M. Bessaud, B. Blondel, M. L. Joffret, M. Kain, A. Delpeyroux et al., Nomenclature and classification of the enteroviruses: story of a long history, Virologie, vol.22, issue.6, pp.289-303, 2018.

R. Zell, E. Delwart, A. E. Gorbalenya, T. Hovi, A. King et al., ICTV virus taxonomy profile: picornaviridae, J Gen Virol, vol.98, issue.10, pp.2421-2422, 2017.

O. Kew and M. Pallansch, Breaking the last chains of poliovirus transmission: progress and challenges in global polio eradication, Annu Rev Virol, vol.5, issue.1, pp.427-451, 2018.

V. M. Vashishtha and S. Kamath, A brief history of vaccines against polio, Indian Pediatr, vol.53, issue.1, pp.20-27, 2016.

N. Combelas, B. Holmblat, M. L. Joffret, F. Colbere-garapin, and F. Delpeyroux, Recombination between poliovirus and coxsackie A viruses of species C: a model of viral genetic plasticity and emergence, Viruses, vol.3, issue.8, pp.1460-1484, 2011.

C. C. Burns, O. M. Diop, R. W. Sutter, and O. M. Kew, Vaccinederived polioviruses, J Infect Dis, vol.1, pp.283-293, 2014.

. Anonymous, Certification of poliomyelitis eradicationcertification of poliomyelitis eradication fifteenth meeting of the European Regional Certification Commission Copenhagen, pp.19-21, 2005.

, Copenhagen: World Health Organization-Regional Office for Europe, 2002.

E. Holt, Ukraine at risk of polio outbreak, Lancet, vol.381, issue.9885, p.2244, 2013.

. Anonymous, Guidelines for environmental surveillance of poliovirus circulation, Biologicals Va (ed). World Health Organization, 2003.

D. J. Wood and B. Hull, L20B cells simplify culture of polioviruses from clinical samples, J Med Virol, vol.58, issue.2, pp.188-192, 1999.

M. L. Joffret, P. M. Polston, R. Razafindratsimandresy, M. Bessaud, J. M. Heraud et al., Whole genome sequencing of enteroviruses species A to D by high-throughput sequencing: application for viral mixtures, Front Microbiol, vol.9, p.2339, 2018.
URL : https://hal.archives-ouvertes.fr/pasteur-01883334

M. Bessaud, S. A. Sadeuh-mba, M. L. Joffret, R. Razafindratsimandresy, P. Polston et al., Whole genome sequencing of enterovirus species C isolates by high-throughput sequencing: development of generic primers, Front Microbiol, vol.7, p.1294, 2016.
URL : https://hal.archives-ouvertes.fr/pasteur-01380651

M. S. Oberste, K. Maher, D. R. Kilpatrick, M. R. Flemister, B. A. Brown et al., Typing of human enteroviruses by partial sequencing of VP1, J Clin Microbiol, vol.37, issue.5, pp.1288-1293, 1999.

M. S. Oberste, K. Maher, D. R. Kilpatrick, and M. A. Pallansch, Molecular evolution of the human enteroviruses: correlation of serotype with VP1 sequence and application to picornavirus classification, J Virol, vol.73, issue.3, pp.1941-1948, 1999.

M. Karrasch, E. Fischer, M. Scholten, A. Sauerbrei, A. Henke et al., A severe pediatric infection with a novel enterovirus A71 strain, J Clin Virol, vol.84, pp.90-95, 2016.

M. Bessaud, R. Razafindratsimandresy, A. Nougairede, M. L. Joffret, J. M. Deshpande et al., Molecular comparison and evolutionary analyses of VP1 nucleotide sequences of new African human enterovirus 71 isolates reveal a wide genetic diversity, PLoS One, vol.9, issue.3, p.90624, 2014.
URL : https://hal.archives-ouvertes.fr/pasteur-01078436

R. Volle, J. L. Bailly, A. Mirand, B. Pereira, S. Marque-juillet et al., Variations in cerebrospinal fluid viral loads among enterovirus genotypes in patients hospitalized with laboratory-confirmed meningitis due to enterovirus, J Infect Dis, vol.210, issue.4, pp.576-584, 2014.

J. Cobbin, P. N. Britton, R. Burrell, D. Thosar, K. Selvakumar et al., A complex mosaic of enteroviruses shapes community-acquired hand, foot and mouth disease transmission and evolution within a single hospital, Virus Evol, vol.4, issue.2, p.20, 2018.

M. Majumdar and J. Martin, Detection by direct next generation sequencing analysis of emerging enterovirus D68 and C109 strains in an environmental sample from Scotland, Front Microbiol, vol.9, p.1956, 2018.

M. Cabrerizo, G. Trallero, and P. Simmonds, Recombination and evolutionary dynamics of human echovirus 6, J Med Virol, vol.86, issue.5, pp.857-864, 2014.

T. Ji, Y. Guo, W. Huang, Y. Shi, Y. Xu et al., The emerging sub-genotype C2 of CoxsackievirusA10 associated with hand, foot and mouth disease extensively circulating in mainland of China, Sci Rep, vol.8, issue.1, p.13357, 2018.

