Molecular epidemiology of HIV-1 in Oryol Oblast, Russia

Abstract The HIV/AIDS epidemic in Russia is growing, with approximately 100,000 people infected annually. Molecular epidemiology can provide insight into the structure and dynamics of the epidemic. However, its applicability in Russia is limited by the weakness of genetic surveillance, as viral gene...

Full description

Saved in:
Bibliographic Details
Published in:Virus evolution 2022, Vol.8 (1), p.veac044-veac044
Main Authors: Safina, Ksenia R, Sidorina, Yulia, Efendieva, Natalya, Belonosova, Elena, Saleeva, Darya, Kirichenko, Alina, Kireev, Dmitry, Pokrovsky, Vadim, Bazykin, Georgii A
Format: Article
Language:English
Citations: Items that this one cites
Items that cite this one
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
cited_by cdi_FETCH-LOGICAL-c486t-1746e3f9d2b0130ef6af769a465df3e7f90374c40868fd6b84ebc925fb5270ba3
cites cdi_FETCH-LOGICAL-c486t-1746e3f9d2b0130ef6af769a465df3e7f90374c40868fd6b84ebc925fb5270ba3
container_end_page veac044
container_issue 1
container_start_page veac044
container_title Virus evolution
container_volume 8
creator Safina, Ksenia R
Sidorina, Yulia
Efendieva, Natalya
Belonosova, Elena
Saleeva, Darya
Kirichenko, Alina
Kireev, Dmitry
Pokrovsky, Vadim
Bazykin, Georgii A
description Abstract The HIV/AIDS epidemic in Russia is growing, with approximately 100,000 people infected annually. Molecular epidemiology can provide insight into the structure and dynamics of the epidemic. However, its applicability in Russia is limited by the weakness of genetic surveillance, as viral genetic data are only available for
doi_str_mv 10.1093/ve/veac044
format article
fullrecord <record><control><sourceid>proquest_pubme</sourceid><recordid>TN_cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_9239399</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><oup_id>10.1093/ve/veac044</oup_id><sourcerecordid>2684101328</sourcerecordid><originalsourceid>FETCH-LOGICAL-c486t-1746e3f9d2b0130ef6af769a465df3e7f90374c40868fd6b84ebc925fb5270ba3</originalsourceid><addsrcrecordid>eNp9kE9LAzEQxYMoVmovfoK9CCKu5t8mm4sgRW2hUhD1GrLZpEayzZrsFvrtXWkRvQgDM8z8ePN4AJwheI2gIDcbM5TSkNIDcIJhwXNUcH74ax6BSUofEEJUEE4ROQYjMqwLiPkJ4E_BG917FTPTuto0Lviw2mbBZrP5W44yt86WcRt8tqy8St1V9tyn5NQpOLLKJzPZ9zF4fbh_mc7yxfJxPr1b5JqWrMsRp8wQK2pcQUSgsUxZzoSirKgtMdwKOHjSFJastDWrSmoqLXBhqwJzWCkyBrc73bavGlNrs-6i8rKNrlFxK4Ny8u9l7d7lKmykwEQQIQaBi71ADJ-9SZ1sXNLGe7U2oU8Ss5KiwRsuB_Ryh-oYUorG_rxBUH6HLTdG7sMe4PMdHPr2P-4Lni99Sg</addsrcrecordid><sourcetype>Open Access Repository</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>2684101328</pqid></control><display><type>article</type><title>Molecular epidemiology of HIV-1 in Oryol Oblast, Russia</title><source>Open Access: PubMed Central</source><source>Oxford Open Access Journals</source><creator>Safina, Ksenia R ; Sidorina, Yulia ; Efendieva, Natalya ; Belonosova, Elena ; Saleeva, Darya ; Kirichenko, Alina ; Kireev, Dmitry ; Pokrovsky, Vadim ; Bazykin, Georgii A</creator><creatorcontrib>Safina, Ksenia R ; Sidorina, Yulia ; Efendieva, Natalya ; Belonosova, Elena ; Saleeva, Darya ; Kirichenko, Alina ; Kireev, Dmitry ; Pokrovsky, Vadim ; Bazykin, Georgii A</creatorcontrib><description>Abstract The HIV/AIDS epidemic in Russia is growing, with approximately 100,000 people infected annually. Molecular epidemiology can provide insight into the structure and dynamics of the epidemic. However, its applicability in Russia is limited by the weakness of genetic surveillance, as viral genetic data are only available for &lt;1 per cent of cases. Here, we provide a detailed description of the HIV-1 epidemic for one geographic region of Russia, Oryol Oblast, by collecting and sequencing viral samples from about a third of its known