Vol 68, No 3 (2023)

Cover Page

Full Issue

REVIEWS

Exosomes in the life cycle of viruses and the pathogenesis of viral infections

Kushch A.A., Ivanov A.V.

Abstract

Exosomes are extracellular vesicles of endosomal origin, with a bilayer membrane, 30–160 nm in diameter. Exosomes are released from cells of different origins and are detected in various body fluids. They contain nucleic acids, proteins, lipids, metabolites and can transfer the contents to recipient cells. Exosome biogenesis involves cellular proteins of the Rab GTPase family and the ESCRT system, which regulate budding, vesicle transport, molecule sorting, membrane fusion, formation of multivesicular bodies and exosome secretion. Exosomes are released from cells infected with viruses and may contain viral DNA and RNA, as well as mRNA, microRNA, other types of RNA, proteins and virions. Exosomes are capable of transferring viral components into uninfected cells of various organs and tissues. This review analyzes the impact of exosomes on the life cycle of widespread viruses that cause serious human diseases: human immunodeficiency virus (HIV-1), hepatitis B virus, hepatitis C virus, SARS-CoV-2. Viruses are able to enter cells by endocytosis, use molecular and cellular pathways involving Rab and ESCRT proteins to release exosomes and spread viral infections. It has been shown that exosomes can have multidirectional effects on the pathogenesis of viral infections, suppressing or enhancing the course of diseases. Exosomes can potentially be used in noninvasive diagnostics as biomarkers of the stage of infection, and exosomes loaded with biomolecules and drugs - as therapeutic agents. Genetically modified exosomes are promising candidates for new antiviral vaccines.

Problems of Virology. 2023;68(3):181-197
pages 181-197 views

ORIGINAL RESEARCH

Predictive role of erythrocytes in assessment of COVID-19 outcomes

Smolyakov Y.N., Kuznik B.I., Fefelova E.V., Kazantseva L.S., Shapovalov Y.K., Lukyanchuk M.S., Lukyanov S.A., Shapovalov K.G.

Abstract

Introduction. The search for affordable and accurate predictors of the outcome of COVID-19 is extremely important, as it provides the possibility to effectively correct the patient treatment tactics.

Aim of the study. To develop simple and accurate criteria based on the dynamics of red blood counts that predict the outcome of COVID-19.

Materials and methods. Observations were carried out in 125 patients with severe and extremely severe COVID-19, in whom indicators characterizing the state of red blood were determined in dynamics on days 1, 5, 7, 10, 14 and 21 after the hospitalization. ROC analysis was performed to calculate the threshold predictive values for survival and mortality.

Results. The total number of erythrocytes and the level of hemoglobin in severe and extremely severe patients did not go beyond the acceptable limits, although showed a tendency to decrease in the group of fatal cases. On the 1st and 21st days, the number of MacroR in the deceased patients was reduced compared to those in group of survivors. It has been established that the RDW-CV test can predict the outcome of the COVID-19 with a high degree of probability at a relatively early stage of disease. RDW-SD test can be an additional predictive criterion of COVID-19 outcome.

Conclusion. The RDW-CV test can be used as an effective predictor of disease outcome in patients with severe COVID-19.

Problems of Virology. 2023;68(3):198-204
pages 198-204 views

Development and preservation of specific T-cell immunity after COVID-19 or vaccination against this infection

Blyakher M.S., Fedorova I.M., Tulskaya E.A., Kapustin I.V., Koteleva S.I., Ramazanova Z.K., Odintsov E.E., Sandalova S.V., Novikova L.I., Aleshkin A.V., Bochkareva S.S.

Abstract

Aim – evaluation of specific T-cell immunity against SARS-CoV-2 in primary and secondary response to virus antigens by screening method.

