Beyond viruses: clinical profiles and etiologies associated with encephalitis, Clin Infect Dis Off Publ Infect Dis Soc Am, vol.43, pp.1565-1577, 2006. ,
Case definitions, diagnostic algorithms, and priorities in encephalitis: consensus statement of the international encephalitis consortium, Clin Infect Dis Off Publ Infect Dis Soc Am, vol.57, pp.1114-1128, 2013. ,
Update and new insights in encephalitis, Clin Microbiol Infect Off Publ Eur Soc Clin Microbiol Infect Dis, vol.23, pp.607-613, 2017. ,
Climate Change and the Arboviruses: Lessons from the Evolution of the Dengue and Yellow Fever Viruses, Annu Rev Virol, vol.3, pp.125-145, 2016. ,
Usutu virus: an emerging flavivirus in Europe, Viruses, vol.7, pp.219-238, 2015. ,
, International Committee on Taxonomy of Viruses (ICTV)
Virus isolations from mosquitoes collected in North Arcot district, Madras state, and Chittoor district, Indian J Med Res, vol.57, pp.1420-1426, 1955. ,
Encephalitic Arboviruses: Emergence, Clinical Presentation, and Neuropathogenesis, Neurother J Am Soc Exp Neurother, vol.13, pp.514-534, 2016. ,
Isolation of virus strains from mosquitoes collected in Queensland, 1972-1976, Aust J Exp Biol Med Sci, vol.57, pp.509-520, 1979. ,
Studies of arthropod-borne virus infections in Queensland. III. Isolation and characterization of virus strains from wild-caught mosquitoes in North Queensland, Aust J Exp Biol Med Sci, vol.41, pp.17-39, 1963. ,
Genetic and Phylogenetic Characterization of Tataguine and Witwatersrand Viruses and Other Orthobunyaviruses of the Anopheles A, Viruses, vol.7, pp.5987-6008, 2015. ,
Novel Orthobunyavirus Causing Severe Kidney Disease in Broiler Chickens, Emerg Infect Dis, vol.25, pp.1110-1117, 2014. ,
La Crosse viral infection in hospitalized pediatric patients in Western North Carolina, Hosp Pediatr, vol.2, pp.235-242, 2012. ,
An Overview of Animal Models for Arthropod-Borne Viruses, Comp Med, vol.67, pp.232-241, 2017. ,
Orthobunyavirus spike architecture and recognition by neutralizing antibodies, Nat Commun, vol.10, p.879, 2019. ,
How many patients with anti-JEV IgM in cerebrospinal fluid really have Japanese encephalitis?, Lancet Infect Dis, vol.15, pp.1376-1377, 2015. ,
Epidemiology and burden of disease from Japanese encephalitis in Cambodia: results from two years of sentinel surveillance, Trop Med Int Health TM IH, vol.14, pp.1365-1373, 2009. ,
A novel cause of chronic viral meningoencephalitis: Cache Valley virus, Ann Neurol, vol.82, p.61, 2017. ,
, Umbre orthobunyavirus strain Marna (Case #2) 61.1 61.1 64.2 62.1 57, vol.9
Accuracy of diagnosis criteria in patients with suspected diagnosis of sporadic Creutzfeldt-Jakob disease and detection of 14-3-3 protein, Euro Surveill Bull Eur Sur Mal Transm Eur Commun Dis Bull, vol.22, 1992. ,
URL : https://hal.archives-ouvertes.fr/hal-01622173
Transmission of the BSE agent to mice in the absence of detectable abnormal prion protein, Science, vol.275, pp.402-405, 1997. ,
AlienTrimmer: a tool to quickly and accurately trim off multiple short contaminant sequences from high-throughput sequencing reads, Genomics, vol.102, pp.500-506, 2013. ,
MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph, Bioinforma Oxf Engl, vol.31, pp.1674-1676, 2015. ,
RVDB-prot, a reference viral protein database and its HMM profiles, F1000Research, vol.8, p.530, 2019. ,
Fast and sensitive protein alignment using DIAMOND, Nat Methods, vol.12, pp.59-60, 2015. ,
Kraken: ultrafast metagenomic sequence classification using exact alignments, Genome Biol, vol.15, p.46, 2014. ,
Centrifuge: rapid and sensitive classification of metagenomic sequences, Genome Res, 2016. ,
MetaPhlAn2 for enhanced metagenomic taxonomic profiling, Nat Methods, vol.12, pp.902-903, 2015. ,
MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform, Nucleic Acids Res, vol.30, pp.3059-3066, 2002. ,
MAFFT multiple sequence alignment software version 7: improvements in performance and usability, Mol Biol Evol, vol.30, pp.772-780, 2013. ,
Geneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data, Bioinforma Oxf Engl, vol.28, pp.1647-1649, 2012. ,
MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets, Mol Biol Evol, vol.33, pp.1870-1874, 2016. ,
Rapid selection of Drosophila S2 cells with the puromycin resistance gene, BioTechniques, vol.35, p.486, 2003. ,
Lack of evidence for Schmallenberg virus infection in highly exposed persons, Emerg Infect Dis, vol.18, pp.1333-1335, 2012. ,
Lack of evidence for zoonotic transmission of Schmallenberg virus, Emerg Infect Dis, vol.18, pp.1746-1754, 2012. ,
Emergence of two Usutu virus lineages in Culex pipiens mosquitoes in the Camargue, Infect Genet Evol J Mol Epidemiol Evol Genet Infect Dis, vol.61, pp.151-154, 2015. ,
URL : https://hal.archives-ouvertes.fr/hal-01890103
Fast gapped-read alignment with Bowtie 2, Nat Methods, vol.9, pp.357-359, 2012. ,