HIV-positive population (768 out of 2,157 patients). We identify multiple introductions of HIV-1 into Oryol Oblast, resulting in eighty-two transmission lineages that together comprise 66 per cent of the samples. Most introductions are of subtype A (315/332), the predominant HIV-1 subtype in Russia, followed by CRF63 and subtype B. Bayesian analysis estimates the effective reproduction number Re for subtype A at 2.8 [1.7–4.4], in line with a growing epidemic. The frequency of CRF63 has been growing more rapidly, with the median Re of 11.8 [4.6–28.7], in agreement with recent reports of this variant rising in frequency in some regions of Russia. In contrast to the patterns described previously in European and North American countries, we see no overrepresentation of males in transmission lineages; meanwhile, injecting drug users are overrepresented in transmission lineages. This likely reflects the structure of the HIV-1 epidemic in Russia dominated by heterosexual and, to a smaller extent, people who inject drugs transmission. Samples attributed to men who have sex with men (MSM) transmission are associated with subtype B and are less prevalent than expected from the male-to-female ratio for this subtype, suggesting underreporting of the MSM transmission route. Together, our results provide a high-resolution description of the HIV-1 epidemic in Oryol Oblast, Russia, characterized by frequent interregional transmission, rapid growth of the epidemic, and rapid displacement of subtype A with the recombinant CRF63 variant.</description><identifier>ISSN: 2057-1577</identifier><identifier>EISSN: 2057-1577</identifier><identifier>DOI: 10.1093/ve/veac044</identifier><identifier>PMID: 35775027</identifier><language>eng</language><publisher>UK: Oxford University Press</publisher><ispartof>Virus evolution, 2022, Vol.8 (1), p.veac044-veac044</ispartof><rights>The Author(s) 2022. Published by Oxford University Press. 2022</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c486t-1746e3f9d2b0130ef6af769a465df3e7f90374c40868fd6b84ebc925fb5270ba3</citedby><cites>FETCH-LOGICAL-c486t-1746e3f9d2b0130ef6af769a465df3e7f90374c40868fd6b84ebc925fb5270ba3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC9239399/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC9239399/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,881,1598,4009,27902,27903,27904,53769,53771</link.rule.ids></links><search><creatorcontrib>Safina, Ksenia R</creatorcontrib><creatorcontrib>Sidorina, Yulia</creatorcontrib><creatorcontrib>Efendieva, Natalya</creatorcontrib><creatorcontrib>Belonosova, Elena</creatorcontrib><creatorcontrib>Saleeva, Darya</creatorcontrib><creatorcontrib>Kirichenko, Alina</creatorcontrib><creatorcontrib>Kireev, Dmitry</creatorcontrib><creatorcontrib>Pokrovsky, Vadim</creatorcontrib><creatorcontrib>Bazykin, Georgii A</creatorcontrib><title>Molecular epidemiology of HIV-1 in Oryol Oblast, Russia</title><title>Virus evolution</title><description>Abstract The HIV/AIDS epidemic in Russia is growing, with approximately 100,000 people infected annually. Molecular epidemiology can provide insight into the structure and dynamics of the epidemic. However, its applicability in Russia is limited by the weakness of genetic surveillance, as viral genetic data are only available for &lt;1 per cent of cases. Here, we provide a detailed description of the HIV-1 epidemic for one geographic region of Russia, Oryol Oblast, by collecting and sequencing viral samples from about a third of its known HIV-positive population (768 out of 2,157 patients). We identify multiple introductions of HIV-1 into Oryol Oblast, resulting in eighty-two transmission lineages that together comprise 66 per cent of the samples. Most introductions are of