Materials and methods. Patients were tested 1–1.5 months after COVID-19 and 6–10 months before and after vaccination. Healthy volunteers were screened before, 2–6 times during the vaccination course, and 6–8 months after revaccination with the Sputnik V vaccine. IgG and IgM antibodies to SARS-CoV-2 were detected by ELISA using commercially available kits (Vector-Best, Russia). Antigenic (AG) activation of T cells in the fraction of blood’s mononuclear cells was assessed by IFN-γ production after AG stimulation in the wells of plates from ELISA kits intended for detection of antibodies against SARS-CoV-2. Data were processed by MS Excel and Statistica 10.0 software.

Results. AG-specific T cells were detected in 88.5% of vaccinated healthy volunteers, half of whom were found to have T cells appearing earlier than antibodies to AG. After 6-8 months, the level of AG activation decreases. Following the revaccination, the level of AG activation of memory T cells in vitro increases within six months in 76.9–100.0% of vaccinated subjects. On the contrary, after COVID-19, 86.7% of individuals had in their blood the AG-specific T cells with high activity at the time of vaccination. The activity of T cells recognizing the RBD domain of the SARS-CoV-2 S protein and the proportion of individuals who had these cells in their blood increased after the vaccination of reconvalescents.

Conclusion. T-cell immunity against SARS-CoV-2 antigens has been shown to persist for 6 months after illness. In vaccinated individuals without history of COVID-19, such duration of the preservation of AG-specific T cells in blood was only achieved after the revaccination.

Problems of Virology. 2023;68(3):205-214
pages 205-214 views

Intranasal vaccine against COVID-19 based on a recombinant variant of the Sendai virus (Paramyxoviridae: Respirovirus) strain Moscow

Kudrov G.A., Zainutdinov S.S., Grazhdantseva A.A., Shipovalov A.V., Sivolobova G.F., Semenova A.V., Merkuleva I.A., Shcherbakov D.N., Taranov O.S., Zaykovskaya A.V., Shulgina I.S., Pyankov O.V., Kochneva G.V.

Abstract

Introduction. Intranasal vaccination using live vector vaccines based on non-pathogenic or slightly pathogenic viruses is the one of the most convenient, safe and effective ways to prevent respiratory infections, including COVID-19. Sendai virus is the best suited for this purpose, since it is respiratory virus and is capable of limited replication in human bronchial epithelial cells without causing disease.

The aim of the work is to design and study the vaccine properties of recombinant Sendai virus, Moscow strain, expressing secreted receptor-binding domain of SARS-CoV-2 Delta strain S protein (RBDdelta) during a single intranasal immunization.

Materials and methods. Recombinant Sendai virus carrying insertion of RBDdelta transgene between P and M genes was constructed using reverse genetics and synthetic biology methods. Expression of RBDdelta was analyzed by Western blot. Vaccine properties were studied in two models: Syrian hamsters and BALB/c mice. Immunogenicity was evaluated by ELISA and virus-neutralization assays. Protectiveness was assessed by quantitation of SARS-CoV-2 RNA in RT-PCR and histological analysis of the lungs.

Results. Based on Sendai virus Moscow strain, a recombinant Sen-RBDdelta(M) was constructed that expressed a secreted RBDdelta immunologically identical to natural SARS-CoV-2 protein. A single intranasal administration of Sen-RBDdelta(M) to hamsters and mice significantly, by 15 and 107 times, respectively, reduced replicative activity of SARS-CoV-2 in lungs of animals, preventing the development of pneumonia. An effective induction of virus-neutralizing antibodies has also been demonstrated in mice.

Conclusion. Sen-RBDdelta(M) is a promising vaccine construct against SARS-CoV-2 infection and has a protective properties even after a single intranasal introduction.

Problems of Virology. 2023;68(3):215-227
pages 215-227 views

Frequency of drug resistance and immune escape mutations in the hepatitis B virus genome detected in pregnant women in the Republic of Guinea

Balde T., Ostankova Y.V., Boumbaly S., Naidenova E.V., Zueva E.B., Serikova E.N., Valutite D.E., Schemelev A.N., Davydenko V.S., Esaulenko E.V., Totolian A.A.

