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High-throughput seq...
High-throughput sequencing of two European strains of tick-borne encephalitis virus (TBEV), Hochosterwitz and 1993/783
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- Paulsen, Katrine M. (författare)
- Norwegian Inst Publ Hlth, Div Infect Control & Environm Hlth, Dept Virol, POB 222 Skoyen, NO-0213 Oslo, Norway.
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- Lamsal, Alaka (författare)
- Norwegian Inst Publ Hlth, Div Infect Control & Environm Hlth, Dept Virol, POB 222 Skoyen, NO-0213 Oslo, Norway.;Univ South Eastern Norway, Dept Nat Sci & Environm Hlth, Gullbringvegen 36, NO-3800 Bo, Norway.
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- Bastakoti, Srijana (författare)
- Norwegian Inst Publ Hlth, Div Infect Control & Environm Hlth, Dept Virol, POB 222 Skoyen, NO-0213 Oslo, Norway.
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- Pettersson, John, 1981- (författare)
- Uppsala universitet,Institutionen för medicinsk biokemi och mikrobiologi,Univ Sydney, Marie Bashir Inst Infect Dis & Biosecur, Sch Life & Environm Sci, Charles Perkins Ctr, Sydney, NSW, Australia.;Sydney Med Sch, Sydney, NSW, Australia.
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- Pedersen, Benedikte N. (författare)
- Univ South Eastern Norway, Dept Nat Sci & Environm Hlth, Gullbringvegen 36, NO-3800 Bo, Norway.
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- Stiasny, Karin (författare)
- Med Univ Vienna, Ctr Virol, Kinderspitalgasse 15, A-1090 Vienna, Austria.
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- Haglund, Mats (författare)
- Kalmar Cty Hosp, Dept Infect Dis, SE-39185 Kalmar, Sweden.
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- Smura, Teemu (författare)
- Univ Helsinki, Dept Virol, Med, Helsinki, Finland.
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- Vapalahti, Olli (författare)
- Univ Helsinki, Dept Virol, Med, Helsinki, Finland.;Univ Helsinki, Dept Vet Biosci, Helsinki, Finland.;Univ Helsinki, Helsinki, Finland.;Helsinki Univ Hosp, Dept Virol & Immunol, Helsinki, Finland.
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- Vikse, Rose (författare)
- Norwegian Inst Publ Hlth, Div Infect Control & Environm Hlth, Dept Virol, POB 222 Skoyen, NO-0213 Oslo, Norway.
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- Alfsnes, Kristian (författare)
- Norwegian Inst Publ Hlth, Div Infect Control & Environm Hlth, Dept Bacteriol, POB 222 Skoyen, NO-0213 Oslo, Norway.
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- Andreassen, Ashild K. (författare)
- Norwegian Inst Publ Hlth, Div Infect Control & Environm Hlth, Dept Virol, POB 222 Skoyen, NO-0213 Oslo, Norway.;Univ South Eastern Norway, Dept Nat Sci & Environm Hlth, Gullbringvegen 36, NO-3800 Bo, Norway.
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Norwegian Inst Publ Hlth, Div Infect Control & Environm Hlth, Dept Virol, POB 222 Skoyen, NO-0213 Oslo, Norway Norwegian Inst Publ Hlth, Div Infect Control & Environm Hlth, Dept Virol, POB 222 Skoyen, NO-0213 Oslo, Norway.;Univ South Eastern Norway, Dept Nat Sci & Environm Hlth, Gullbringvegen 36, NO-3800 Bo, Norway. (creator_code:org_t)
- Elsevier, 2021
- 2021
- Engelska.
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Ingår i: Ticks and Tick-borne Diseases. - : Elsevier. - 1877-959X .- 1877-9603. ; 12:1
- Relaterad länk:
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https://fhi.brage.un...
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https://urn.kb.se/re...
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https://doi.org/10.1...
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Abstract
Ämnesord
Stäng
- Tick-borne encephalitis virus (TBEV) is a medically important arbovirus, widespread in Europe and Asia. The virus is primarily transmitted to humans and animals by bites from ticks and, in rare cases, by consumption of unpasteurized dairy products. The aim of this study was to sequence and characterize two TBEV strains with amplicon sequencing by designing overlapping primers. The amplicon sequencing, via Illumina MiSeq, covering nearly the entire TBEV genome, was successful: We retrieved and characterized the complete polyprotein sequence of two TBEV strains, Hochosterwitz and 1993/783 from Austria and Sweden, respectively. In this study the previous phylogenetic analysis of both strains was confirmed to be of the European subtypes of TBEV (TBEV-Eu) by whole genome sequencing. The Hochosterwitz strain clustered with the two strains KrM 93 and KrM 213 from South Korea, and the 1993/783 strain clustered together with the NL/UH strain from the Netherlands. Our study confirms the suitability and rapidness of the high-throughput sequencing method used to produce complete TBEV genomes from TBEV samples of high viral load giving high-molecular-weight cDNA with large overlapping amplicons.
Ämnesord
- MEDICIN OCH HÄLSOVETENSKAP -- Klinisk medicin -- Infektionsmedicin (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Clinical Medicine -- Infectious Medicine (hsv//eng)
Nyckelord
- TBEV
- Flaviviruses
- WGS
- Phylogeny
- Ambiguous nucleotide
Publikations- och innehållstyp
- ref (ämneskategori)
- art (ämneskategori)
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Paulsen, Katrine ...
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Lamsal, Alaka
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Bastakoti, Srija ...
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Pettersson, John ...
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Pedersen, Benedi ...
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Stiasny, Karin
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Haglund, Mats
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Smura, Teemu
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Vapalahti, Olli
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Vikse, Rose
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Alfsnes, Kristia ...
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Andreassen, Ashi ...
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Uppsala universitet