A. Ahantarig, W. Trinachartvanit, and J. R. Milne, Tick-borne pathogens and diseases of animals and humans in Thailand, Southeast Asian J. Trop. Med. Public Health, vol.39, pp.1015-1032, 2008.

K. Arnold, L. Bordoli, J. Kopp, and T. Schwede, The SWISS-MODEL workspace: a web-based environment for protein structure homology modelling, Bioinformatics, vol.22, pp.195-201, 2006.

S. A. Babayan, R. J. Orton, and D. G. Streicker, Predicting reservoir hosts and arthropod vectors from evolutionary signatures in RNA virus genomes, Science, vol.362, pp.577-580, 2018.

M. Biasini, S. Bienert, A. Waterhouse, K. Arnold, G. Studer et al., SWISS-MODEL: modelling protein tertiary and quaternary structure using evolutionary information, Nucleic Acids Res, vol.42, pp.252-258, 2014.

T. Bigot, S. Temmam, P. Pérot, and M. Eloit, RVDB-prot, a reference viral protein database and its HMM profiles [version 1; peer review: awaiting peer review, 2019.

J. Bouquet, M. Melgar, A. Swei, E. Delwart, R. S. Lane et al., , 2017.

, Metagenomic-based surveillance of Pacific coast tick Dermacentor occidentalis identifies two novel Bunyaviruses and an emerging human Ricksettsial pathogen, Sci. Rep, vol.7, p.12234

D. E. Brackney, A. , and P. M. , Transmission and evolution of tickborne viruses, Curr. Opin. Virol, vol.21, pp.67-74, 2016.

A. Brinkmann, E. Dinçer, C. Polat, O. Hekimoglu, S. Hacioglu et al., A metagenomic survey identifies Tamdy orthonairovirus as well as divergent phlebo-, rhabdo-, chu-and flavi-like viruses in Anatolia, Turkey. Ticks Tick Borne Dis, vol.9, pp.1173-1183, 2018.

P. D. Burbelo, K. H. Ching, E. R. Bush, B. L. Han, and M. J. Iadarola, , 2010.

, Antibody-profiling technologies for studying humoral responses to infectious agents, Expert Rev. Vaccines, vol.9, pp.567-578

P. D. Burbelo, K. H. Ching, C. M. Klimavicz, and M. J. Iadarola, Antibody profiling by luciferase immunoprecipitation systems (LIPS), J Vis Exp, vol.7, p.1549, 2009.

P. D. Burbelo, K. H. Ching, T. L. Mattson, J. S. Light, L. R. Bishop et al., Rapid antibody quantification and generation of whole proteome antibody response profiles using LIPS (luciferase immunoprecipitation systems), Biochem. Biophys. Res. Commun, vol.352, pp.889-895, 2007.

P. D. Burbelo, E. J. Dubovi, P. Simmonds, J. L. Medina, J. A. Henriquez et al., Serology-enabled discovery of genetically diverse hepaciviruses in a new host, J. Virol, vol.86, pp.6171-6178, 2012.

C. H. Calisher and H. C. Goodpasture, Human infection with Bhanja virus, Am. J. Trop. Med. Hyg, vol.24, pp.1040-1042, 1975.

L. Capai, A. Falchi, and R. Charrel, Meta-analysis of human IgG anti-HEV seroprevalence in industrialized countries and a review of literature, Viruses, vol.11, p.84, 2019.

K. Chaisiri, C. Jollivet, P. Della-rossa, S. Sanguankiat, D. Wattanakulpanich et al., Parasitic infections in relation to practices and knowledge in a rural village in Northern Thailand with emphasis on fish-borne trematode infection, Epidemiol. Infect, vol.15, pp.1-12, 2018.
URL : https://hal.archives-ouvertes.fr/halshs-02119862

M. A. Contreras-gutiérrez, M. R. Nunes, H. Guzman, S. Uribe, J. D. Suaza-vasco et al., Sinu virus, a novel and divergent orthomyxovirus related to members of the genus Thogotovirus isolated from mosquitoes in Colombia, Virology, vol.501, pp.166-175, 2017.

J. P. Cornet, P. Kittayapong, and J. P. Gonzalez, Risk of arbovirus transmission by ticks in Thailand, Med. Trop, vol.64, pp.43-49, 2004.

