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Deep sequencing analysis of tick-borne encephalitis virus from questing ticks at natural foci reveals similarities between quasispecies pools of the virus
Sodertorn Univ, Sch Nat Sci Technol & Environm Studies, Huddinge, Sweden.;Orebro Univ, Sch Med Sci, Orebro, Sweden.;Orebro Univ, Fac Med & Hlth, iRiSC, Orebro, Sweden..
Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Organismal Biology, Systematic Biology. Norwegian Inst Publ Hlth, Dept Infect Dis Epidemiol & Modelling, Oslo, Norway.;Natl Vet Inst, Dept Microbiol, Uppsala, Sweden..
Sodertorn Univ, Sch Nat Sci Technol & Environm Studies, Huddinge, Sweden..
Norwegian Inst Publ Hlth, Div Infect Dis Control, Dept Virol, Oslo, Norway..
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2017 (English)In: Journal of General Virology, ISSN 0022-1317, E-ISSN 1465-2099, Vol. 98, no 3, 413-421 p.Article in journal (Refereed) Published
Abstract [en]

Every year, tick-borne encephalitis virus (TBEV) causes severe central nervous system infection in 10 000 to 15 000 people in Europe and Asia. TBEV is maintained in the environment by an enzootic cycle that requires a tick vector and a vertebrate host, and the adaptation of TBEV to vertebrate and invertebrate environments is essential for TBEV persistence in nature. This adaptation is facilitated by the error-prone nature of the virus's RNA-dependent RNA polymerase, which generates genetically distinct virus variants called quasispecies. TBEV shows a focal geographical distribution pattern where each focus represents a TBEV hotspot. Here, we sequenced and characterized two TBEV genomes, JP-296 and JP-554, from questing Ixodes ricinus ticks at a TBEV focus in central Sweden. Phylogenetic analysis showed geographical clustering among the newly sequenced strains and three previously sequenced Scandinavian strains, Toro-2003, Saringe-2009 and Mandal-2009, which originated from the same ancestor. Among these five Scandinavian TBEV strains, only Mandal-2009 showed a large deletion within the 3' non-coding region (NCR), similar to the highly virulent TBEV strain Hypr. Deep sequencing of JP-296, JP-554 and Mandal-2009 revealed significantly high quasispecies diversity for JP-296 and JP-554, with intact 3' NCRs, compared to the low diversity in Mandal-2009, with a truncated 3' NCR. Single-nucleotide polymorphism analysis showed that 40% of the single-nucleotide polymorphisms were common between quasispecies populations of JP-296 and JP-554, indicating a putative mechanism for how TBEV persists and is maintained within its natural foci.

Place, publisher, year, edition, pages
MICROBIOLOGY SOC , 2017. Vol. 98, no 3, 413-421 p.
Keyword [en]
Ixodes ricinus, natural foci, non-coding region, quasispecies, Scandinavia, tick-borne encephalitis virus
National Category
Microbiology
Identifiers
URN: urn:nbn:se:uu:diva-321991DOI: 10.1099/jgv.0.000704ISI: 000399235600013PubMedID: 28073402OAI: oai:DiVA.org:uu-321991DiVA: diva2:1095641
Funder
Swedish Research Council Formas, 201601400 2015-710
Available from: 2017-05-15 Created: 2017-05-15 Last updated: 2017-05-15Bibliographically approved

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