Abstract

The aim of the work is to assess the prevalence of hepatitis B virus drug resistance mutations and immune escape mutations in pregnant women in the Republic of Guinea.

Materials and methods. Blood plasma samples obtained from 480 pregnant women from different regions of the Republic of Guinea with laboratory-confirmed viral hepatitis B were studied. Nucleotide sequences for genotype identification and mutation detection were obtained using nested-PCR followed by Sanger sequencing, based on overlapping pairs of primers spanning the complete genome of the virus.

Results and discussion. In the examined group, the viral genotype E was the most prevalent (92.92%) compared with subgenotypes A1 (1.67%), A3 (1.46%), D1 (0.63%), D2 (1.04%) and D3 (2.29%). Among the examined HBV-infected pregnant women, 188 (39.17%) had undetectable HBsAg. Drug resistance mutations were detected in 33 individuals, which amounted to 6.88%. The following mutations were found: S78T (27.27%), L80I (24.24%), S202I (15.15%), M204I/V (42.42%). The presence of polymorphic variants not described as drug resistant has also been shown in positions associated with the development of drug resistance to tenofovir, lamivudine, telbivudine and entecavir (L80F, S202I, M204R). When analyzing the MHR and the region of a determinant, mutations were detected in 318 (66.25%) of pregnant women. In 172 of them, which amounted to 54.09%, multiple mutations were found. The amino acid substitutions in 13 positions associated with HBsAg-negative hepatitis B and/or potentially affecting HBsAg antigenicity were identified.

Conclusion. The high prevalence of immune escape and drug resistance mutations potentially associated with false-negative result of HBsAg screening, prophylaxis failure, and virological failure of therapy that has been identified among treatment naive pregnant women imposes a serious problem.

Problems of Virology. 2023;68(3):228-241
pages 228-241 views

TO VIROLOGIST’S AID

The rapid ELISA method for detection of orthopoxviruses

Ushkalenko N.D., Ersh A.V., Filatov P.V., Poltavchenko A.G.

Abstract

Introduction. Following the successful eradication of smallpox, mass vaccination against this disease was discontinued in 1980. The unvaccinated population continues to be at risk of infection due to military use of variola virus or exposure to monkeypox virus in Africa and non-endemic areas. In cases of these diseases, rapid diagnosis is of great importance, since the promptness and effectiveness of therapeutic and quarantine measures depend on it.

The aim of work is to develop a kit of reagents for enzyme-linked immunosorbent assay (ELISA) for fast and highly sensitive detection of orthopoxviruses (OPV) in clinical samples.

Materials and methods. The efficiency of virus detection was evaluated by single-stage ELISA in the cryolisate of CV-1 cell culture samples infected with vaccinia, cowpox, rabbitpox, and ectromelia viruses, as well as in clinical samples of infected rabbits and mice.

Results. The method of rapid ELISA was shown to allow the detection of OPV in crude viral samples in the range of 5.0 × 102–5.0 × 103 PFU/ml, and in clinical samples with a viral load exceeding 5 × 103 PFU/ml.

Conclusions. The assay involves a minimum number of operations and can be performed within 45 minutes, which makes it possible to use it in conditions of a high level of biosecurity. Rapid ELISA method was developed using polyclonal antibodies, which significantly simplifies and reduces the cost of manufacturing a diagnostic system.

Problems of Virology. 2023;68(3):242-251
pages 242-251 views

Mathematical model for assessing the level of cross-immunity between strains of influenza virus subtype H3N2

Asatryan M.N., Timofeev B.I., Shmyr I.S., Khachatryan K.R., Shcherbinin D.N., Timofeeva T.A., Gerasimuk E.R., Agasaryan V.G., Ershov I.F., Shashkova T.I., Kardymon O.L., Ivanisenko N.V., Semenenko T.A., Naroditsky B.S., Logunov D.Y., Gintsburg A.L.

