Evolution of HIV-1 quasispecies and coreceptor use in cell reservoirs of patients on suppressive antiretroviral therapy
To track changes in the V3 env region of HIV-1 quasispecies and determine virus coreceptor use in cell reservoirs of patients on long-term suppressive antiretroviral therapy (ART). Ten patients whose plasma viraemia had been suppressed for a median of 5.5 years were followed for 5 years. The V3 env...
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| Veröffentlicht in: | Journal of antimicrobial chemotherapy 2014-09, Vol.69 (9), p.2527-2530 |
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| container_title | Journal of antimicrobial chemotherapy |
| container_volume | 69 |
| creator | Raymond, Stéphanie Saliou, Adrien Delobel, Pierre Cazabat, Michelle Pasquier, Christophe Jeanne, Nicolas Sauné, Karine Massip, Patrice Marchou, Bruno Izopet, Jacques |
| description | To track changes in the V3 env region of HIV-1 quasispecies and determine virus coreceptor use in cell reservoirs of patients on long-term suppressive antiretroviral therapy (ART).
Ten patients whose plasma viraemia had been suppressed for a median of 5.5 years were followed for 5 years. The V3 env regions of viruses in peripheral blood mononuclear cells were analysed by ultra-deep sequencing (UDS). HIV-1 tropism was predicted using the geno2pheno 5.75 algorithm and a phenotypic assay.
The UDS and phenotypic assay data were concordant for predicting HIV-1 tropism. CXCR4-using viruses detected by UDS accounted for 14.7%-76.5% of the virus populations in samples from five patients at enrolment. Five patients harboured pure R5 virus populations and no X4 viruses emerged during the 5 years. The selection pressures estimated by the dN/dS ratio were acting on the V3 region to produce diversification of the quasispecies in CXCR4-infected patients and purification of the quasispecies in R5-infected patients on effective ART.
UDS showed that the virus quasispecies in cell reservoirs of patients on long-term suppressive ART continued to evolve. CXCR4-using variants became more diversified. Analysis of the selection pressures on the virus quasispecies could provide a clearer picture of virus persistence in patients on effective ART. |
| doi_str_mv | 10.1093/jac/dku147 |
| format | Article |
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Ten patients whose plasma viraemia had been suppressed for a median of 5.5 years were followed for 5 years. The V3 env regions of viruses in peripheral blood mononuclear cells were analysed by ultra-deep sequencing (UDS). HIV-1 tropism was predicted using the geno2pheno 5.75 algorithm and a phenotypic assay.
The UDS and phenotypic assay data were concordant for predicting HIV-1 tropism. CXCR4-using viruses detected by UDS accounted for 14.7%-76.5% of the virus populations in samples from five patients at enrolment. Five patients harboured pure R5 virus populations and no X4 viruses emerged during the 5 years. The selection pressures estimated by the dN/dS ratio were acting on the V3 region to produce diversification of the quasispecies in CXCR4-infected patients and purification of the quasispecies in R5-infected patients on effective ART.
UDS showed that the virus quasispecies in cell reservoirs of patients on long-term suppressive ART continued to evolve. CXCR4-using variants became more diversified. Analysis of the selection pressures on the virus quasispecies could provide a clearer picture of virus persistence in patients on effective ART.</description><identifier>ISSN: 0305-7453</identifier><identifier>EISSN: 1460-2091</identifier><identifier>DOI: 10.1093/jac/dku147</identifier><identifier>PMID: 24840625</identifier><language>eng</language><publisher>England: Oxford Publishing Limited (England)</publisher><subject>Adult ; Anti-Retroviral Agents - therapeutic use ; Antiretroviral drugs ; Cells ; DNA, Viral - genetics ; env Gene Products, Human Immunodeficiency Virus - genetics ; Evolution ; Female ; Genetic Variation ; Genotype ; Genotype & phenotype ; Genotyping Techniques ; High-Throughput Nucleotide Sequencing ; HIV ; HIV Infections - drug therapy ; HIV Infections - virology ; HIV-1 - classification ; HIV-1 - genetics ; HIV-1 - isolation & purification ; HIV-1 - physiology ; Human immunodeficiency virus ; Humans ; Leukocytes, Mononuclear - virology ; Male ; Middle Aged ; Patients ; Phenotype ; Receptors, HIV - analysis ; Viral Tropism ; Virus Cultivation</subject><ispartof>Journal of antimicrobial chemotherapy, 2014-09, Vol.69 (9), p.2527-2530</ispartof><rights>The Author 2014. Published by Oxford University Press on behalf of the British Society for Antimicrobial Chemotherapy. