D. Musso and D. Gubler, SUMMARY, Clinical Microbiology Reviews, vol.29, issue.3, pp.487-52400072, 2016.
DOI : 10.1128/CMR.00072-15

URL : https://hal.archives-ouvertes.fr/in2p3-00012123

M. Duffy, T. Chen, W. Hancock, A. Powers, J. Kool et al., Zika Virus Outbreak on Yap Island, Federated States of Micronesia, New England Journal of Medicine, vol.360, issue.24, pp.2536-2543, 2009.
DOI : 10.1056/NEJMoa0805715

URL : https://hal.archives-ouvertes.fr/pasteur-00734543

E. Oehler, L. Watrin, P. Larre, I. Leparc-goffart, S. Lastère et al., Zika virus infection complicated by Guillain-Barré syndrome? case report, French Polynesia, Euro Surveill, vol.19, 2013.
DOI : 10.2807/1560-7917.es2014.19.9.20720

URL : http://doi.org/10.2807/1560-7917.es2014.19.9.20720

S. Cauchemez, M. Besnard, P. Bompard, T. Dub, P. Guillemette-artur et al., Association between Zika virus and microcephaly in French Polynesia, 2013???15: a retrospective study, The Lancet, vol.387, issue.10033, pp.2125-2132, 2016.
DOI : 10.1016/S0140-6736(16)00651-6

G. Calvet, R. Aguiar, A. Melo, S. Sampaio, I. De-filippis et al., Detection and sequencing of Zika virus from amniotic fluid of fetuses with microcephaly in Brazil: a case study, The Lancet Infectious Diseases, vol.16, issue.6, pp.653-660, 2016.
DOI : 10.1016/S1473-3099(16)00095-5

J. Mlakar, M. Korva, N. Tul, . Popovic´mpopovic´popovic´m, M. Polj?ak-prijatelj et al., Zika Virus Associated with Microcephaly, New England Journal of Medicine, vol.374, issue.10, pp.951-958, 2016.
DOI : 10.1056/NEJMoa1600651

R. Driggers, C. Ho, E. Korhonen, S. Kuivanen, A. Jääskeläinen et al., Zika Virus Infection with Prolonged Maternal Viremia and Fetal Brain Abnormalities, New England Journal of Medicine, vol.374, issue.22, pp.2142-2145, 2016.
DOI : 10.1056/NEJMoa1601824

W. Dejnirattisai, P. Supasa, W. Wongwiwat, A. Rouvinski, G. Barba-spaeth et al., Dengue virus sero-cross-reactivity drives antibody-dependent enhancement of infection with zika virus, Nature Immunology, vol.534, issue.9, pp.1102-1108, 2016.
DOI : 10.1038/nm887

K. Tsetsarkin, D. Vanlandingham, C. Mcgee, and S. Higgs, A Single Mutation in Chikungunya Virus Affects Vector Specificity and Epidemic Potential, PLoS Pathogens, vol.1, issue.12, 2007.
DOI : 10.1371/journal.ppat.0030201.st002

A. Brault, C. Huang, S. Langevin, R. Kinney, R. Bowen et al., A single positively selected West Nile viral mutation confers increased virogenesis in American crows, Nature Genetics, vol.11, issue.9, pp.1162-1166, 2007.
DOI : 10.3201/eid1102.041028

M. Miller, W. Pfeiffer, and T. Schwartz, Creating the CIPRES Science Gateway for inference of large phylogenetic trees, 2010 Gateway Computing Environments Workshop (GCE), pp.1-8, 2010.
DOI : 10.1109/GCE.2010.5676129

A. Larsson, AliView: a fast and lightweight alignment viewer and editor for large datasets, Bioinformatics, vol.30, issue.22, pp.3276-3278, 2014.
DOI : 10.1093/bioinformatics/btu531

URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4221126

N. Faria, A. Rdos, M. Kraemer, R. Souza, M. Cunha et al., Zika virus in the Americas: Early epidemiological and genetic findings, Science, vol.42, issue.W1, pp.345-349, 2016.
DOI : 10.1093/nar/gku316

L. Wang, S. Valderramos, A. Wu, S. Ouyang, C. Li et al., From Mosquitos to Humans: Genetic Evolution of Zika Virus, Cell Host & Microbe, vol.19, issue.5, pp.561-565, 2016.
DOI : 10.1016/j.chom.2016.04.006

