Variability of non-structural proteins of HIV-1 sub-subtype A6 (Retroviridae: Orthoretrovirinae: Lentivirus: Human immunodeficiency virus-1, sub-subtype A6) variants circulating in different regions of the Russian Federation
Introduction. HIV-1 non-structural proteins are promising targets for vaccine development and for creating approaches to personalized medicine. HIV-1 sub-subtype A6 has become the dominating strain in Russia. However, the geographic, economic and demographic characteristics of the country can contri...
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Central Research Institute for Epidemiology
2024-11-01
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| Series: | Вопросы вирусологии |
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| Online Access: | https://virusjour.crie.ru/jour/article/viewFile/16677/929 |
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| author | Anastasiia A. Antonova Aleksey V. Lebedev Ekaterina N. Ozhmegova Anastasia V. Shlykova Ilya A. Lapavok Anna I. Kuznetsova |
| author_facet | Anastasiia A. Antonova Aleksey V. Lebedev Ekaterina N. Ozhmegova Anastasia V. Shlykova Ilya A. Lapavok Anna I. Kuznetsova |
| author_sort | Anastasiia A. Antonova |
| collection | DOAJ |
| description | Introduction. HIV-1 non-structural proteins are promising targets for vaccine development and for creating approaches to personalized medicine. HIV-1 sub-subtype A6 has become the dominating strain in Russia. However, the geographic, economic and demographic characteristics of the country can contribute to the formation of differences between A6 variants circulating in different regions.
The aim of the study is a comparative analysis of the consensus sequences of non-structural proteins in A6 variants circulating in the Amur Region, in Arkhangelsk, Irkutsk and Murmansk.
Materials and methods. 48 whole blood samples obtained from HIV-infected patients without experience of therapy observed at the AIDS Centers in Arkhangelsk, Irkutsk, Murmansk and Amur Region were analyzed. HIV-1 whole-genome nucleotide sequences were obtained and were subtyped. Consensus sequences of sub-subtype A6 variants non-structural proteins for each analyzed region were formed. Furthermore, reference sequences of sub-subtype A6 non-structural proteins were formed based on whole-genome sequences retrieved from the international Los Alamos database. Comparison of consensus sequences and references was performed using the MEGA v.10.2.2 and the PSIPRED programs.
Results. Vif, Vpr and Nef reference sequences have been obtained for HIV-1 sub-subtype A6. There was not difference in consensus sequences of Vpr in different regions. Characteristic features were found for consensus sequences of Tat, Rev, Vpu, Vif and Nef proteins in different regions.
Conclusion. A limitation of the study is a small sample size. Overall, the results demonstrate the existing diversity of non-structural proteins in sub-subtype A6 variants in different regions and indicate the relevance of studying the polymorphism of non-structural proteins of virus variants in different regions. |
| format | Article |
| id | doaj-art-97e44825640e4ddd958da7d8b38a4d28 |
| institution | Kabale University |
| issn | 0507-4088 2411-2097 |
| language | English |
| publishDate | 2024-11-01 |
| publisher | Central Research Institute for Epidemiology |
| record_format | Article |
| series | Вопросы вирусологии |
| spelling | doaj-art-97e44825640e4ddd958da7d8b38a4d282024-11-12T12:34:23ZengCentral Research Institute for EpidemiologyВопросы вирусологии0507-40882411-20972024-11-0169547048010.36233/0507-4088-2621248Variability of non-structural proteins of HIV-1 sub-subtype A6 (Retroviridae: Orthoretrovirinae: Lentivirus: Human immunodeficiency virus-1, sub-subtype A6) variants circulating in different regions of the Russian FederationAnastasiia A. Antonova0https://orcid.org/0000-0002-9180-9846Aleksey V. Lebedev1https://orcid.org/0000-0001-6787-9345Ekaterina N. Ozhmegova2https://orcid.org/0000-0002-3110-0843Anastasia V. Shlykova3https://orcid.org/0000-0002-1390-8021Ilya A. Lapavok4https://orcid.org/0000-0002-6328-1415Anna I. Kuznetsova5https://orcid.org/0000-0001-5299-3081D.I. Ivanovsky Institute of Virology of National Research Center for Epidemiology and Microbiology named after Honorary Academician N.F. GamaleyaD.I. Ivanovsky Institute of Virology of National Research Center for Epidemiology and Microbiology