HIV-1 subtypes and recombinants in Northern Tanzania: distribution of viral quasispecies
This study analyzed the distribution and prevalence of HIV-1 subtypes, multiplicity of HIV-1 infection, and frequency of inter-subtype recombination among HIV-1-infected female bar and hotel workers in Moshi, Kilimanjaro Region, Tanzania, from 2004 to 2007. The HIV-1 viral sequences spanning the V1-...
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| description | This study analyzed the distribution and prevalence of HIV-1 subtypes, multiplicity of HIV-1 infection, and frequency of inter-subtype recombination among HIV-1-infected female bar and hotel workers in Moshi, Kilimanjaro Region, Tanzania, from 2004 to 2007. The HIV-1 viral sequences spanning the V1-C5 region of HIV-1 env gp120 were analyzed from 50 subjects by single genome amplification and sequencing (SGA/S) technique. A total of 1740 sequences were amplified and sequenced from the HIV-1 proviral DNA template. The median env sequences analyzed per subject per two time points was 38 (IQR 28-50) over one year of HIV infection. In a subset of 14 subjects, a total of 239 sequences were obtained from HIV-1 RNA template at the baseline visit. The most prevalent HIV-1 subtypes were A1 (56%) and C (30%), while HIV-1 subtype D and inter-subtype recombinant viruses were found in 6% and 8% of subjects respectively. Transmission of multiple HIV-1 variants was evident in 27% of the subjects infected with pure HIV-1 subtypes A1, C, or D. The HIV-1 inter-subtype recombinants were found in 8% including HIV-1 C/A, D/A, and complex mosaic recombinants. Multiple viral variants were found in two subjects infected with inter-subtype recombinants. One subject harbored quasispecies of both pure HIV-1 A1 and C/A recombinant. The other subject was infected with two complex mosaic inter-subtype recombinant variants belonging to subtype D. HIV-1 multiple infections and ongoing recombination contribute significantly to the genetic diversity of circulating HIV-1 in Tanzania and have important implications for vaccine design and the development of therapeutic strategies. |
| doi_str_mv | 10.1371/journal.pone.0047605 |
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The HIV-1 viral sequences spanning the V1-C5 region of HIV-1 env gp120 were analyzed from 50 subjects by single genome amplification and sequencing (SGA/S) technique. A total of 1740 sequences were amplified and sequenced from the HIV-1 proviral DNA template. The median env sequences analyzed per subject per two time points was 38 (IQR 28-50) over one year of HIV infection. In a subset of 14 subjects, a total of 239 sequences were obtained from HIV-1 RNA template at the baseline visit. The most prevalent HIV-1 subtypes were A1 (56%) and C (30%), while HIV-1 subtype D and inter-subtype recombinant viruses were found in 6% and 8% of subjects respectively. Transmission of multiple HIV-1 variants was evident in 27% of the subjects infected with pure HIV-1 subtypes A1, C, or D. The HIV-1 inter-subtype recombinants were found in 8% including HIV-1 C/A, D/A, and complex mosaic recombinants. Multiple viral variants were found in two subjects infected with inter-subtype recombinants. One subject harbored quasispecies of both pure HIV-1 A1 and C/A recombinant. The other subject was infected with two complex mosaic inter-subtype recombinant variants belonging to subtype D. HIV-1 multiple infections and ongoing recombination contribute significantly to the genetic diversity of circulating HIV-1 in Tanzania and have important implications for vaccine design and the development of therapeutic strategies.