Abstract

Introduction. The WHO regularly updates influenza vaccine recommendations to maximize their match with circulating strains. Nevertheless, the effectiveness of the influenza A vaccine, specifically its H3N2 component, has been low for several seasons.

The aim of the study is to develop a mathematical model of cross-immunity based on the array of published WHO hemagglutination inhibition assay (HAI) data.

Materials and methods. In this study, a mathematical model was proposed, based on finding, using regression analysis, the dependence of HAI titers on substitutions in antigenic sites of sequences. The computer program we developed can process data (GISAID, NCBI, etc.) and create “real-time” databases according to the set tasks.

Results. Based on our research, an additional antigenic site F was identified. The difference in 1.6 times the adjusted R2, on subsets of viruses grown in cell culture and grown in chicken embryos, demonstrates the validity of our decision to divide the original data array by passage histories. We have introduced the concept of a degree of homology between two arbitrary strains, which takes the value of a function depending on the Hamming distance, and it has been shown that the regression results significantly depend on the choice of function. The provided analysis showed that the most significant antigenic sites are A, B, and E. The obtained results on predicted HAI titers showed a good enough result, comparable to similar work by our colleagues.

Conclusion. The proposed method could serve as a useful tool for future forecasts, with further study to confirm its sustainability.

Problems of Virology. 2023;68(3):252-264
pages 252-264 views

SHORT COMMUNICATION

Analysis of resistance-associated substitutions in hepatitis C virus sequences from Kyrgyzstan

Kartashov M.Y., Svirin K.A., Bekbolotov A.A., Momusheva K.T., Iskanova B.M., Solpueva A.S., Motorov U.T., Narmatova E.B., Krivosheina E.I., Gladysheva A.V., Chub E.V., Gashnikova N.M.

Abstract

Introduction. The countries of Central Asia, including Kyrgyzstan, are characterized by high prevalence and morbidity of HCV infection. Identification of HCV genotype and mutations associated with resistance to direct-acting antiviral (DAA) plays an important role either in conducting molecular epidemiological studies or choosing the treatment tactics.

The aim of the work was to research of the genotype diversity of HCV variants circulating in Kyrgyzstan and the identification among them the mutations associated with the development of resistance to DAA.

Materials and methods. 38 serum samples from HCV-infected residents of Kyrgyzstan were analyzed in this study. The nucleotide sequences of viral gene fragments (NS3, NS5A, NS5B) were determined by Sanger’s sequencing and deposited in the international GenBank database under the numbers ON841497–ON841534 (NS5B), ON841535–ON841566 (NS5A), and ON841567–ON841584 (NS3).

Results. The HCV subtypes 1b (52.6%; 95% CI 37.3–67.5%), 3a (44.8%; 95% CI 30.2–60.2%) and 1a (2.6%; 95% CI 0.5–13.4%) are circulating in Kyrgyzstan. 37% (95% CI 19–59%) of subtype 1b isolates had C316N mutation in the NS5A gene; 46% (95% CI 23–70%) had F37L mutation in the NS5A gene; 45% (95% CI 22–72%) had Y56F mutation in the NS3 gene. Among subtype 3a isolates, resistance-associated mutations in NS5B fragment were not found. 22% (95% CI 9–45%) of subtype 3a sequences had a Y93H mutation in the NS5A gene. A combination of Y56F + Q168 + I170 mutations was identified among all sequences of NS3 gene. DAA resistance mutations were not found in NS3, NS5A, NS5B genes of subtype 1a sequence.

Conclusion. A rather high prevalence of mutations associated with resistance or significant decrease in sensitivity to DAA among HCV sequences from Kyrgyzstan was shown. Updating of data on HCV genetic diversity is necessary for timely planning of measures to combat epidemic.

Problems of Virology. 2023;68(3):265-270
pages 265-270 views


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