HIV-1 Subtypes B and C Unique Recombinant Forms (URFs) and transmitted drug resistance identified in the Western Cape Province, South Africa

Simple item page
dc.contributor.authorJacobs, Graeme Brendon
dc.contributor.authorWilkinson, Eduan
dc.contributor.authorIsaacs, Shahieda
dc.contributor.authorSpies, Georgina
dc.contributor.authorDe Oliveira, Tulio
dc.contributor.authorSeedat, Soraya
dc.contributor.authorEngelbrecht, Susan
dc.date.accessioned2014-07-23T06:41:52Z
dc.date.available2014-07-23T06:41:52Z
dc.date.issued2014-03
dc.descriptionPublication of this article was funded by the Stellenbosch University Open Access Fund.en_ZA
dc.descriptionThe original publication is available at http://www.plosone.orgen_ZA
dc.descriptionPlease cite as follows:en_ZA
dc.descriptionJacobs, G. B. et al. 2014. HIV-1 Subtypes B and C Unique Recombinant Forms (URFs) and Transmitted Drug Resistance Identified in the Western Cape Province, South Africa. PLoS ONE, 9(3), e90845, doi:10.1371/journal.pone.0090845.en_ZA
dc.description.abstractSouth Africa has the largest worldwide HIV/AIDS population with 5.6 million people infected and at least 2 million people on antiretroviral therapy. The majority of these infections are caused by HIV-1 subtype C. Using genotyping methods we characterized HIV-1 subtypes of the gag p24 and pol PR and RT fragments, from a cohort of female participants in the Western Cape Province, South Africa. These participants were recruited as part of a study to assess the combined brain and behavioural effects of HIV and early childhood trauma. The partial HIV-1 gag and pol fragments of 84 participants were amplified by PCR and sequenced. Different online tools and manual phylogenetic analysis were used for HIV-1 subtyping. Online tools included: REGA HIV Subtyping tool version 3; Recombinant Identification Program (RIP); Context-based Modeling for Expeditious Typing (COMET); jumping profile Hidden Markov Models (jpHMM) webserver; and subtype classification using evolutionary algorithms (SCUEAL). HIV-1 subtype C predominates within the cohort with a prevalence of 93.8%. We also show, for the first time, the presence of circulating BC strains in at least 4.6% of our study cohort. In addition, we detected transmitted resistance associated mutations in 4.6% of analysed sequences. With tourism and migration rates to South Africa currently very high, we are detecting more and more HIV-1 URFs within our study populations. It is stil unclear what role these unique strains will play in terms of long term antiretroviral treatment and what challenges they will pose to vaccine development. Nevertheless, it remains vitally important to monitor the HIV-1 diversity in South Africa and worldwide as the face of the epidemic is continually changing.en_ZA
dc.description.sponsorshipStellenbosch Universityen_ZA
dc.description.versionPublishers' Versionen_ZA
dc.identifier.citationJacobs, G. B. et al. 2014. HIV-1 Subtypes B and C Unique Recombinant Forms (URFs) and Transmitted Drug Resistance Identified in the Western Cape Province, South Africa. PLoS ONE, 9(3), e90845, doi:10.1371/journal.pone.0090845.en_ZA
dc.identifier.issn1932-6203 (Online)
dc.identifier.otherdoi:10.1371/journal.pone.0090845
dc.identifier.urihttp://hdl.handle.net/10019.1/95507
dc.language.isoen_ZAen_ZA
dc.publisherPublic Library of Scienceen_ZA
dc.rights.holderAuthors retain copyrighten_ZA
dc.subjectUnique Recombinant Formsen_ZA
dc.subjectTransmitted Drug Resistanceen_ZA
dc.subjectantiretroviral treatmenten_ZA
dc.titleHIV-1 Subtypes B and C Unique Recombinant Forms (URFs) and transmitted drug resistance identified in the Western Cape Province, South Africaen_ZA
dc.typeArticleen_ZA
Files
Original bundle
Now showing 1 - 1 of 1
Thumbnail Image
Name:
jacobs_hiv_2014.pdf
Size:
1.68 MB
Format:
Adobe Portable Document Format
Description:
Publishers' Version
Download
License bundle
Now showing 1 - 1 of 1
Thumbnail Image
Name:
license.txt
Size:
1.95 KB
Format:
Item-specific license agreed upon to submission
Description:
Download
Collections
Research Articles (Medical Virology)