Genome variations of Puumala virus strains circulating in Nizhnekamsky and Tukaevsky districts of the Republic of Tatarstan

E. Kabwe a, Y.N. Davidyuk a, S.P. Morzunov b

aKazan Federal University, Kazan, 420008 Russia

bUniversity of Nevada, Reno, 89557 USA

Recieved May 17, 2018

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Abstract

Puumala virus (PUUV), which causes hemorrhagic fever with renal syndrome (HFRS), is endemic in Russia, including the Republic of Tatarstan (RT). Although hundreds of HFRS cases are recorded in RT annually, little is known about the genetic diversity of PUUV in Tatarstan. For this study, partial PUUV sequences of the S and M genome segments were obtained from bank vole populations in Tukayevsky and Nizhnekamsky districts. The genetic diversity among newly identified PUUV isolates was in the range of 0.0–3.3% for both S and M genome segments, with these isolates displaying from 5.1% to 7.8% of nucleotide sequence differences from the strains previously identified in Russia. All the recovered PUUV genome sequences phylogenetically clustered with the known PUUV strains of the previously defined Russian (RUS) genetic lineage and clearly differed from other strains circulating in the RT. It was found that the genome composition of PUUV/Nizhnekamsky/MG_134/2015 strain is likely to be a result of the intra-lineage recombination or genetic reassortment of two distinct PUUV strains.

Keywords: Puumala virus (PUUV) genome, Hantaviruses, Bunyaviridae, hemorrhagic fever with renal syndrome (HFRS), S segment, M segment, recombination, reassortment

Acknowledgments. The work was performed according to the Russian Government Program of Competitive Growth of Kazan Federal University and subsidy allocated to Kazan Federal University for the state assignment in the sphere of scientific activities. Some of the experiments were performed using the equipment of the Interdisciplinary Center of Shared Facilities and the Pharmacy Research and Education Center of Kazan Federal University (Kazan, Russia).

References

1.     Khismatullina N.A., Karimov M.M., Khaertynov K.S., Shuralev E.A., Morzunov S.P., Khaertynova I.M., Ivanov A.A., Milova I.V., Khakimzyanova M.B., Sayfullina G.Sh., Gaynullin A.A., Ivanov A.V., Rizvanov A.A., Khaiboullina S.F. Epidemiological dynamics of nephropathia epidemica in the Republic of Tatarstan, Russia, during the period of 1997 – 2013. Epidemiol. Infect., 2016, vol. 144, no. 3, pp. 618–626. doi: 10.1017/S0950268815001454.

2.     Garanina S.B., Platonov A.E., Zhuravlev V.I., Murashkina A.N., Yakimenko V.V., Korneev A.G., Shipulin G.A. Genetic diversity and geographic distribution of hantaviruses in Russia. Zoonoses Public Health, 2009, vol. 56, nos. 6–7, pp. 297–309. doi: 10.1111/j.1863-2378.2008.01210.x.

3.     Sundberg E., Hultdin J., Nilsson S., Ahlm C. Evidence of disseminated intravascular coagulation in a hemorrhagic fever with renal syndrome-scoring models and severe illness. PLoS One, 2011, vol. 6, no. 6, art. e21134, pp. 1–7. doi: 10.1371/journal.pone.0021134.

4.     Khaiboullina S.F., Morzunov S.P., St Jeor S.C. Hantaviruses: Molecular biology, evolution and pathogenesis. Curr. Mol. Med., 2005, vol. 5, no. 8, pp. 773–790. doi: 10.2174/156652405774962317.

5.     Onishchenko G.G., Ezhlova E.B. Epidemiologic surveillance and prophylaxis of hemorrhagic fever with renal syndrome in Russian Federation. Zh. Mikrobiol., Epidemiol. Immunobiol., 2013, no. 4, pp. 23–32. (In Russian)

6.     Korobov L.I., Minin G.D., Nurgaleeva R.G., Stepanenko A.G., Mustafin N.M. Morbidity and prophylaxis of hemorrhagic fever with renal syndrome in the Republic of Bashkortostan. Zh. Mikrobiol. Epidemiol. Immunobiol., 2001, no. 4, pp. 58–60. (In Russian)

7.     Kabwe E., Davidyuk Y.N., Morzunov S.P., Shakirova V.G., Anokhin V.A., Isaeva G.S., Ismagilova R.K., Khaiboullina S.F., Rizvanov A.A. Genetic characterization of small (s)-seg­ment genome Puumala virus strain Kazan. BioNanoScience, 2017, vol. 7, no. 2, pp. 316–319.

