Single nucleotide polymorphisms in U86 Human betaherpesvirus 6B

Vyazovaya A.A.; Narvskaya O.V.; Vedernikov V.E.; Nikolskiy M.A.

doi:https://doi.org/10.17116/molgen20224003122

Vyazovaya A.A.

St. Petersburg Pasteur Institute

Narvskaya O.V.

St. Petersburg Pasteur Institute;
St. Petersburg Research Institute of Phthisiopulmonology

Vedernikov V.E.

Alkor Bio Group of Companies

Nikolskiy M.A.

Pavlov First St. Petersburg State Medical University

Single nucleotide polymorphisms in U86 Human betaherpesvirus 6B

Authors:

Vyazovaya A.A., Narvskaya O.V., Vedernikov V.E., Nikolskiy M.A.

More about the authors

Journal: Molecular Genetics, Microbiology and Virology. 2022;40(3): 22‑25

DOI: 10.17116/molgen20224003122

Read: 1057 times

Download PDF (RU)

Contact the author

Table of contents

To cite this article:

Vyazovaya AA, Narvskaya OV, Vedernikov VE, Nikolskiy MA. Single nucleotide polymorphisms in U86 Human betaherpesvirus 6B. Molecular Genetics, Microbiology and Virology. 2022;40(3):22‑25. (In Russ.)
https://doi.org/10.17116/molgen20224003122

Подписка 2026 Молекулярная генетика, микробиология и вирусология (Molecular Genetics, Microbiology and Virology)

Использование инфографики авторами научных работ

Close metadata

Abstract:

There are single publications dedicated to identifying and typing the Human Herpesvirus type 6 (HHV-6) virus in the domestic scientific literature. Meanwhile, the determination of the genetic polymorphism of HHV-6A and HHV-6B will allow studying the geographic distribution and circulation patterns in human populations of various genotypes of the virus.

The study aimed to analyze single nucleotide polymorphisms in the U86 gene to characterize the population of HHV-6B in Russia.

MATERIALS AND METHODS

The Sanger sequencing of HHV-6 DNA from 49 blood samples of children with acute HHV-6 infection in St. Petersburg was carried out. The nucleotide sequences of the 317 bp-fragment of the U86 gene of clinical isolates were aligned to the reference genome HHV-6B NC_000898 (strain Z29).

Results and discussion. The majority (63%) of HHV-6B isolates for this gene region were identical to the reference strain; 18 isolates showed four variants of single nucleotide substitutions, including three non-synonymous ones. Of the 18 isolates, 11 (6%) differed from the reference in two SNPs, six (3%) — in all four SNPs, and one (0.5%) had three single nucleotide substitutions. All four profiles of single nucleotide substitutions (sequence types) of the U86 gene fragment of Russian isolates had analogs among HHV-6B isolates of various geographic origins presented in the NCBI GenBank.

CONCLUSION

Sequencing of the U86 gene fragment confirmed the species affiliation to HHV-6B of 49 studied isolates, making it possible to estimate the prevalence and establish phylogenetic relationships of four sequence types in Russian and foreign populations of the virus.

Keywords:

Human Herpes Virus 6

Human betaherpesvirus 6B

HHV-6B

U86 gene

single nucleotide polymorphisms

Authors:

Vyazovaya A.A.

St. Petersburg Pasteur Institute

Narvskaya O.V.

St. Petersburg Pasteur Institute;
St. Petersburg Research Institute of Phthisiopulmonology

Vedernikov V.E.

Alkor Bio Group of Companies

Nikolskiy M.A.

Pavlov First St. Petersburg State Medical University

Received:

28.10.2020

Accepted:

30.09.2021

Close metadata

References:

Dominguez G, Dambaugh TR, Stamey FR, Dewhurst S, Inoue N, Pellett PE. Human herpesvirus 6B genome sequence: coding content and comparison with human herpesvirus 6A. J Virol. 1999;73(10):8040-8052. https://doi.org/10.1128/JVI.73.10.8040-8052.1999
Ablashi D, Agut H, Alvarez-Lafuente R, Clark DA, Dewhurst S, DiLuca D, et al. Classification of HHV-6A and HHV-6B as distinct viruses. Arch Virol. 2014;159(5):863-870. https://doi.org/10.1007/s00705-013-1902-5
Agut H, Bonnafous P, Gautheret-Dejean A. Update on infections with human herpesviruses 6A, 6B, and 7. Med Mal Infect. 2017;47(2):83-91. https://doi.org/10.1016/j.medmal.2016.09.004
Liu X, Kosugi S, Koide R, Kawamura Y, Ito J, Miura H, et al. Endogenization and excision of human herpesvirus 6 in human genomes. PLoS Genet. 2020;16(8):e1008915. https://doi.org/10.1371/journal.pgen.1008915
Greninger AL, Knudsen GM, Roychoudhury P, Hanson DJ, Sedlak RH, Xie H, et al. Comparative genomic, transcriptomic, and proteomic reannotation of human herpesvirus 6. BMC Genomics. 2018;19(1):204. https://doi.org/10.1186/s12864-018-4604-2
Melekhina EV, Lysenkova MYu, Svitich OA, Muzyka AD, Karazhas NV, Rybalkina TN, et al. Features of HHV-6A and HHV-6B infections in children living in the Moscow Region. Èpidemiologiâ i Infekcionnye Bolezni. Aktual’nye voprosy. 2018;2:42-49. (In Russ.). https://doi.org/10.18565/epidem.2018.2.42-9
Nikolsky MA, Vyazovaya AA, Vedernikov VE, Narvskaya OV, Lioznov DA, Smirnova NN, et al. Molecular and biological characteristics of human herpes virus type 6 in patients with different variants of the disease course. Pediatria. Journal named after G.N. Speransky. 2019;98(1):53-56. (In Russ.). https://doi.org/10.24110/0031-403X-2019-98-1-53-56
Isegawa Y, Mukai T, Nakano K, Kagawa M, Chen J, Mori Y, et al. Comparison of the complete DNA sequences of human herpesvirus 6 variants A and B. J Virol. 1999;73(10):8053-8063. https://doi.org/10.1128/jvi.73.10.8053-8063.1999
Iampietro M, Morissette G, Gravel A, Dubuc I, Rousseau M, Hasan A, et al. Human herpesvirus 6B immediate-early I protein contains functional HLA-A*02, HLA-A*03, and HLA-B*07 class I restricted CD8(+) T-cell epitopes. Eur J Immunol. 2014;44(12):3573-3584. https://doi.org/10.1002/eji.201444931