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Detection of the RNA for new multicomponent virus in patients with Crimean-Congo hemorrhagic fever in southern Russia
- Authors: Ternovoi V.A. 1, Gladysheva A.V. 1, Sementsova A.O. 1, Zaykovskaya A.V. 1, Volynkina A.S. 2, Kotenev E.S. 2, Agafonov A.P. 1, Loktev V.B. 1
- Affiliations:
- State Research Center for Virology and Biotechnology “Vector” Rospotrebnadzor
- Stavropol Anti-plague Institute
- Issue: Vol 75, No 2 (2020)
- Pages: 129-134
- Section: INFECTIOUS DISEASES: CURRENT ISSUES
- URL: https://vestnikramn.spr-journal.ru/jour/article/view/1192
- DOI: https://doi.org/10.15690/vramn1192
- Cite item
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Abstract
Background. Recently, a new multicomponent RNA-containing virus was described and called as Jingmen tick virus (JMTV) supposedly belonging to flaviviruses. A virus contains of four viral particles and JMTV was firstly isolated from ticks in China.
Aims. Detection viral RNA specific for JMTV complex, sequencing genome fragments and taxonomy identification novel virus from JMTV complex in patients with Crimean-Congo hemorrhagic fever (CCHF) from southern European part of Russia.
Methods. Panel of 20 randomly selected sera from patients with confirmed Crimean-Congo hemorrhagic fever was collected in 2016 and was used for detection JMTV and CCHF viral RNA by PCR with experimental primers. Subsequent sequencing of isolated fragments of viral genomes was used for identification JMTV and CCHF virus genetic materials and phylogenetic analyses.
Results. The RNA of the CCHF virus and JMTV were detected in sera of four patients. Sequencing of the PCR fragments from S segment CCHF virus were identifying these isolates as members of Europa 1 clade. The nucleotide sequences of segment 2 (GP glycoprotein) of novel JMTV isolates clustered together by phylogenetic analysis. The level nucleotide identity for discovered JMTV isolates was only about 81−82% with comparison to the previously described European variants (Kosovo) of JMTV.
Conclusions. The results allow us to conclude that in CCHF patients the RNA of the CCHF virus and RNA of the novel multicomponent JMTV flavivirus were detected in serum.
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About the authors
Vladimir A. Ternovoi
State Research Center for Virology and Biotechnology “Vector” Rospotrebnadzor
Author for correspondence.
Email: tern@vector.nsc.ru
ORCID iD: 0000-0003-1275-171X
SPIN-code: 1328-5960
ResearcherId: A-6497-2014
Russian Federation, Novosibirsk region, Koltsovo
Ph. D. in Biology
Anastasia V. Gladysheva
State Research Center for Virology and Biotechnology “Vector” Rospotrebnadzor
Email: Nastya95.ru@list.ru
ORCID iD: 0000-0002-7396-3954
SPIN-code: 5214-3421
Russian Federation, Novosibirsk region, Koltsovo
стажер-исследователь
Alexandra O. Sementsova
State Research Center for Virology and Biotechnology “Vector” Rospotrebnadzor
Email: sementsova_ao@vector.nsc.ru
ORCID iD: 0000-0002-7188-5948
SPIN-code: 3387-9642
Russian Federation, Novosibirsk region, Koltsovo
младший научный сотрудник
Anna V. Zaykovskaya
State Research Center for Virology and Biotechnology “Vector” Rospotrebnadzor
Email: zaykovskaya_av@vector.nsc.ru
ORCID iD: 0000-0002-7188-5948
SPIN-code: 9339-6505
Russian Federation, Novosibirsk region, Koltsovo
Ph. D. in Biology
Anna S. Volynkina
Stavropol Anti-plague Institute
Email: volyn444@mail.ru
ORCID iD: 0000-0001-5554-5882
SPIN-code: 3387-4340
Russian Federation, 13-15, Sovetskaya street, Stavropol, 355035
Ph. D. in Biology
Egor S. Kotenev
Stavropol Anti-plague Institute
Email: egor_kotenev@mail.ru
ORCID iD: 0000-0002-8036-8926
SPIN-code: 1562-9580
Russian Federation, 13-15, Sovetskaya street, Stavropol, 355035
Ph. D. in Biology
Alexander P. Agafonov
State Research Center for Virology and Biotechnology “Vector” Rospotrebnadzor
Email: agafonov@vector.nsc.ru
ORCID iD: 0000-0003-2577-0434
SPIN-code: 2112-2920
Russian Federation, Novosibirsk region, Koltsovo
Doct. of Biology
Valeriy B. Loktev
State Research Center for Virology and Biotechnology “Vector” Rospotrebnadzor
Email: valeryloktev@gmail.com
ORCID iD: 0000-0002-0229-321X
SPIN-code: 3496-8857
Russian Federation, Novosibirsk region, Koltsovo
Doct. of biology Professor
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Supplementary files
| Supplementary Files | Action | ||
| 1. |
Fig. 1. Phylogenetic analysis of the CCHF virus based on the S-segment (1450 nucleotides). The analysis was carried out by the Neighbor-joining method using a two-parameter Kimura model. The significance of the constructed tree was estimated using bootstrap analysis with 1000 repetitions.
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| 2. |
Fig. 2. The phylogenetic tree of the JMTV group, built on the basis of known nucleotide sequences. The analysis was carried out by the Neighbor-joining method using a two-parameter Kimura model. Original names of strains deposited in GenBank are given. The Alongshan virus sequence (MH158416) was used as an external group. The significance of the constructed tree was estimated using bootstrap analysis with 1000 repetitions.
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