subtype A (315/332), the predominant HIV-1 subtype in Russia, followed by CRF63 and subtype B. Bayesian analysis estimates the effective reproduction number Re for subtype A at 2.8 [1.7–4.4], in line with a growing epidemic. The frequency of CRF63 has been growing more rapidly, with the median Re of 11.8 [4.6–28.7], in agreement with recent reports of this variant rising in frequency in some regions of Russia. In contrast to the patterns described previously in European and North American countries, we see no overrepresentation of males in transmission lineages; meanwhile, injecting drug users are overrepresented in transmission lineages. This likely reflects the structure of the HIV-1 epidemic in Russia dominated by heterosexual and, to a smaller extent, people who inject drugs transmission. Samples attributed to men who have sex with men (MSM) transmission are associated with subtype B and are less prevalent than expected from the male-to-female ratio for this subtype, suggesting underreporting of the MSM transmission route. Together, our results provide a high-resolution description of the HIV-1 epidemic in Oryol Oblast, Russia, characterized by frequent interregional transmission, rapid growth of the epidemic, and rapid displacement of subtype A with the recombinant CRF63 variant.</description><issn>2057-1577</issn><issn>2057-1577</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2022</creationdate><recordtype>article</recordtype><sourceid>TOX</sourceid><recordid>eNp9kE9LAzEQxYMoVmovfoK9CCKu5t8mm4sgRW2hUhD1GrLZpEayzZrsFvrtXWkRvQgDM8z8ePN4AJwheI2gIDcbM5TSkNIDcIJhwXNUcH74ax6BSUofEEJUEE4ROQYjMqwLiPkJ4E_BG917FTPTuto0Lviw2mbBZrP5W44yt86WcRt8tqy8St1V9tyn5NQpOLLKJzPZ9zF4fbh_mc7yxfJxPr1b5JqWrMsRp8wQK2pcQUSgsUxZzoSirKgtMdwKOHjSFJastDWrSmoqLXBhqwJzWCkyBrc73bavGlNrs-6i8rKNrlFxK4Ny8u9l7d7lKmykwEQQIQaBi71ADJ-9SZ1sXNLGe7U2oU8Ss5KiwRsuB_Ryh-oYUorG_rxBUH6HLTdG7sMe4PMdHPr2P-4Lni99Sg</recordid><startdate>2022</startdate><enddate>2022</enddate><creator>Safina, Ksenia R</creator><creator>Sidorina, Yulia</creator><creator>Efendieva, Natalya</creator><creator>Belonosova, Elena</creator><creator>Saleeva, Darya</creator><creator>Kirichenko, Alina</creator><creator>Kireev, Dmitry</creator><creator>Pokrovsky, Vadim</creator><creator>Bazykin, Georgii A</creator><general>Oxford University Press</general><scope>TOX</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>2022</creationdate><title>Molecular epidemiology of HIV-1 in Oryol Oblast, Russia</title><author>Safina, Ksenia R ; Sidorina, Yulia ; Efendieva, Natalya ; Belonosova, Elena ; Saleeva, Darya ; Kirichenko, Alina ; Kireev, Dmitry ; Pokrovsky, Vadim ; Bazykin, Georgii A</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c486t-1746e3f9d2b0130ef6af769a465df3e7f90374c40868fd6b84ebc925fb5270ba3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2022</creationdate><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Safina, Ksenia R</creatorcontrib><creatorcontrib>Sidorina, Yulia</creatorcontrib><creatorcontrib>Efendieva, Natalya</creatorcontrib><creatorcontrib>Belonosova, Elena</creatorcontrib><creatorcontrib>Saleeva, Darya</creatorcontrib><creatorcontrib>Kirichenko, Alina</creatorcontrib><creatorcontrib>Kireev, Dmitry</creatorcontrib><creatorcontrib>Pokrovsky, Vadim</creatorcontrib><creatorcontrib>Bazykin, Georgii A</creatorcontrib><collection>Oxford Open Access Journals</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Virus evolution</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Safina, Ksenia R</au><au>Sidorina, Yulia</au><au>Efendieva, Natalya</au><au>Belonosova, Elena</au><au>Saleeva, Darya</au><au>Kirichenko, Alina</au><au>Kireev, Dmitry</au><au>Pokrovsky, Vadim</au><au>Bazykin, Georgii A</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Molecular