C. Henquell, A. Mirand, J. Richter, I. Schuffenecker, B. Bottiger et al., Phylogenetic patterns of human coxsackievirus B5 arise from population dynamics between two genogroups and reveal evolutionary factors of molecular adaptation and transmission, J Virol, vol.87, issue.22, pp.12249-12259, 2013.

A. Baicus, Rapid communication-polio vaccine coverage in the acute flaccid paralysis (Afp) cases in Romania, Roum Arch Microbiol Immunol, vol.74, issue.1-2, pp.65-67, 2015.

, Anonymous. WHO vaccine-preventable diseases: monitoring system 2019 global summary, vol.23, 2019.

A. W. Hamisu, I. M. Blake, G. Sume, F. Braka, A. Jimoh et al., Characterizing environmental surveillance sites in Nigeria and their sensitivity to detect poliovirus and other enteroviruses, J Infect Dis, 2020.

J. A. Roberts, L. K. Hobday, A. Ibrahim, and B. R. Thorley, Australian National Enterovirus Reference Laboratory annual report, Commun Dis Intell, 2018.

R. Zoni, S. Mezzetta, P. Affanni, M. E. Colucci, S. Fiore et al., Poliovirus and non-polio-enterovirus environmental surveillance in Parma within the "Global Polio Eradication Program" (GPEI), Acta Biomed, vol.90, issue.9, pp.95-97, 2019.

O. E. Ivanova, M. S. Yarmolskaya, T. P. Eremeeva, G. M. Babkina, O. Y. Baykova et al., Environmental surveillance for poliovirus and other enteroviruses: long-term experience in Moscow, Viruses, vol.11, issue.5, p.424, 2004.

P. Chen, Y. Liu, H. Wang, G. Liu, X. Lin et al., Environmental surveillance complements the case-based AFP surveillance in the polio endgame strategy, Appl Environ Microbiol, vol.86, issue.15, pp.702-722, 2020.

A. D. Coulliette-salmond, M. M. Alleman, P. Wilnique, G. Rey-benito, H. B. Wright et al., Haiti poliovirus environmental surveillance, Am J Trop Med Hyg, vol.101, issue.6, pp.1240-1248, 2019.

M. Bessaud, S. Pillet, W. Ibrahim, M. L. Joffret, B. Pozzetto et al., Molecular characterization of human enteroviruses in the Central African Republic: uncovering wide diversity and identification of a new human enterovirus A71 genogroup, J Clin Microbiol, vol.50, issue.5, pp.1650-1658, 2012.

M. Bisseux, J. Colombet, A. Mirand, A. M. Roque-afonso, F. Abravanel et al., Monitoring human enteric viruses in wastewater and relevance to infections encountered in the clinical setting: a one-year experiment in central France, Euro Surveill, vol.23, issue.7, p.17, 2014.
URL : https://hal.archives-ouvertes.fr/hal-01734503

C. Andres, J. Vila, L. Gimferrer, M. Pinana, J. Esperalba et al., Surveillance of enteroviruses from paediatric patients attended at a tertiary hospital in Catalonia from, J Clin Virol, vol.110, pp.29-35, 2014.

O. Cinek, L. Kramna, K. Mazankova, K. Kunteova, K. Chuda et al., Virus genotyping by massive parallel amplicon sequencing: adenovirus and enterovirus in the Norwegian MIDIA study, J Med Virol, vol.91, issue.4, pp.606-614, 2019.

L. Bubba, E. K. Broberg, A. Jasir, P. Simmonds, and H. Harvala, Enterovirus study c. Circulation of non-polio enteroviruses in 24 EU and EEA countries between 2015 and 2017: a retrospective surveillance study, Lancet Infect Dis, vol.20, issue.3, pp.350-361, 2020.

V. Pogka, M. Emmanouil, S. Labropoulou, A. Voulgari-kokota, E. Angelakis et al., Molecular characterization of enteroviruses among hospitalized patients in Greece, J Clin Virol, vol.127, p.104349, 2013.

J. Richter, C. Tryfonos, and C. Christodoulou, Molecular epidemiology of enteroviruses in Cyprus, PLoS One, vol.14, issue.8, p.220938, 2008.

A. Baicus, A. Persu, S. Dinu, M. L. Joffret, F. Delpeyroux et al., The frequency and biodiversity of poliovirus and nonpolio enterovirus strains isolated from healthy children living in a limited area in Romania, Arch Virol, vol.156, issue.4, pp.701-706, 2011.

C. Muslin, M. Kain, A. Bessaud, M. Blondel, B. Delpeyroux et al., Recombination in enteroviruses, a multi-step modular evolutionary process, Viruses, vol.11, issue.9, p.859, 2019.
URL : https://hal.archives-ouvertes.fr/pasteur-02302654

Z. Kyriakopoulou, V. Pliaka, G. D. Amoutzias, and P. Markoulatos, Recombination among human non-polio enteroviruses: implications for epidemiology and evolution, Virus Genes, vol.50, issue.2, pp.177-188, 2015.