D. Musso, V. Cao-lormeau, and D. Gubler, Zika virus: following the path of dengue and chikungunya?, The Lancet, vol.386, issue.9990, pp.243-244, 2015.
DOI : 10.1016/S0140-6736(15)61273-9

V. Cao-lormeau, A. Blake, S. Mons, S. Lastère, C. Roche et al., Guillain-Barr? Syndrome Outbreak Associated With Zika Virus Infection in French Polynesia, Obstetrical & Gynecological Survey, vol.71, issue.8, pp.1531-1539, 2016.
DOI : 10.1097/01.ogx.0000489564.35748.52

C. Zanluca, V. Melo, A. Mosimann, G. Santos, C. Santos et al., First report of autochthonous transmission of Zika virus in Brazil, Mem?rias do Instituto Oswaldo Cruz, vol.19, issue.4, pp.569-5720074, 2015.
DOI : 10.2807/1560-7917.ES2014.19.41.20929

S. Erb, S. Butrapet, K. Moss, B. Luy, T. Childers et al., Domain-III FG loop of the dengue virus type 2 envelope protein is important for infection of mammalian cells and Aedes aegypti mosquitoes, Virology, vol.406, issue.2, pp.328-335, 2010.
DOI : 10.1016/j.virol.2010.07.024

R. Fritz, J. Blazevic, C. Taucher, K. Pangerl, F. Heinz et al., The Unique Transmembrane Hairpin of Flavivirus Fusion Protein E Is Essential for Membrane Fusion, Journal of Virology, vol.85, issue.9, pp.4377-4385, 2011.
DOI : 10.1128/JVI.02458-10

D. Musso, C. Roche, R. E. Nhan, T. Teissier, A. Cao-lormeau et al., Potential Sexual Transmission of Zika Virus, Emerging Infectious Diseases, vol.21, issue.2, pp.359-361, 2015.
DOI : 10.3201/eid2102.141363

D. Sirohi, Z. Chen, L. Sun, T. Klose, T. Pierson et al., The 3.8 A resolution cryo-EM structure of Zika virus, Science, vol.7, issue.20, pp.467-470, 2016.
DOI : 10.1093/bioinformatics/btv362

URL : https://hal.archives-ouvertes.fr/hal-01439629

C. Ramirez, J. Urcuqui-inchima, and S. , Dengue Virus Control of Type I IFN Responses: A History of Manipulation and Control, Journal of Interferon & Cytokine Research, vol.35, issue.6, pp.421-430, 2015.
DOI : 10.1089/jir.2014.0129

D. Beasley, M. Whiteman, S. Zhang, C. Huang, B. Schneider et al., Envelope Protein Glycosylation Status Influences Mouse Neuroinvasion Phenotype of Genetic Lineage 1 West Nile Virus Strains, Journal of Virology, vol.79, issue.13, pp.8339-8347, 2005.
DOI : 10.1128/JVI.79.13.8339-8347.2005

R. Ke, J. Aaskov, E. Holmes, and J. Lloyd-smith, Phylodynamic Analysis of the Emergence and Epidemiological Impact of Transmissible Defective Dengue Viruses, PLoS Pathogens, vol.7, issue.2, 2013.
DOI : 10.1371/journal.ppat.1003193.s011

M. Malakoutikhah, M. Teixidó, and E. Giralt, Shuttle-Mediated Drug Delivery to the Brain, Angewandte Chemie International Edition, vol.53, issue.35, pp.7998-8014, 2011.
DOI : 10.1002/anie.201006565

T. Prestwood, D. Prigozhin, K. Sharar, R. Zellweger, and S. Shresta, A Mouse-Passaged Dengue Virus Strain with Reduced Affinity for Heparan Sulfate Causes Severe Disease in Mice by Establishing Increased Systemic Viral Loads, Journal of Virology, vol.82, issue.17, pp.8411-8421, 2008.
DOI : 10.1128/JVI.00611-08

V. Kostyuchenko, E. Lim, S. Zhang, G. Fibriansah, T. Ng et al., Structure of the thermally stable Zika virus, Nature, vol.533, pp.425-428, 2016.
DOI : 10.1107/S0907444998003254