R. L. Crim, S. Kumari, P. Jayanti, S. Audet, A. Kulkarni et al., Development of luciferase immunoprecipitation systems (LIPS) assay to detect IgG antibodies against human respiratory syncytial virus G-glycoprotein, Vaccines, vol.7, p.16, 2019.

A. Criscuolo and S. Brisse, AlienTrimmer removes adapter oligonucleotides with high sensitivity in short-insert paired-end reads, Commentary on Turner, vol.5, p.130, 2014.

S. J. Cutler, A. R. Fooks, and W. H. Van-der-poel, Public health threat of new, reemerging, and neglected zoonoses in the industrialized world, Emerg. Infect. Dis, vol.16, pp.1-7, 2010.

M. Desquesnes, K. Kamyingkird, M. Pruvot, C. Kengradomkij, G. Bossard et al., Antibody-ELISA for Trypanosoma evansi: application in a serological survey of dairy cattle, Thailand, and validation of a locally produced antigen, Prev. Vet. Med, vol.90, pp.233-241, 2009.

E. Dinçer, A. Brinkmann, O. Hekimoglu, S. Hacioglu, K. Földes et al., Generic amplification and next generation sequencing reveal Crimean-Congo hemorrhagic fever virus AP92-like strain and distinct tick phleboviruses in Anatolia, Turkey. Parasit. Vectors, vol.10, p.335, 2017.

H. Ejiri, C. K. Lim, H. Isawa, R. Fujita, K. Murota et al., Characterization of a novel thogotovirus isolated from Amblyomma testudinarium ticks in Ehime, Japan: a significant phylogenetic relationship to Bourbon virus, Virus Res, vol.249, pp.57-65, 2018.

M. Frese, M. Weeber, F. Weber, V. Speth, and O. Haller, Mx1 sensitivity: Batken virus is an orthomyxovirus closely related to Dhori virus, J. Gen. Virol, vol.78, pp.2453-2458, 1997.

R. Gupta, L. J. Jensen, and S. Brunak, Orphan protein function and its relation to glycosylation, Ernst. Schering. Res. Found Workshop, vol.38, pp.276-294, 2002.

Z. Hubálek, I. Rudolf, and N. Nowotny, Arboviruses pathogenic for domestic and wild animals, Adv. Virus Res, vol.89, pp.201-275, 2014.

J. Kadlec, S. Loureiro, N. G. Abrescia, D. I. Stuart, and I. M. Jones, The postfusion structure of baculovirus gp64 supports a unified view of viral fusion machines, Nat. Struct. Mol. Biol, vol.15, 2008.

K. Katoh, J. Rozewicki, and K. D. Yamada, MAFFT online service: multiple sequence alignment, interactive sequence choice and visualization, Brief Bioinform, vol.20, pp.1160-1166, 2017.

A. Katzourakis and R. J. Gifford, Endogenous viral elements in animal genomes, PLoS Genet, vol.6, p.1001191, 2010.

D. Kiewra and E. Lonc, Epidemiological consequences of host specificity of ticks (Ixodida), Ann. Parasitol, vol.58, pp.181-187, 2012.

M. Labuda and P. A. Nuttall, Tick-borne viruses, Parasitology, vol.129, pp.221-266, 2004.

V. Lefort, J. E. Longueville, and O. Gascuel, SMS: smart model selection in PhyML, Mol. Biol. Evol, vol.34, pp.2422-2424, 2017.
URL : https://hal.archives-ouvertes.fr/lirmm-01794206

C. X. Li, M. Shi, J. H. Tian, X. D. Lin, Y. J. Kang et al., Unprecedented genomic diversity of RNA viruses in arthropods reveals the ancestry of negative-sense RNA viruses, p.5378, 2015.

D. Li, C. M. Liu, R. Luo, K. Sadakane, and T. W. Lam, MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph, Bioinformatics, vol.31, pp.1674-1676, 2015.

Z. Li, C. Bao, J. Hu, W. Liu, X. Wang et al., Ecology of the tick-borne phlebovirus causing severe fever with thrombocytopenia syndrome in an endemic area of China, PLoS Negl. Trop. Dis, vol.10, p.4574, 2016.

Z. Y. Liu, W. F. Shi, and C. F. Qin, The evolution of Zika virus from Asia to the Americas, Nat. Rev. Microbiol, vol.17, pp.131-139, 2019.

