Tick-borne virus detection in Caribbean ticks using NGS and high-throughput microfluidic real-time PCR (DOMOTICK Project)

Albina Emmanuel, Temmam Sarah, Devillers Elodie, Pinarello Valérie, Perrot Philippe, Aprelon Rosalie, Chrétien Delphine, Eloit Marc, Hammami Pachka, Vayssier-Taussat Muriel, Moutailler Sara. 2018. Tick-borne virus detection in Caribbean ticks using NGS and high-throughput microfluidic real-time PCR (DOMOTICK Project). In : Book of abstracts of the ESVV 2018. ESVV. Vienne : ESVV, Résumé, 7. International Congress for Veterinary (ESVV 2018). 11, Vienne, Autriche, 27 Août 2018/30 Août 2018.

Note générale : A l'occasion de ce congrès, s'est également déroulé le 12. Annual Meeting of EPIZONE.

Résumé : Background Among hematophagous arthropods, ticks transmit the greater variety of pathogens of public health and veterinary importance whose (re)-emergence is recognized worldwide. Whereas the main human and animal tick-borne pathogens are well characterized in the Northern hemisphere, very few is known concerning the diversity of tick species and tick-borne pathogens circulating within the Neo-tropical zone of the Americas, especially concerning the Caribbean area. Methods We previously reported on the results of the DOMOTICK project con-cerning the detection of tick-borne pathogens in individual Carib-bean ticks by using a combination of NGS and high-throughput microfluidic real-time PCRs using Taqman probes (BioMarkTM dy-namic arrays, Fluidigm Corporation). Here, we focus on interesting viruses detected in these ticks. Total RNA extracted from 588 ticks collected in Guadeloupe and Martinique (Amblyomma variegatum, Rhipicephalus microplus) were sequenced by Illumina HIseq. Results Of 27,544 contigs generated, 1% matched with virus sequences avail-able in GenBank of which 74% aligned with known tick-borne viruses. Out of these tick-borne viruses, four were of particular interest, re-lated to viruses only described once in China in 2015. We detected one novel chuvirus, a circular RNA virus of 11,177 bases with 3 ORFs, with 55.6% of identity with the previously described Changping Tick virus. We also detected a new genotype of another chuvirus with 94.3% of identity with the Wuhan Tick virus, a circular RNA virus of 11,395 bases with 3 ORFs. The third interesting virus is a new geno-type of the phlebovirus Lihan tick virus with 95 and 97% of identify on the S and L segments, respectively. The last virus detected is a four RNA-segmented new Jingmenvirus with 80% of identity with the original Jingmen tick virus and Mogiana tick virus. By using the BioMarkTM dynamic arrays, we were able to determine the preva-lence of these four viruses in individual ticks from Guadeloupe and Martinique. Overall, the fours viruses were found in both tick species, but the new Changping-like virus was preferentially found in the Amblyomma ticks whereas the three others were preferentially found in the Rhipicephalus ticks. The prevalence of the viruses in Guadeloupe and Martinique did not show any bias in terms of geo-graphical distribution. Conclusion The next steps of these studies will consist in assessing the veteri-nary and public health risks associated with these four new tick-borne viruses and trying to cultivate some of these viruses for better characterization.

Auteurs et affiliations

• Albina Emmanuel, CIRAD-BIOS-UMR ASTRE (GLP)
• Temmam Sarah, CRVOI (REU)
• Devillers Elodie, ANSES (FRA)
• Pinarello Valérie, CIRAD-BIOS-UMR ASTRE (GLP) ORCID: 0000-0002-9209-2111
• Perrot Philippe, Institut Pasteur (FRA)
• Aprelon Rosalie, CIRAD-BIOS-UMR ASTRE (GLP)
• Chrétien Delphine, Institut Pasteur (FRA)
• Eloit Marc, Institut Pasteur (FRA)
• Hammami Pachka, CIRAD-BIOS-UMR ASTRE (FRA)
• Vayssier-Taussat Muriel, ANSES (FRA)
• Moutailler Sara, ANSES (FRA)

Source : Cirad-Agritrop (https://agritrop.cirad.fr/591050/)

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