

M. Hatta, P. Halfmann, K. Wells, and Y. Kawaoka, Human Influenza A Viral Genes Responsible for the Restriction of Its Replication in Duck Intestine, Virology, vol.295, issue.2, pp.250-255, 2002.
DOI : 10.1006/viro.2002.1358

R. Gutiérrez, M. Naughtin, S. Horm, S. San, and P. Buchy, A(H5N1) Virus Evolution in South East Asia, Viruses, vol.1, issue.3, pp.335-361, 2009.
DOI : 10.3390/v1030335

T. Kashiwagi, B. Leung, T. Deng, H. Chen, and G. Brownlee, The N-terminal region of the PA subunit of the RNA polymerase of influenza A/HongKong, H5N1) influences promoter binding, p.5473, 2009.

E. Fodor, M. Crow, L. Mingay, T. Deng, J. Sharps et al., A Single Amino Acid Mutation in the PA Subunit of the Influenza Virus RNA Polymerase Inhibits Endonucleolytic Cleavage of Capped RNAs, Journal of Virology, vol.76, issue.18, pp.8989-9001, 2002.
DOI : 10.1128/JVI.76.18.8989-9001.2002

K. Hara, M. Shiota, H. Kido, Y. Ohtsu, T. Kashiwagi et al., Influenza virus RNA polymerase PA subunit is a novel serine protease with Ser624 at the active site, Genes to Cells, vol.78, issue.2, pp.87-97, 2001.
DOI : 10.1093/nar/25.12.2274

J. Sanz-ezquerro, T. Zurcher, S. De-la-luna, J. Ortin, and A. Nieto, The aminoterminal one-third of the influenza virus PA protein is responsible for the induction of proteolysis, J Virol, vol.70, pp.1905-1911, 1996.

M. Song, P. Pascua, J. Lee, Y. Baek, O. Lee et al., The Polymerase Acidic Protein Gene of Influenza A Virus Contributes to Pathogenicity in a Mouse Model, Journal of Virology, vol.83, issue.23, pp.12325-12335, 2009.
DOI : 10.1128/JVI.01373-09

T. Kashiwagi, K. Hara, Y. Nakazono, N. Hamada, and H. Watanabe, Artificial Hybrids of Influenza A Virus RNA Polymerase Reveal PA Subunit Modulates Its Thermal Sensitivity, PLoS ONE, vol.362, issue.Pt 9, p.15140, 2010.
DOI : 10.1371/journal.pone.0015140.t002

P. Buchy, S. Mardy, S. Vong, T. Toyoda, J. Aubin et al., Influenza A/H5N1 virus infection in humans in Cambodia, Journal of Clinical Virology, vol.39, issue.3, pp.164-168, 2007.
DOI : 10.1016/j.jcv.2007.04.010

URL : https://hal.archives-ouvertes.fr/hal-00167807

T. Toyoda, K. Hara, and Y. Imamura, Ser624 of the PA subunit of Influenza A virus is not essential for viral growth in cells and mice, but required for the maximal viral growth, Archives of Virology, vol.148, issue.9, pp.1687-1696, 2003.
DOI : 10.1007/s00705-003-0140-7

H. Jiang, S. Zhang, Q. Wang, J. Wang, L. Geng et al., Influenza virus genome C4 promoter/origin attenuates its transcription and replication activity by the low polymerase recognition activity, Virology, vol.408, issue.2, pp.190-196, 2010.
DOI : 10.1016/j.virol.2010.09.022

URL : https://hal.archives-ouvertes.fr/pasteur-00624959

L. Reed and H. Muench, Simple method of estimating 50 per cent endpoinds, Amer J Hyg, vol.27, pp.493-497, 1938.

C. Wang and R. Youle, The Role of Mitochondria in Apoptosis, Annual Review of Genetics, vol.43, issue.1, pp.95-118, 2009.
DOI : 10.1146/annurev-genet-102108-134850

J. Li and J. Yuan, Caspases in apoptosis and beyond, Oncogene, vol.116, issue.48, pp.6194-6206, 2008.
DOI : 10.1016/S0092-8674(00)80501-2

A. Roulston, R. Marcellus, and P. Branton, Viruses and Apoptosis, Annual Review of Microbiology, vol.53, issue.1, pp.577-628, 1999.
DOI : 10.1146/annurev.micro.53.1.577

S. Desagher and J. Martinou, Mitochondria as the central control point of apoptosis, Trends in Cell Biology, vol.10, issue.9, pp.369-377, 2000.
DOI : 10.1016/S0962-8924(00)01803-1