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0047605</identifier><identifier>PMID: 23118882</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Acquired immune deficiency syndrome ; Adolescent ; Adult ; AIDS ; AIDS vaccines ; Analysis ; Biology ; Deoxyribonucleic acid ; Disease transmission ; DNA ; DNA, Viral - classification ; DNA, Viral - genetics ; Epidemiology ; Female ; Gene Products, rev - genetics ; Gene sequencing ; Genetic diversity ; Genomes ; Genomics ; Glycoprotein gp120 ; Health aspects ; HIV ; HIV infections ; HIV Infections - genetics ; HIV Infections - virology ; HIV Seropositivity - genetics ; HIV-1 - classification ; HIV-1 - genetics ; HIV-1 - pathogenicity ; Human immunodeficiency virus ; Humans ; Infection ; Infections ; Medicine ; Middle Aged ; Nucleotide sequence ; Phylogeny ; Recombinants ; Recombination ; Recombination, Genetic ; Ribonucleic acid ; RNA ; Sequence Analysis, DNA ; Sex Workers ; Tanzania ; Viruses ; Workers</subject><ispartof>PloS one, 2012-10, Vol.7 (10), p.e47605-e47605</ispartof><rights>COPYRIGHT 2012 Public Library of Science</rights><rights>2012 Kiwelu et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License: https://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>2012 Kiwelu et al 2012 Kiwelu et al</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c692t-e127afba14cb0468fbe9f68acc99c869a36fa10dac7a6e08264f4e4c7fef43e33</citedby><cites>FETCH-LOGICAL-c692t-e127afba14cb0468fbe9f68acc99c869a36fa10dac7a6e08264f4e4c7fef43e33</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/PMC3485255/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC3485255/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,860,881,2096,2915,23845,27901,27902,53766,53768,79342,79343</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/23118882$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Kiwelu, Ireen E</creatorcontrib><creatorcontrib>Novitsky, Vladimir</creatorcontrib><creatorcontrib>Margolin, Lauren</creatorcontrib><creatorcontrib>Baca, Jeannie</creatorcontrib><creatorcontrib>Manongi, Rachel</creatorcontrib><creatorcontrib>Sam, Noel</creatorcontrib><creatorcontrib>Shao, John</creatorcontrib><creatorcontrib>McLane, Mary F</creatorcontrib><creatorcontrib>Kapiga, Saidi H</creatorcontrib><creatorcontrib>Essex, M</creatorcontrib><title>HIV-1 subtypes and recombinants in Northern Tanzania: distribution of viral quasispecies</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>This study analyzed the distribution and prevalence of HIV-1 subtypes, multiplicity of HIV-1 infection, and frequency of inter-subtype recombination among HIV-1-infected female bar and hotel workers in Moshi, Kilimanjaro Region, Tanzania, from 2004 to 2007. 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HIV-1 multiple infections and ongoing recombination contribute significantly to the genetic diversity of circulating HIV-1 in Tanzania and have important implications for vaccine design and the development of therapeutic strategies.</description><subject>Acquired immune deficiency syndrome</subject><subject>Adolescent</subject><subject>Adult</subject><subject>AIDS</subject><subject>AIDS vaccines</subject><subject>Analysis</subject><subject>Biology</subject><subject>Deoxyribonucleic acid</subject><subject>Disease transmission</subject><subject>DNA</subject><subject>DNA, Viral - classification</subject><subject>DNA, Viral - genetics</subject><subject>Epidemiology</subject><subject>Female</subject><subject>Gene Products, rev - genetics</subject><subject>Gene sequencing</subject><subject>Genetic diversity</subject><subject>Genomes</subject><subject>Genomics</subject><subject>Glycoprotein gp120</subject><subject>Health aspects</subject><subject>HIV</subject><subject>HIV infections</subject><subject>HIV