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.</rights><rights>Copyright Oxford Publishing Limited(England) Sep 2014</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c351t-1c82bf19119a86755ea2fdb689201b9f8445d1a17b5f29803ffec44d6caf73873</citedby><cites>FETCH-LOGICAL-c351t-1c82bf19119a86755ea2fdb689201b9f8445d1a17b5f29803ffec44d6caf73873</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,776,780,27901,27902</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/24840625$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Raymond, Stéphanie</creatorcontrib><creatorcontrib>Saliou, Adrien</creatorcontrib><creatorcontrib>Delobel, Pierre</creatorcontrib><creatorcontrib>Cazabat, Michelle</creatorcontrib><creatorcontrib>Pasquier, Christophe</creatorcontrib><creatorcontrib>Jeanne, Nicolas</creatorcontrib><creatorcontrib>Sauné, Karine</creatorcontrib><creatorcontrib>Massip, Patrice</creatorcontrib><creatorcontrib>Marchou, Bruno</creatorcontrib><creatorcontrib>Izopet, Jacques</creatorcontrib><title>Evolution of HIV-1 quasispecies and coreceptor use in cell reservoirs of patients on suppressive antiretroviral therapy</title><title>Journal of antimicrobial chemotherapy</title><addtitle>J Antimicrob Chemother</addtitle><description>To track changes in the V3 env region of HIV-1 quasispecies and determine virus coreceptor use in cell reservoirs of patients on long-term suppressive antiretroviral therapy (ART).
Ten patients whose plasma viraemia had been suppressed for a median of 5.5 years were followed for 5 years. The V3 env regions of viruses in peripheral blood mononuclear cells were analysed by ultra-deep sequencing (UDS). HIV-1 tropism was predicted using the geno2pheno 5.75 algorithm and a phenotypic assay.
The UDS and phenotypic assay data were concordant for predicting HIV-1 tropism. CXCR4-using viruses detected by UDS accounted for 14.7%-76.5% of the virus populations in samples from five patients at enrolment. Five patients harboured pure R5 virus populations and no X4 viruses emerged during the 5 years. The selection pressures estimated by the dN/dS ratio were acting on the V3 region to produce diversification of the quasispecies in CXCR4-infected patients and purification of the quasispecies in R5-infected patients on effective ART.
UDS showed that the virus quasispecies in cell reservoirs of patients on long-term suppressive ART continued to evolve. CXCR4-using variants became more diversified. Analysis of the selection pressures on the virus quasispecies could provide a clearer picture of virus persistence in patients on effective ART.</description><subject>Adult</subject><subject>Anti-Retroviral Agents - therapeutic use</subject><subject>Antiretroviral drugs</subject><subject>Cells</subject><subject>DNA, Viral - genetics</subject><subject>env Gene Products, Human Immunodeficiency Virus - genetics</subject><subject>Evolution</subject><subject>Female</subject><subject>Genetic Variation</subject><subject>Genotype</subject><subject>Genotype & phenotype</subject><subject>Genotyping Techniques</subject><subject>High-Throughput Nucleotide Sequencing</subject><subject>HIV</subject><subject>HIV Infections - drug therapy</subject><subject>HIV Infections - virology</subject><subject>HIV-1 - classification</subject><subject>HIV-1 - genetics</subject><subject>HIV-1 - isolation & purification</subject><subject>HIV-1 - physiology</subject><subject>Human immunodeficiency virus</subject><subject>Humans</subject><subject>Leukocytes, Mononuclear - virology</subject><subject>Male</subject><subject>Middle