G. Kroemer, The proto-oncogene Bcl-2 and its role in regulating apoptosis, Nature Medicine, vol.53, issue.6, pp.614-620, 1997.
DOI : 10.1006/excr.1996.0194

G. Kroemer, Mitochondrial implication in apoptosis. Towards an endosymbiont hypothesis of apoptosis evolution, Cell Death and Differentiation, vol.4, issue.6, pp.443-456, 1997.
DOI : 10.1038/sj.cdd.4400266

G. Gabriel, B. Dauber, T. Wolff, O. Planz, H. Klenk et al., The viral polymerase mediates adaptation of an avian influenza virus to a mammalian host, Proceedings of the National Academy of Sciences, vol.102, issue.51, pp.18590-18595, 2005.
DOI : 10.1073/pnas.0507415102

Z. Li, H. Chen, P. Jiao, G. Deng, G. Tian et al., Molecular Basis of Replication of Duck H5N1 Influenza Viruses in a Mammalian Mouse Model, Journal of Virology, vol.79, issue.18, pp.12058-12064, 2005.
DOI : 10.1128/JVI.79.18.12058-12064.2005

M. Hatta, P. Gao, P. Halfmann, and Y. Kawaoka, Molecular Basis for High Virulence of Hong Kong H5N1 Influenza A Viruses, Science, vol.293, issue.5536, pp.1840-1842, 2001.
DOI : 10.1126/science.1062882

G. Gabriel, A. Herwig, and H. Klenk, Interaction of Polymerase Subunit PB2 and NP with Importin ??1 Is a Determinant of Host Range of Influenza A Virus, PLoS Pathogens, vol.73, issue.2, p.11, 2008.
DOI : 10.1371/journal.ppat.0040011.sg005

A. Mehle and J. Doudna, An Inhibitory Activity in Human Cells Restricts the Function of an Avian-like Influenza Virus Polymerase, Cell Host & Microbe, vol.4, issue.2, pp.111-122, 2008.
DOI : 10.1016/j.chom.2008.06.007

A. Mehle and J. Doudna, Adaptive strategies of the influenza virus polymerase for replication in humans, Proceedings of the National Academy of Sciences, vol.106, issue.50, pp.21312-21316, 2009.
DOI : 10.1073/pnas.0911915106

G. Neumann, T. Watanabe, H. Ito, S. Watanabe, H. Goto et al., Generation of influenza A viruses entirely from cloned cDNAs, Proceedings of the National Academy of Sciences, vol.96, issue.16, pp.9345-9350, 1999.
DOI : 10.1073/pnas.96.16.9345

L. Sarmento, C. Afonso, C. Estevez, J. Wasilenko, and M. Pantin-jackwood, Differential host gene expression in cells infected with highly pathogenic H5N1 avian influenza viruses, Veterinary Immunology and Immunopathology, vol.125, issue.3-4, pp.291-302, 2008.
DOI : 10.1016/j.vetimm.2008.05.021

D. Vester, E. Rapp, D. Gade, Y. Genzel, and U. Reichl, Quantitative analysis of cellular proteome alterations in human influenza A virus-infected mammalian cell lines, PROTEOMICS, vol.582, issue.12, pp.3316-3327, 2009.
DOI : 10.1002/pmic.200800893

H. Kato, O. Takeuchi, S. Sato, M. Yoneyama, M. Yamamoto et al., Differential roles of MDA5 and RIG-I helicases in the recognition of RNA viruses, Nature, vol.78, issue.7089, pp.101-105, 2006.
DOI : 10.1038/nature04734

Y. Loo, J. Fornek, N. Crochet, G. Bajwa, O. Perwitasari et al., Distinct RIG-I and MDA5 Signaling by RNA Viruses in Innate Immunity, Journal of Virology, vol.82, issue.1, pp.335-345, 2008.
DOI : 10.1128/JVI.01080-07

M. Yoneyama and T. Fujita, RNA recognition and signal transduction by RIG-I-like receptors, Immunological Reviews, vol.282, issue.1, pp.54-65, 2009.
DOI : 10.1111/j.1600-065X.2008.00727.x

J. Rehwinkel, C. Tan, D. Goubau, O. Schulz, A. Pichlmair et al., RIG-I Detects Viral Genomic RNA during Negative-Strand RNA Virus Infection, Cell, vol.140, issue.3, pp.397-408, 2010.
DOI : 10.1016/j.cell.2010.01.020

O. Haller, G. Kochs, and F. Weber, The interferon response circuit: Induction and suppression by pathogenic viruses, Virology, vol.344, issue.1, pp.119-130, 2006.
DOI : 10.1016/j.virol.2005.09.024

