F. Aubry, A. Nougairède, E. A. Gould, and X. De-lamballerie, Flavivirus reverse genetic systems, construction techniques and applications: A historical perspective, Antivir. Res, vol.114, pp.67-85, 2015.

G. Neumann and Y. Kawaoka, Reverse Genetics Systems for the Generation of Segmented Negative-sense RNA Viruses Entirely from Cloned cDNA, In Curr Top Microbiol Immunol, vol.283, pp.43-60, 2004.

N. Ruggli and C. M. Rice, Functional cDNA Clones of the Flaviviridae: Strategies and Applications, Adv. Virus Res, vol.53, pp.183-207, 1999.

C. C. Yang, H. S. Hu, R. H. Wu, S. H. Wu, S. J. Lee et al., A novel dengue virus inhibitor, BP13944, discovered by high-throughput screening with dengue virus replicon cells selects for resistance in the viral NS2B/NS3 protease, Antimicrob Agents Chemother, vol.58, pp.110-119, 2014.

T. J. Chambers, A. Nestorowicz, P. W. Mason, and C. M. Rice, Yellow fever/Japanese encephalitis chimeric viruses: Construction and biological properties, J. Virol, vol.73, pp.3095-3101, 1999.

F. Aubry, A. Nougairède, L. De-fabritus, G. Querat, E. A. Gould et al., Single-stranded positive-sense RNA viruses generated in days using infectious subgenomic amplicons, J. Gen. Virol, vol.95, pp.2462-2467, 2014.

J. S. Driouich, S. M. Ali, A. Amroun, F. Aubry, X. De-lamballerie et al., SuPReMe: A rapid reverse genetics method to generate clonal populations of recombinant RNA viruses, Emerg. Microbes Infect, vol.7, pp.1-11, 2018.

K. A. Eckert and T. A. Kunkel, DNA polymerase fidelity and the polymerase chain reaction, PCR Methods Appl, vol.1, pp.17-24, 1991.

A. M. Dunning, P. Talmud, and S. E. Humphries, Errors in the polymerase chain reaction, Nucleic Acids Res, vol.16, 1988.

P. Mcinerney, P. Adams, and M. Z. Hadi, Error Rate Comparison during Polymerase Chain Reaction by DNA Polymerase, Molecular biology international, vol.2014, p.287430, 2014.

K. A. Eckert and T. A. Kunkel, High fidelity DNA synthesis by the Thermus aquaticus DNA polymerase, Nucleic Acids Res, vol.18, pp.3739-3744, 1990.

K. R. Tindall and T. A. Kunkel, Fidelity of DNA synthesis by the Thermus aquaticus DNA polymerase, Biochemistry, vol.27, pp.6008-6013, 1988.

T. S. Gritsun, P. A. Nuttall, and E. A. Gould, Tick-borne flaviviruses, Adv. Virus Res, vol.61, pp.317-371, 2003.

T. S. Gritsun, V. A. Lashkevich, and E. A. Gould, Tick-borne encephalitis, Antiviral Res, vol.57, pp.129-146, 2003.

P. Bogovic and F. Strle, Tick-borne encephalitis: A review of epidemiology, clinical characteristics, and management, World J. Clin. Cases, vol.3, pp.430-441, 2015.

E. Domingo, J. Sheldon, and C. Perales, Viral Quasispecies Evolution. Microbiol. Mol. Biol. Rev, vol.76, pp.159-216, 2012.

S. M. Ali, A. Vega-rúa, J. S. Driouich, X. De-lamballerie, A. B. Failloux et al., Comparison of chikungunya viruses generated using infectious clone or the Infectious Subgenomic Amplicons (ISA) method in Aedes mosquitoes, PLoS ONE, vol.13, p.199494, 2018.
URL : https://hal.archives-ouvertes.fr/pasteur-01843209

B. Tigabu, T. Juelich, J. Bertrand, and M. R. Holbrook, Clinical evaluation of highly pathogenic tick-borne flavivirus infection in the mouse model, J. Med. Virol, vol.81, pp.1261-1269, 2009.

L. De-fabritus, A. Nougairède, F. Aubry, E. A. Gould, and X. De-lamballerie, Attenuation of tick-borne encephalitis virus using large-scale random codon re-encoding, PLoS Pathog, vol.11, 2015.
URL : https://hal.archives-ouvertes.fr/hal-01218538

G. N. Leonova, S. I. Belikov, and I. G. Kondratov, Characteristics of far eastern strains of tick-borne encephalitis virus, Arch. Virol, vol.162, pp.2211-2218, 2017.

I. Takashima, K. Morita, M. Chiba, D. Hayasaka, T. Sato et al., A case of tick-borne encephalitis in Japan and isolation of the the virus, J. Clin. Microbiol, vol.35, pp.1943-1947, 1997.

L. J. Reed and H. Muench, A simple method of estimating fifty per cent endpoint, Am. J. Epidemiol, vol.27, p.12, 1938.

, The R Development Core Team. R: A Language and Environment for Statistical Computing, p.19, 2019.

E. M. Kennedy, C. Hergott, S. Dewhurst, and B. Kim, The mechanistic architecture of thermostable Pyrococcus furiosus family B DNA polymerase motif A and its interaction with the dNTP substrate, Biochemistry, vol.48, pp.11161-11168, 2009.

A. Niimi, S. Limsirichaikul, S. Yoshida, S. Iwai, C. Masutani et al., Palm mutants in DNA polymerases alpha and eta alter DNA replication fidelity and translesion activity, Mol. Cell. Biol, vol.24, pp.2734-2746, 2004.

J. R. Kugelman, M. R. Wiley, E. R. Nagle, D. Reyes, B. P. Pfeffer et al., Error baseline rates of five sample preparation methods used to characterize RNA virus populations, PLoS ONE, vol.12, 2017.

T. Atieh, M. D. El-ayoubi, F. Aubry, S. Priet, X. De-lamballerie et al., New paradigm for the reverse genetics of emerging RNA viruses, PLoS ONE, vol.13, 2018.
URL : https://hal.archives-ouvertes.fr/hal-01765840

F. Aubry, A. Nougairède, L. De-fabritus, G. Piorkowski, E. A. Gould et al., ISA-Lation" of Single-Stranded Positive-Sense RNA Viruses from Non-Infectious Clinical/Animal Samples, PLoS ONE, vol.10, 2015.
URL : https://hal.archives-ouvertes.fr/hal-01236720