Infections - genetics</subject><subject>HIV Infections - virology</subject><subject>HIV Seropositivity - genetics</subject><subject>HIV-1 - classification</subject><subject>HIV-1 - genetics</subject><subject>HIV-1 - pathogenicity</subject><subject>Human immunodeficiency virus</subject><subject>Humans</subject><subject>Infection</subject><subject>Infections</subject><subject>Medicine</subject><subject>Middle Aged</subject><subject>Nucleotide sequence</subject><subject>Phylogeny</subject><subject>Recombinants</subject><subject>Recombination</subject><subject>Recombination, Genetic</subject><subject>Ribonucleic acid</subject><subject>RNA</subject><subject>Sequence Analysis, DNA</subject><subject>Sex Workers</subject><subject>Tanzania</subject><subject>Viruses</subject><subject>Workers</subject><issn>1932-6203</issn><issn>1932-6203</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2012</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>BENPR</sourceid><sourceid>DOA</sourceid><recordid>eNqNk1FrFDEQxxdRbK1-A9EFQfThzmSTzWV9EEpRe1AsaC2-hdns5C7HXnJNdov105vrbcut9EHykDD5zX8yk5kse0nJlLIZ_bDyfXDQTjfe4ZQQPhOkfJQd0ooVE1EQ9njvfJA9i3FFSMmkEE-zg4JRKqUsDrNfp_PLCc1jX3c3G4w5uCYPqP26tg5cF3Pr8m8-dEsMLr8A9wechY95Y2MXbN131rvcm_zaBmjzqx6ijRvUFuPz7ImBNuKLYT_Kfn75fHFyOjk7_zo_OT6baFEV3QRpMQNTA-W6JlxIU2NlhAStq0pLUQETBihpQM9AIJGF4IYj1zODhjNk7Ch7vdPdtD6qoShRUVaIUtCiEomY74jGw0ptgl1DuFEerLo1-LBQEDqrW1R1zUrZUM6MAE4bqEuJQlOKVQmCkFnS-jRE6-s1NhpdlxIfiY5vnF2qhb9WjMuyKMsk8G4QCP6qx9iptY0a2xYc-j69mxZCUC75Fn3zD_pwdgO1gJSAdcanuHorqo5TT1RSlCVN1PQBKq0G11anDjI22UcO70cOienwd7eAPkY1__H9_9nzyzH7do9dIrTdMvr2tpHiGOQ7UAcfY0BzX2RK1HYA7qqhtgOghgFIbq_2P-je6a7j2V9JKQFM</recordid><startdate>20121031</startdate><enddate>20121031</enddate><creator>Kiwelu, Ireen E</creator><creator>Novitsky, Vladimir</creator><creator>Margolin, Lauren</creator><creator>Baca, Jeannie</creator><creator>Manongi, Rachel</creator><creator>Sam, Noel</creator><creator>Shao, John</creator><creator>McLane, Mary F</creator><creator>Kapiga, Saidi H</creator><creator>Essex, M</creator><general>Public Library of Science</general><general>Public Library of Science (PLoS)</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>IOV</scope><scope>ISR</scope><scope>3V.</scope><scope>7QG</scope><scope>7QL</scope><scope>7QO</scope><scope>7RV</scope><scope>7SN</scope><scope>7SS</scope><scope>7T5</scope><scope>7TG</scope><scope>7TM</scope><scope>7U9</scope><scope>7X2</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8AO</scope><scope>8C1</scope><scope>8FD</scope><scope>8FE</scope><scope>8FG</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABJCF</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>ARAPS</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BGLVJ</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>D1I</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>KB.</scope><scope>KB0</scope><scope>KL.</scope><scope>L6V</scope><scope>LK8</scope><scope>M0K</scope><scope>M0S</scope><scope>M1P</scope><scope>M7N</scope><scope>M7P</scope><scope>M7S</scope><scope>NAPCQ</scope><scope>P5Z</scope><scope>P62</scope><scope>P64</scope><scope>PATMY</scope><scope>PDBOC</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PTHSS</scope><scope>PYCSY</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope><scope>DOA</scope></search><sort><creationdate>20121031</creationdate><title>HIV-1 subtypes and recombinants in Northern Tanzania: distribution of viral quasispecies</title><author>Kiwelu, Ireen E ; Novitsky, Vladimir ; Margolin, Lauren ; Baca, Jeannie ; Manongi, Rachel ; Sam, Noel ; Shao, John ; McLane, Mary F ; Kapiga, Saidi H ; Essex, M</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c692t-e127afba14cb0468fbe9f68acc99c869a36fa10dac7a6e08264f4e4c7fef43e33</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2012</creationdate><topic>Acquired immune deficiency syndrome</topic><topic>Adolescent</topic><topic>Adult</topic><topic>AIDS</topic><topic>AIDS vaccines</topic><topic>Analysis</topic><topic>Biology</topic><topic>Deoxyribonucleic acid</topic><topic>Disease transmission</topic><topic>DNA</topic><topic>DNA, Viral - 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The HIV-1 viral sequences spanning the V1-C5 region of HIV-1 env gp120 were analyzed from 50 subjects by single genome amplification and sequencing (SGA/S) technique. A total of 1740 sequences were amplified and sequenced from the HIV-1 proviral DNA template. The median env sequences analyzed per subject per two time points was 38 (IQR 28-50) over one year of HIV infection. In a subset of 14 subjects, a total of 239 sequences were obtained from HIV-1 RNA template at the baseline visit. The most prevalent HIV-1 subtypes were A1 (56%) and C (30%), while HIV-1 subtype D and inter-subtype recombinant viruses were found in 6% and 8% of subjects respectively. Transmission of multiple HIV-1 variants was evident in 27% of the subjects infected with pure HIV-1 subtypes A1, C, or D. The HIV-1 inter-subtype recombinants were found in 8% including HIV-1 C/A, D/A, and complex mosaic recombinants. Multiple viral variants were found in two subjects infected with inter-subtype recombinants. One subject harbored quasispecies of both pure HIV-1 A1 and C/A recombinant. The other subject was infected with two complex mosaic inter-subtype recombinant variants belonging to subtype D. HIV-1 multiple infections and ongoing recombination contribute significantly to the genetic diversity of circulating HIV-1 in Tanzania and have important implications for vaccine design and the development of therapeutic strategies.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>23118882</pmid><doi>10.1371/journal.pone.0047605</doi><tpages>e47605</tpages><oa>free_for_read</oa></addata></record> |
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| subjects | Acquired immune deficiency syndrome Adolescent Adult AIDS AIDS vaccines Analysis Biology Deoxyribonucleic acid Disease transmission DNA DNA, Viral - classification DNA, Viral - genetics Epidemiology Female Gene Products, rev - genetics Gene sequencing Genetic diversity Genomes Genomics Glycoprotein gp120 Health aspects HIV HIV infections HIV Infections - genetics HIV Infections - virology HIV Seropositivity - genetics HIV-1 - classification HIV-1 - genetics HIV-1 - pathogenicity Human immunodeficiency virus Humans Infection Infections Medicine Middle Aged Nucleotide sequence Phylogeny Recombinants Recombination Recombination, Genetic Ribonucleic acid RNA Sequence Analysis, DNA Sex Workers Tanzania Viruses Workers |
| title | HIV-1 subtypes and recombinants in Northern Tanzania: distribution of viral quasispecies |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-02-12T22%3A20%3A05IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-gale_plos_&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=HIV-1%20subtypes%20and%20recombinants%20in%20Northern%20Tanzania:%20distribution%20of%20viral%20quasispecies&rft.jtitle=PloS%20one&rft.au=Kiwelu,%20Ireen%20E&rft.date=2012-10-31&rft.volume=7&rft.issue=10&rft.spage=e47605&rft.epage=e47605&rft.pages=e47605-e47605&rft.issn=1932-6203&rft.eissn=1932-6203&rft_id=info:doi/10.1371/journal.pone.0047605&rft_dat=%3Cgale_plos_%3EA476986551%3C/gale_plos_%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=1326561296&rft_id=info:pmid/23118882&rft_galeid=A476986551&rft_doaj_id=oai_doaj_org_article_bb358d143f6a41dab58e6c11e95a6007&rfr_iscdi=true |