8.     Razzauti M., Plyusnina A., Sironen T., Henttonen H., Plyusnin A. Analysis of Puumala hantavirus in a bank vole population in northern Finland: Evidence for co-circulation of two genetic lineages and frequent reassortment between strains. J. Gen. Virol., 2009, vol. 90, no. 8, pp. 1923–1931. doi: 10.1099/vir.0.011304-0.

9.     Razzauti M., Plyusnina A., Henttonen H., Plyusnin A. Accumulation of point mutations and reassortment of genomic RNA segments are involved in the microevolution of Puumala hantavirus in a bank vole (Myodes glareolus) population. J. Gen. Virol., 2008, vol. 89, no. 7, pp. 1649–1660. doi: 10.1099/vir.0.2008/001248-0.

10.  de Vries A., Vennema H., Bekker D.L., Maas M., Adema J., Opsteegh M., van der Giessen J.W., Reusken C.B. Characterization of Puumala hantavirus in bank voles from two regions in the Netherlands where human cases occurred. J. Gen. Virol., 2016, vol. 97, no. 7, pp. 1500–1510. doi: 10.1099/jgv.0.000481.

11.  Plyusnina A., Heyman P., Baert K., Stuyck J., Cochez C., Plyusnin A. Genetic characterization of seoul hantavirus originated from norway rats (Rattus norvegicus) captured in Belgium. J. Med. Virol., 2012, vol. 84, no. 8, pp. 1298–1303. doi: 10.1002/jmv.23321.

12.  Ali H.S., Drewes S., Weber de Melo V., Schlegel M., Freise J., Groschup M.H., Heckel G., Ulrich R.G. Complete genome of a Puumala virus strain from Central Europe. Virus Genes, 2015, vol. 50, no. 2, pp. 292–298. doi: 10.1007/s11262-014-1157-6.

13.  Razzauti M., Plyusnina A., Niemimaa J., Henttonen H., Plyusnin A. Co-circulation of two Puumala hantavirus lineages in Latvia: A Russian lineage described previously and a novel Latvian lineage. J. Med. Virol., 2012, vol. 84, no. 2, p. 314–318. doi: 10.1002/jmv.22263.

14.  Davidyuk Y.N, Kabwe E., Khaiboullina S.F., Ismagilova R.K., Shakirova V.G., Isaeva G.S., Pavelkina V.F., Uskova Yu.G., Rizvanov A.A, Morzunov S.P. Genetic diversity of Puumala virus isolates in the Republic of Tatarstan and the Republic of Mordovia. BioNanoScience, 2017, vol. 7, no. 2, pp. 309–312. doi: 10.1007/s12668-016-0331-9.

15.  Clewley J.P. Macintosh sequence analysis software. DNAStarʼs LaserGene. Mol. Biotechnol., 1995, vol. 3, no. 3, pp. 221–224. doi: 10.1007/BF02789332.

16.  Tamura K., Stecher G., Peterson D., Filipski A., Kumar S. Molecular Evolutionary Genetics Analysis Version 6.0. Mol. Biol. Evol., 2013, vol. 30, no. 12, pp. 2725–2729. doi: 10.1093/molbev/mst197.

17. Escutenaire S., Chalon P., Heyman P., van der Auwera G., van der Groen G., Verhagen R., Thomas I., Karelle-Bui L., Vaheri A. Pastoret P.-P., Plyusnin A. Genetic characterization of Puumala hantavirus strains from Belgium: Evidence for a distinct phylogenetic lineage. Virus Res., 2001, vol. 74, nos. 1–2, pp. 1–15. doi: 10.1016/S0168-1702(00)00224-0.


For citation: Kabwe E., Davidyuk Y.N., Morzunov S.P. Genome variations of Puumala virus strains circulating in Nizhnekamsky and Tukaevsky districts of the Republic of Tatarstan. Uchenye Zapiski Kazanskogo Universiteta. Seriya Estestvennye Nauki, 2018, vol. 160, no. 3, pp. 373–385.


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