Spatiotemporal dynamics of HIV-1 CRF63_02A6 sub-epidemic.

Autor: Sivay MV; Department of Retroviruses, State Research Center of Virology and Biotechnology 'Vector', Koltsovo, Russia., Maksimenko LV; Department of Retroviruses, State Research Center of Virology and Biotechnology 'Vector', Koltsovo, Russia., Osipova IP; Department of Retroviruses, State Research Center of Virology and Biotechnology 'Vector', Koltsovo, Russia., Nefedova AA; Department of Retroviruses, State Research Center of Virology and Biotechnology 'Vector', Koltsovo, Russia., Gashnikova MP; Department of Retroviruses, State Research Center of Virology and Biotechnology 'Vector', Koltsovo, Russia., Zyryanova DP; Department of Retroviruses, State Research Center of Virology and Biotechnology 'Vector', Koltsovo, Russia., Ekushov VE; Department of Retroviruses, State Research Center of Virology and Biotechnology 'Vector', Koltsovo, Russia., Totmenin AV; Department of Retroviruses, State Research Center of Virology and Biotechnology 'Vector', Koltsovo, Russia., Nalimova TM; Department of Retroviruses, State Research Center of Virology and Biotechnology 'Vector', Koltsovo, Russia., Ivlev VV; Department of Retroviruses, State Research Center of Virology and Biotechnology 'Vector', Koltsovo, Russia., Kapustin DV; City Infectious Clinical Hospital #1, Novosibirsk, Russia., Pozdnyakova LL; City Infectious Clinical Hospital #1, Novosibirsk, Russia., Skudarnov SE; Krasnoyarsk Regional Center for Prevention and Control of AIDS, Krasnoyarsk, Russia., Ostapova TS; Krasnoyarsk Regional Center for Prevention and Control of AIDS, Krasnoyarsk, Russia., Yaschenko SV; Krasnoyarsk Regional Center for Prevention and Control of AIDS, Krasnoyarsk, Russia., Nazarova OI; Omsk City Center of Prevention and Control of AIDS and Other Infectious Diseases, Omsk, Russia., Chernov AS; Tomsk Regional Center for Prevention and Control of AIDS and Other Infectious Diseases, Tomsk, Russia., Ismailova TN; Tomsk Regional Center for Prevention and Control of AIDS and Other Infectious Diseases, Tomsk, Russia., Maksutov RA; Department of Retroviruses, State Research Center of Virology and Biotechnology 'Vector', Koltsovo, Russia., Gashnikova NM; Department of Retroviruses, State Research Center of Virology and Biotechnology 'Vector', Koltsovo, Russia.
Jazyk: angličtina
Zdroj: Frontiers in microbiology [Front Microbiol] 2022 Aug 31; Vol. 13, pp. 946787. Date of Electronic Publication: 2022 Aug 31 (Print Publication: 2022).
DOI: 10.3389/fmicb.2022.946787
Abstrakt: HIV-1 epidemic in Russia is one of the fastest growing in the world reaching 1.14 million people living with HIV-1 (PLWH) in 2021. Since mid-1990s, the HIV-1 epidemic in Russia has started to grow substantially due to the multiple HIV-1 outbreaks among persons who inject drugs (PWID) leading to expansion of the HIV-1 sub-subtype A6 (former Soviet Union (FSU) subtype A). In 2006, a local HIV-1 sub-epidemic caused by the distribution of novel genetic lineage CRF63_02A6 was identified in Siberia. In this study, we used a comprehensive dataset of CRF63_02A6 pol gene sequences to investigate the spatiotemporal dynamic of the HIV-1 CRF63_02A6 sub-epidemic. This study includes all the available CRF63_02A6 HIV-1 pol gene sequences from Los Alamos National Laboratory (LANL) HIV Sequence Database. The HIV-1 subtypes of those sequences were conferred using phylogenetic analysis, and two automated HIV-1 subtyping tools Stanford HIVdb Program and COMET. Ancestral state reconstruction and origin date were estimated using Nextstrain. Evolutionary rate and phylodynamic analysis were estimated using BEAST v 1.10.4. CRF63_02A6 was assigned for 872 pol gene sequences using phylogenetic analysis approach. Predominant number (n = 832; 95.4%) of those sequences were from Russia; the remaining 40 (4.6%) sequences were from countries of Central Asia. Out of 872 CRF63_02A6 sequences, the corresponding genetic variant was assigned for 75.7 and 79.8% of sequences by Stanford and COMET subtyping tools, respectively. Dated phylogenetic analysis of the CRF63_02A6 sequences showed that the virus most likely originated in Novosibirsk, Russia, in 2005. Over the last two decades CRF63_02A6 has been widely distributed across Russia and has been sporadically detected in countries of Central Asia. Introduction of new genetic variant into mature sub-subtype A6 and CRF02_AG FSU epidemics could promote the increase of viral genetic diversity and emergence of new recombinant forms. Further HIV-1 studies are needed due to a continuing rapid virus distribution. Also, the implementation of HIV-1 prevention programs is required to reduce HIV-1 transmission. This study also highlights the discrepancies in HIV-1 subtyping approaches. The reference lists of HIV-1 sequences implemented in widely used HIV-1 automated subtyping tools need to be updated to provide reliable results.
Competing Interests: The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.
(Copyright © 2022 Sivay, Maksimenko, Osipova, Nefedova, Gashnikova, Zyryanova, Ekushov, Totmenin, Nalimova, Ivlev, Kapustin, Pozdnyakova, Skudarnov, Ostapova, Yaschenko, Nazarova, Chernov, Ismailova, Maksutov and Gashnikova.)
Databáze: MEDLINE
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