D. K. Masiga, A. J. Smyth, P. Hayes, T. J. Bromidge, and W. C. Gibson, Sensitive detection of trypanosomes in tsetse flies by DNA amplification, Int. J. Parasitol, vol.22, pp.909-918, 1992.

K. Matsuno, C. Weisend, A. P. Travassos-da-rosa, S. L. Anzick, E. Dahlstrom et al., Characterization of the Bhanja serogroup viruses (Bunyaviridae): a novel species of the genus Phlebovirus and its relationship with other emerging tick-borne phleboviruses, J. Virol, vol.87, pp.3719-3728, 2013.

J. W. Mccauley, S. Hongo, N. V. Kaverin, G. Kochs, R. A. Lamb et al., Family Orthomyxoviridae, Virus Taxonomy: Ninth Report of the International Committee on Taxonomy of Viruses, pp.749-761, 2012.

S. Menghani, R. Chikhale, A. Raval, P. Wadibhasme, and P. Khedekar, Chandipura Virus: an emerging tropical pathogen, Acta Trop, vol.124, pp.1-14, 2012.

M. A. Miller, W. Pfeiffer, and T. Schwartz, Creating the CIPRES science gateway for inference of large phylogenetic trees, Proceedings of the Gateway Computing Environments Workshop (GCE), pp.1-8, 2010.

L. Mlera and M. E. Bloom, The role of mammalian reservoir hosts in tick-borne flavivirus biology, Front. Cell Infect. Microbiol, vol.8, p.298, 2018.

M. A. Morse, A. C. Marriott, P. A. Nuttall, S. Moutailler, I. Popovici et al., The glycoprotein of Thogoto virus (a tick-borne orthomyxo-like virus) is related to the baculovirus glycoprotein GP64, N. Microbes N. Infect, vol.186, pp.71-81, 1992.

M. W. Moyer, The growing global battle against blood-sucking ticks, Nature, vol.524, pp.406-408, 2015.

M. P. Nelder, C. B. Russell, N. J. Sheehan, B. Sander, S. Moore et al., Changing geographic ranges of ticks and tick-borne pathogens: drivers, mechanisms and consequences for pathogen diversity, Front. Cell Infect. Microbiol, vol.9, p.46, 2013.

G. Palacios, N. Savji, A. Travassos-da-rosa, H. Guzman, X. Yu et al., Characterization of the Uukuniemi virus group (Phlebovirus: Bunyaviridae): evidence for seven distinct species, J. Virol, vol.87, pp.3187-3195, 2013.

J. H. Pettersson, M. Shi, J. Bohlin, V. Eldholm, O. B. Brynildsrud et al., Characterizing the virome of Ixodes ricinus ticks from northern, Europe. Sci. Rep, vol.7, p.10870, 2017.

M. Pruvot, K. Kamyingkird, M. Desquesnes, N. Sarataphan, J. et al., A comparison of six primer sets for detection of Trypanosoma evansi by polymerase chain reaction in rodents and Thai livestock, Vet. Parasitol, vol.171, pp.185-193, 2010.

M. Pruvot, K. Kamyingkird, M. Desquesnes, N. Sarataphan, J. et al., The effect of the DNA preparation method on the sensitivity of PCR for the detection of Trypanosoma evansi in rodents and implications for epidemiological surveillance efforts, Vet. Parasitol, vol.191, pp.203-208, 2013.

P. Saikku, Arboviruses in Finland. 3. Uukuniemi virus antibodies in human, cattle, and reindeer sera, Am. J. Trop. Med. Hyg, vol.22, pp.400-403, 1973.

S. Sameroff, R. Tokarz, R. A. Charles, K. Jain, A. Oleynik et al., Viral diversity of tick species parasitizing cattle and dogs in Trinidad and Tobago, Sci. Rep, vol.9, p.10421, 2019.

M. Shi, X. D. Lin, J. H. Tian, L. J. Chen, X. Chen et al., Redefining the invertebrate RNA virosphere, Nature, vol.540, pp.539-543, 2016.

M. Shi, X. D. Lin, N. Vasilakis, J. H. Tian, C. X. Li et al., Divergent viruses discovered in arthropods and vertebrates revise the evolutionary history of the Flaviviridae and Related Viruses, J. Virol, vol.90, pp.659-669, 2015.