epidemiology of HIV-1 in Oryol Oblast, Russia</atitle><jtitle>Virus evolution</jtitle><date>2022</date><risdate>2022</risdate><volume>8</volume><issue>1</issue><spage>veac044</spage><epage>veac044</epage><pages>veac044-veac044</pages><issn>2057-1577</issn><eissn>2057-1577</eissn><abstract>Abstract The HIV/AIDS epidemic in Russia is growing, with approximately 100,000 people infected annually. Molecular epidemiology can provide insight into the structure and dynamics of the epidemic. However, its applicability in Russia is limited by the weakness of genetic surveillance, as viral genetic data are only available for &lt;1 per cent of cases. Here, we provide a detailed description of the HIV-1 epidemic for one geographic region of Russia, Oryol Oblast, by collecting and sequencing viral samples from about a third of its known HIV-positive population (768 out of 2,157 patients). We identify multiple introductions of HIV-1 into Oryol Oblast, resulting in eighty-two transmission lineages that together comprise 66 per cent of the samples. Most introductions are of subtype A (315/332), the predominant HIV-1 subtype in Russia, followed by CRF63 and subtype B. Bayesian analysis estimates the effective reproduction number Re for subtype A at 2.8 [1.7–4.4], in line with a growing epidemic. The frequency of CRF63 has been growing more rapidly, with the median Re of 11.8 [4.6–28.7], in agreement with recent reports of this variant rising in frequency in some regions of Russia. In contrast to the patterns described previously in European and North American countries, we see no overrepresentation of males in transmission lineages; meanwhile, injecting drug users are overrepresented in transmission lineages. This likely reflects the structure of the HIV-1 epidemic in Russia dominated by heterosexual and, to a smaller extent, people who inject drugs transmission. Samples attributed to men who have sex with men (MSM) transmission are associated with subtype B and are less prevalent than expected from the male-to-female ratio for this subtype, suggesting underreporting of the MSM transmission route. Together, our results provide a high-resolution description of the HIV-1 epidemic in Oryol Oblast, Russia, characterized by frequent interregional transmission, rapid growth of the epidemic, and rapid displacement of subtype A with the recombinant CRF63 variant.</abstract><cop>UK</cop><pub>Oxford University Press</pub><pmid>35775027</pmid><doi>10.1093/ve/veac044</doi><oa>free_for_read</oa></addata></record>
fulltext fulltext
identifier ISSN: 2057-1577
ispartof Virus evolution, 2022, Vol.8 (1), p.veac044-veac044
issn 2057-1577
2057-1577
language eng
recordid cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_9239399
source Open Access: PubMed Central; Oxford Open Access Journals
title Molecular epidemiology of HIV-1 in Oryol Oblast, Russia
url http://sfxeu10.hosted.exlibrisgroup.com/loughborough?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-01-24T23%3A21%3A19IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-proquest_pubme&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=Molecular%20epidemiology%20of%20HIV-1%20in%20Oryol%20Oblast,%20Russia&rft.jtitle=Virus%20evolution&rft.au=Safina,%20Ksenia%20R&rft.date=2022&rft.volume=8&rft.issue=1&rft.spage=veac044&rft.epage=veac044&rft.pages=veac044-veac044&rft.issn=2057-1577&rft.eissn=2057-1577&rft_id=info:doi/10.1093/ve/veac044&rft_dat=%3Cproquest_pubme%3E2684101328%3C/proquest_pubme%3E%3Cgrp_id%3Ecdi_FETCH-LOGICAL-c486t-1746e3f9d2b0130ef6af769a465df3e7f90374c40868fd6b84ebc925fb5270ba3%3C/grp_id%3E%3Coa%3E%3C/oa%3E%3Curl%3E%3C/url%3E&rft_id=info:oai/&rft_pqid=2684101328&rft_id=info:pmid/35775027&rft_oup_id=10.1093/ve/veac044&rfr_iscdi=true