T. Taniguchi and A. Takaoka, The interferon-??/?? system in antiviral responses: a multimodal machinery of gene regulation by the IRF family of transcription factors, Current Opinion in Immunology, vol.14, issue.1, pp.111-116, 2002.
DOI : 10.1016/S0952-7915(01)00305-3

G. Price, A. Gaszewska-mastarlarz, and D. Moskophidis, The Role of Alpha/Beta and Gamma Interferons in Development of Immunity to Influenza A Virus in Mice, Journal of Virology, vol.74, issue.9, pp.3996-4003, 2000.
DOI : 10.1128/JVI.74.9.3996-4003.2000

J. Mosca and P. Pitha, Transcriptional and posttranscriptional regulation of exogenous human beta interferon gene in simian cells defective in interferon synthesis., Molecular and Cellular Biology, vol.6, issue.6, pp.2279-2283, 1986.
DOI : 10.1128/MCB.6.6.2279

S. Kuchipudi, S. Dunham, N. R. White, G. Coward, V. Slomka et al., Rapid death of duck cells infected with influenza: a potential mechanism for host resistance to H5N1, Immunology and Cell Biology, vol.178, issue.1, 2011.
DOI : 10.1073/pnas.1001755107

E. Brydon, S. Morris, and C. Sweet, Role of apoptosis and cytokines in influenza virus morbidity, FEMS Microbiology Reviews, vol.29, issue.4, pp.837-850, 2005.
DOI : 10.1016/j.femsre.2004.12.003

C. Olsen, J. Kehren, N. Dybdahl-sissoko, and V. Hinshaw, bcl-2 alters influenza virus yield, spread, and hemagglutinin glycosylation, J Virol, vol.70, pp.663-666, 1996.

W. Wurzer, O. Planz, C. Ehrhardt, M. Giner, T. Silberzahn et al., Caspase 3 activation is essential for efficient influenza virus propagation, The EMBO Journal, vol.22, issue.11, pp.2717-2728, 2003.
DOI : 10.1093/emboj/cdg279

J. Mclean, E. Datan, D. Matassov, and Z. Zakeri, Lack of Bax Prevents Influenza A Virus-Induced Apoptosis and Causes Diminished Viral Replication, Journal of Virology, vol.83, issue.16, pp.8233-8246, 2009.
DOI : 10.1128/JVI.02672-08

K. Machida, K. Tsukiyama-kohara, E. Seike, S. Tone, F. Shibasaki et al., Inhibition of Cytochrome c Release in Fas-mediated Signaling Pathway in Transgenic Mice Induced to Express Hepatitis C Viral Proteins, Journal of Biological Chemistry, vol.276, issue.15, pp.12140-12146, 2001.
DOI : 10.1074/jbc.M010137200

T. Pe-'ery and M. Mathews, Viral translational strategies and host defense mechanism In Translational Control of Gene Expression, pp.371-424, 2000.

J. Mclean, A. Ruck, A. Shirazian, F. Pooyaei-mehr, and Z. Zakeri, Viral manipulation of cell death, Curr Pharm Des, vol.14, pp.198-220, 2008.

D. Zamarin, A. Garcia-sastre, X. Xiao, R. Wang, and P. Palese, Influenza Virus PB1-F2 Protein Induces Cell Death through Mitochondrial ANT3 and VDAC1, PLoS Pathogens, vol.14, issue.1, p.4, 2005.
DOI : 0890-9369(2000)014[2060:TAMDLO]2.0.CO;2

D. Zamarin, M. Ortigoza, and P. Palese, Influenza A Virus PB1-F2 Protein Contributes to Viral Pathogenesis in Mice, Journal of Virology, vol.80, issue.16, pp.7976-7983, 2006.
DOI : 10.1128/JVI.00415-06

S. Zhang, Q. Wang, J. Wang, K. Mizumoto, and T. Toyoda, Two mutations in the C-terminal domain of influenza virus RNA polymerase PB2 enhance transcription by enhancing cap-1 RNA binding activity, Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms, vol.1819, issue.1, pp.78-83, 2012.
DOI : 10.1016/j.bbagrm.2011.11.006

URL : https://hal.archives-ouvertes.fr/pasteur-00723715

S. Zhang, L. Weng, L. Geng, J. Wang, J. Zhou et al., Biochemical and kinetic analysis of the influenza virus RNA polymerase purified from insect cells, Biochemical and Biophysical Research Communications, vol.391, issue.1, pp.570-574, 2010.
DOI : 10.1016/j.bbrc.2009.11.100

URL : https://hal.archives-ouvertes.fr/pasteur-00624863