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. 2022 Mar 6;7(3):46.
doi: 10.3390/tropicalmed7030046.

Analysis of Puumala orthohantavirus Genome Variants Identified in the Territories of Volga Federal District

Emmanuel Kabwe  1   2 , Walaa Al Sheikh  1 , Anton F Shamsutdinov  1 , Ruzilya K Ismagilova  3 , Ekaterina V Martynova  1 , Olesia V Ohlopkova  4 , Yuri A Yurchenko  5   6 , Tatiana A Savitskaya  2 , Guzel S Isaeva  2 , Svetlana F Khaiboullina  1 , Albert A Rizvanov  1 , Sergey P Morzunov  1   7 , Yuriy N Davidyuk  1
Affiliations

Analysis of Puumala orthohantavirus Genome Variants Identified in the Territories of Volga Federal District

Emmanuel Kabwe et al. Trop Med Infect Dis. .

Abstract

Hemorrhagic fever with renal syndrome (HFRS) is a zoonotic disease commonly diagnosed in the Volga Federal District (VFD). HFRS is caused by Puumala orthohantavirus (PUUV), and this virus is usually detected in bank voles as its natural host (Myodes glareolus). The PUUV genome is composed of the single-stranded, negative-sense RNA containing three segments. The goal of the current study is to identify genome variants of PUUV strains circulating in bank voles captured in the Udmurt Republic (UR) and Ulyanovsk region (ULR). The comparative and phylogenetic analysis of PUUV strains revealed that strains from Varaksino site UR are closely related to strains previously identified in the Pre-Kama area of the Republic of Tatarstan (RT), whilst strains from Kurlan and Mullovka sites ULR are similar to strains from the Trans-Kama area of the RT. It was also found that Barysh ULR strains form a separate distinct group phylogenetically equidistant from Varaksino and Kurlan−Mullovka groups. The identified groups of strains can be considered as separate sub-lineages in the PUUV Russian genetic lineage. In addition, the genomes of the strains from the UR, most likely, were formed as a result of reassortment.

Keywords: Puumala orthohantavirus genome; genetic variability; phylogenetic analysis; reassortation.

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Conflict of interest statement

The authors declare no conflict of interest.

Figures

Figure 1
Figure 1
Geographical location of rodent trapping sites in the ULR and UR of the VFD. The red dots represent the trapping sites. The map was modified from free blank SVG vector map of Russia (MAPSVG, from https://mapsvg.com/maps/russia, accessed on 12 January 2022).
Figure 2
Figure 2
Phylogenetic tree calculated based on the complete coding region (CDS) (1302 bp) of PUUV S segment sequences obtained from bank voles trapped in ULR and UR. The sequence position was aligned against GenBank PUUUV Kazan strain, accession number Z84204.
Figure 3
Figure 3
Phylogenetic tree calculated based on the partial (1014 bp) of PUUV M segment sequences obtained from bank voles trapped in ULR and UR. The sequence position was aligned against GenBank Kazan, accession number Z84205.
Figure 4
Figure 4
Phylogenetic tree calculated based on the partial (603 bp) of PUUV L segment sequences obtained from bank voles trapped in ULR and UR areas. The sequence position was aligned against GenBank PUUV Kazan strain, accession number EF405801.
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