named after Honorary Academician N.F. GamaleyaD.I. Ivanovsky Institute of Virology of National Research Center for Epidemiology and Microbiology named after Honorary Academician N.F. GamaleyaCentral Research Institute of EpidemiologyCentral Research Institute of EpidemiologyD.I. Ivanovsky Institute of Virology of National Research Center for Epidemiology and Microbiology named after Honorary Academician N.F. GamaleyaIntroduction. HIV-1 non-structural proteins are promising targets for vaccine development and for creating approaches to personalized medicine. HIV-1 sub-subtype A6 has become the dominating strain in Russia. However, the geographic, economic and demographic characteristics of the country can contribute to the formation of differences between A6 variants circulating in different regions. The aim of the study is a comparative analysis of the consensus sequences of non-structural proteins in A6 variants circulating in the Amur Region, in Arkhangelsk, Irkutsk and Murmansk. Materials and methods. 48 whole blood samples obtained from HIV-infected patients without experience of therapy observed at the AIDS Centers in Arkhangelsk, Irkutsk, Murmansk and Amur Region were analyzed. HIV-1 whole-genome nucleotide sequences were obtained and were subtyped. Consensus sequences of sub-subtype A6 variants non-structural proteins for each analyzed region were formed. Furthermore, reference sequences of sub-subtype A6 non-structural proteins were formed based on whole-genome sequences retrieved from the international Los Alamos database. Comparison of consensus sequences and references was performed using the MEGA v.10.2.2 and the PSIPRED programs. Results. Vif, Vpr and Nef reference sequences have been obtained for HIV-1 sub-subtype A6. There was not difference in consensus sequences of Vpr in different regions. Characteristic features were found for consensus sequences of Tat, Rev, Vpu, Vif and Nef proteins in different regions. Conclusion. A limitation of the study is a small sample size. Overall, the results demonstrate the existing diversity of non-structural proteins in sub-subtype A6 variants in different regions and indicate the relevance of studying the polymorphism of non-structural proteins of virus variants in different regions.https://virusjour.crie.ru/jour/article/viewFile/16677/929hiv-1sub-subtype a6non-structural proteins |
| spellingShingle | Anastasiia A. Antonova Aleksey V. Lebedev Ekaterina N. Ozhmegova Anastasia V. Shlykova Ilya A. Lapavok Anna I. Kuznetsova Variability of non-structural proteins of HIV-1 sub-subtype A6 (Retroviridae: Orthoretrovirinae: Lentivirus: Human immunodeficiency virus-1, sub-subtype A6) variants circulating in different regions of the Russian Federation Вопросы вирусологии hiv-1 sub-subtype a6 non-structural proteins |
| title | Variability of non-structural proteins of HIV-1 sub-subtype A6 (Retroviridae: Orthoretrovirinae: Lentivirus: Human immunodeficiency virus-1, sub-subtype A6) variants circulating in different regions of the Russian Federation |
| title_full | Variability of non-structural proteins of HIV-1 sub-subtype A6 (Retroviridae: Orthoretrovirinae: Lentivirus: Human immunodeficiency virus-1, sub-subtype A6) variants circulating in different regions of the Russian Federation |
| title_fullStr | Variability of non-structural proteins of HIV-1 sub-subtype A6 (Retroviridae: Orthoretrovirinae: Lentivirus: Human immunodeficiency virus-1, sub-subtype A6) variants circulating in different regions of the Russian Federation |
| title_full_unstemmed | Variability of non-structural proteins of HIV-1 sub-subtype A6 (Retroviridae: Orthoretrovirinae: Lentivirus: Human immunodeficiency virus-1, sub-subtype A6) variants circulating in different regions of the Russian Federation |
| title_short | Variability of non-structural proteins of HIV-1 sub-subtype A6 (Retroviridae: Orthoretrovirinae: Lentivirus: Human immunodeficiency virus-1, sub-subtype A6) variants circulating in different regions of the Russian Federation |
| title_sort | variability of non structural proteins of hiv 1 sub subtype a6 retroviridae orthoretrovirinae lentivirus human immunodeficiency virus 1 sub subtype a6 variants circulating in different regions of the russian federation |
| topic | hiv-1 sub-subtype a6 non-structural proteins |
| url | https://virusjour.crie.ru/jour/article/viewFile/16677/929 |
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