S. G. Siddell, P. J. Walker, E. J. Lefkowitz, A. R. Mushegian, M. J. Adams et al., Additional changes to taxonomy ratified in a special vote by the International Committee on Taxonomy of Viruses, Arch. Virol, vol.164, pp.943-946, 2019.

J. A. Silvas and P. V. Aguilar, The emergence of severe fever with thrombocytopenia syndrome virus, Am. J. Trop. Med. Hyg, vol.97, pp.992-996, 2017.

W. M. Souza, M. J. Fumagalli, A. O. Torres-carrasco, M. F. Romeiro, S. Modha et al., Viral diversity of Rhipicephalus microplus parasitizing cattle in southern Brazil, Sci. Rep, vol.8, p.16315, 2018.

S. Temmam, B. Davoust, J. M. Berenger, D. Raoult, and C. Desnues, Viral metagenomics on animals as a tool for the detection of zoonoses prior to human infection?, Int. J. Mol. Sci, vol.15, pp.10377-10397, 2014.
URL : https://hal.archives-ouvertes.fr/hal-01785341

S. Temmam, S. Monteil-bouchard, C. Robert, J. P. Baudoin, M. Sambou et al., Characterization of viral communities of biting midges and identification of novel thogotovirus species and Rhabdovirus genus, Viruses, vol.8, p.77, 2016.
URL : https://hal.archives-ouvertes.fr/hal-01459529

C. M. Tin, L. Yuan, R. J. Dexter, G. I. Parra, T. Bui et al., A Luciferase Immunoprecipitation system (LIPS) assay for profiling human norovirus antibodies, J. Virol. Methods, vol.248, pp.116-129, 2017.

R. Tokarz, S. Sameroff, M. S. Leon, K. Jain, and W. I. Lipkin, Genome characterization of Long Island tick rhabdovirus, a new virus identified in Amblyomma americanum ticks, Virol. J, vol.11, p.26, 2014.

R. Tokarz, S. Sameroff, T. Tagliafierro, K. Jain, S. H. Williams et al., Identification of novel viruses in Amblyomma americanum, Dermacentor variabilis, and Ixodes scapularis Ticks. mSphere. 3, e00614-e00617, 2018.

R. Tokarz, S. H. Williams, S. Sameroff, M. Sanchez-leon, K. Jain et al., Virome analysis of Amblyomma americanum, Dermacentor variabilis, and Ixodes scapularis ticks reveals novel highly divergent vertebrate and invertebrate viruses, J. Virol, vol.88, pp.11480-11492, 2014.

L. Tomassone, E. Berriatua, R. De-sousa, G. G. Duscher, A. D. Mihalca et al., Neglected vector-borne zoonoses in Europe: into the wild, Vet. Parasitol, vol.251, pp.17-26, 2018.

T. Traavik and R. Mehl, Tick-borne viruses in Norway, Med. Biol, vol.53, pp.621-624, 1975.

M. Vayssier-taussat, S. Moutailler, L. Michelet, E. Devillers, S. Bonnet et al., Next generation sequencing uncovers unexpected bacterial pathogens in ticks in Western Europe, PLoS ONE, vol.8, p.81439, 2013.

P. J. Walker, C. Firth, S. G. Widen, K. R. Blasdell, H. Guzman et al., Evolution of genome size and complexity in the Rhabdoviridae, PLoS Pathog, vol.11, p.1004664, 2015.

N. D. Wolfe, C. P. Dunavan, and J. Diamond, Origins of major human infectious diseases, Nature, vol.447, pp.279-283, 2007.

M. Woolhouse, F. Scott, Z. Hudson, R. Howey, and M. Chase-topping, Human viruses: discovery and emergence, Philos. Trans. R. Soc. Lond. B Biol. Sci, vol.367, pp.2864-2871, 2012.

H. Xia, C. Hu, D. Zhang, S. Tang, Z. Zhang et al., Metagenomic profile of the viral communities in Rhipicephalus spp. ticks from Yunnan, China. PLoS ONE, vol.10, p.121609, 2015.

X. J. Yu, M. F. Liang, S. Y. Zhang, Y. Liu, J. D. Li et al., Fever with thrombocytopenia associated with a novel bunyavirus in China, N. Engl. J. Med, vol.364, pp.1523-1532, 2011.