Aged</subject><subject>Patients</subject><subject>Phenotype</subject><subject>Receptors, HIV - analysis</subject><subject>Viral Tropism</subject><subject>Virus Cultivation</subject><issn>0305-7453</issn><issn>1460-2091</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2014</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNpdkUtLBDEQhIMouj4u_gAJeBFh3PQkmcdRRF1B8KJeh0ymg1lnJ2MeK_57Z1n14Kkb-uuiqCLkFNgVsJrPl0rPu_cEotwhMxAFy3JWwy6ZMc5kVgrJD8hhCEvGWCGLap8c5KISrMjljHzerl2fonUDdYYuHl4zoB9JBRtG1BYDVUNHtfOocYzO0xSQ2oFq7HvqMaBfO-vD5ndU0eIQp32gIY3jdA12jZNAtB6jd2vrVU_jG3o1fh2TPaP6gCc_84i83N0-3yyyx6f7h5vrx0xzCTEDXeWtgRqgVlVRSokqN11bVHXOoK1NJYTsQEHZSpPXFePGoBaiK7QyJa9KfkQutrqjdx8JQ2xWNmzcqwFdCg1IyXkOUMoJPf-HLl3yw-RuQwkpipKJibrcUtq7EDyaZvR2pfxXA6zZ1NFMdTTbOib47EcytSvs_tDf_Pk3DyiH4w</recordid><startdate>20140901</startdate><enddate>20140901</enddate><creator>Raymond, Stéphanie</creator><creator>Saliou, Adrien</creator><creator>Delobel, Pierre</creator><creator>Cazabat, Michelle</creator><creator>Pasquier, Christophe</creator><creator>Jeanne, Nicolas</creator><creator>Sauné, Karine</creator><creator>Massip, Patrice</creator><creator>Marchou, Bruno</creator><creator>Izopet, Jacques</creator><general>Oxford Publishing Limited (England)</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>7QL</scope><scope>7QO</scope><scope>7T7</scope><scope>7U7</scope><scope>7U9</scope><scope>8FD</scope><scope>C1K</scope><scope>FR3</scope><scope>H94</scope><scope>K9.</scope><scope>M7N</scope><scope>NAPCQ</scope><scope>P64</scope><scope>7X8</scope></search><sort><creationdate>20140901</creationdate><title>Evolution of HIV-1 quasispecies and coreceptor use in cell reservoirs of patients on suppressive antiretroviral therapy</title><author>Raymond, Stéphanie ; 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Ten patients whose plasma viraemia had been suppressed for a median of 5.5 years were followed for 5 years. The V3 env regions of viruses in peripheral blood mononuclear cells were analysed by ultra-deep sequencing (UDS). HIV-1 tropism was predicted using the geno2pheno 5.75 algorithm and a phenotypic assay.
The UDS and phenotypic assay data were concordant for predicting HIV-1 tropism. CXCR4-using viruses detected by UDS accounted for 14.7%-76.5% of the virus populations in samples from five patients at enrolment. Five patients harboured pure R5 virus populations and no X4 viruses emerged during the 5 years. The selection pressures estimated by the dN/dS ratio were acting on the V3 region to produce diversification of the quasispecies in CXCR4-infected patients and purification of the quasispecies in R5-infected patients on effective ART.
UDS showed that the virus quasispecies in cell reservoirs of patients on long-term suppressive ART continued to evolve. CXCR4-using variants became more diversified. Analysis of the selection pressures on the virus quasispecies could provide a clearer picture of virus persistence in patients on effective ART.</abstract><cop>England</cop><pub>Oxford Publishing Limited (England)</pub><pmid>24840625</pmid><doi>10.1093/jac/dku147</doi><tpages>4</tpages><oa>free_for_read</oa></addata></record> |
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| ispartof | Journal of antimicrobial chemotherapy, 2014-09, Vol.69 (9), p.2527-2530 |
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| subjects | Adult Anti-Retroviral Agents - therapeutic use Antiretroviral drugs Cells DNA, Viral - genetics env Gene Products, Human Immunodeficiency Virus - genetics Evolution Female Genetic Variation Genotype Genotype & phenotype Genotyping Techniques High-Throughput Nucleotide Sequencing HIV HIV Infections - drug therapy HIV Infections - virology HIV-1 - classification HIV-1 - genetics HIV-1 - isolation & purification HIV-1 - physiology Human immunodeficiency virus Humans Leukocytes, Mononuclear - virology Male Middle Aged Patients Phenotype Receptors, HIV - analysis Viral Tropism Virus Cultivation |
| title | Evolution of HIV-1 quasispecies and coreceptor use in cell reservoirs of patients on suppressive antiretroviral therapy |
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