Sequencing and genetic characterization of two strains Paramushir virus obtained from the Tyuleniy Island in the Okhotsk Sea (2015)

Marina V Safonova; Mikhail Yu Shchelkanov; Kamil Khafizov; Alina D Matsvay; Andrey A Ayginin; Anna S Dolgova; Egor M Shchelkanov; Ekaterina V Pimkina; Anna S Speranskaya; Irina V Galkina; Vladimir G Dedkov

doi:10.1016/j.ttbdis.2018.11.004

Sequencing and genetic characterization of two strains Paramushir virus obtained from the Tyuleniy Island in the Okhotsk Sea (2015)

Ticks Tick Borne Dis. 2019 Feb;10(2):269-279. doi: 10.1016/j.ttbdis.2018.11.004. Epub 2018 Nov 12.

Affiliations

¹ Anti-Plague Center, Federal Service on Consumers' Rights Protection and Human Well-Being Surveillance, Moscow, Russia.
² Far Eastern Federal University, School of Biomedicine, Vladivostok, Russia; Federal Scientific Center of Eastern Asia Terrestrial Biodiversity, Vladivostok, Russia; National Scientific Center of Marine Biology, Vladivostok, Russia.
³ Central Research Institute for Epidemiology, Federal Service on Consumers' Rights Protection and Human Well-Being Surveillance, Moscow, Russia.
⁴ Far Eastern Federal University, School of Biomedicine, Vladivostok, Russia.
⁵ Central Research Institute for Epidemiology, Federal Service on Consumers' Rights Protection and Human Well-Being Surveillance, Moscow, Russia; Lomonosov State University, Moscow, Russia.
⁶ Saint-Petersburg Pasteur Institute, Center, Federal Service on Consumers' Rights Protection and Human Well-Being Surveillance, Saint-Petersburg, Russia; Martsinovsky Institute of Medical Parasitology, Tropical and Vector Borne Diseases, Sechenov First Moscow State Medical University, Moscow, Russia. Electronic address: vgdedkov@yandex.ru.

PMID: 30448254
DOI: 10.1016/j.ttbdis.2018.11.004

Abstract

Paramushir virus belongs to Sakhalin virus genogroup within Orthonairovirus genus and is one of the poorly studied viruses with unknown pathogenicity. At the moment, only one nearly complete sequence of Paramushir virus genome, isolated in 1972, is available. Two new strains of PARV were isolated in 2015 from a sample collected at the Tyuleniy Island in the Okhotsk Sea and sequenced using a combination of high throughput sequencing and specific multiplex PCR. Both strains are closely related to the early sequenced PARV strain LEIV-1149 K. The signs of intersegment reassortment and probable recombination were revealed, which point to a high variability potential of Paramushir virus and may lead to the formation of strains with novel properties, different from those of the predecessors. The new data regarding Paramushir virus can promote a better understanding of the diversity and relations within Orthonairovirus genus and help define intragenic demarcation criteria, which have not yet been established.

Keywords: Broad-range PCR; High throughput sequencing; Orthonairoviruses; Paramushir virus; Russia.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Animals
Genome, Viral
High-Throughput Nucleotide Sequencing
Islands
Multiplex Polymerase Chain Reaction
Nairovirus / genetics*
Nairovirus / isolation & purification
Phylogeny*
RNA, Viral / isolation & purification
Reassortant Viruses / genetics
Reassortant Viruses / isolation & purification
Recombination, Genetic
Russia
Ticks / virology*

Substances

RNA, Viral