Evidence map›Paper›PMID 30430843›Full record

ArticleAIDS research and human retroviruses2019

Moderate-to-High Levels of Pretreatment HIV Drug Resistance in KwaZulu-Natal Province, South Africa.

Benjamin Chimukangara, Ayesha B M Kharsany, Richard J Lessells, Kogieleum Naidoo, Soo-Yon Rhee, Justen Manasa, Tiago Gräf, Lara Lewis, Cherie Cawood, David Khanyile and 7 more

Abstract read
In one paragraph

Article in AIDS research and human retroviruses, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.

0numbers the graph read from it
0cells of the map it votes in
19citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

19 citing papers in PubMed.

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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

17 authors.

Benjamin Chimukangara1 KwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), School of Laboratory Medicine and Medical Sciences, University of KwaZulu-Natal, Durban, South Africa.
Ayesha B M Kharsany2 Centre for the AIDS Programme of Research in South Africa (CAPRISA), Doris Duke Medical Research Institute, Nelson R Mandela School of Medicine, University of KwaZulu-Natal, Durban, South Africa.
Richard J Lessells1 KwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), School of Laboratory Medicine and Medical Sciences, University of KwaZulu-Natal, Durban, South Africa.
Kogieleum Naidoo2 Centre for the AIDS Programme of Research in South Africa (CAPRISA), Doris Duke Medical Research Institute, Nelson R Mandela School of Medicine, University of KwaZulu-Natal, Durban, South Africa.
Soo-Yon Rhee4 Department of Medicine, Stanford University, Stanford, California.
Justen Manasa5 Department of Medicine, University of Zimbabwe College of Health Sciences, Harare, Zimbabwe.
Tiago Gräf1 KwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), School of Laboratory Medicine and Medical Sciences, University of KwaZulu-Natal, Durban, South Africa.
Lara Lewis2 Centre for the AIDS Programme of Research in South Africa (CAPRISA), Doris Duke Medical Research Institute, Nelson R Mandela School of Medicine, University of KwaZulu-Natal, Durban, South Africa.
Cherie Cawood6 Epicentre AIDS Risk Management (Pty) Limited, Paarl, Cape Town, South Africa.
David Khanyile6 Epicentre AIDS Risk Management (Pty) Limited, Paarl, Cape Town, South Africa.
Karidia Diallo7 Centers for Disease Control and Prevention (CDC), Pretoria, South Africa.
Kassahun A Ayalew7 Centers for Disease Control and Prevention (CDC), Pretoria, South Africa.
Robert W Shafer4 Department of Medicine, Stanford University, Stanford, California.
Gillian Hunt8 Centre for HIV and STIs, National Institute for Communicable Diseases (NICD), Johannesburg, South Africa.
Deenan Pillay10 Africa Health Research Institute, KwaZulu-Natal, South Africa.
Salim Karim Abdool2 Centre for the AIDS Programme of Research in South Africa (CAPRISA), Doris Duke Medical Research Institute, Nelson R Mandela School of Medicine, University of KwaZulu-Natal, Durban, South Africa.
Tulio de Oliveira1 KwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), School of Laboratory Medicine and Medical Sciences, University of KwaZulu-Natal, Durban, South Africa.

Funding

The Viral Set Point in HIV-1 Subtype C InfectionU19AI051794 · NIAID · UNIVERSITY OF KWAZULU-NATAL · PI ABDOOL KARIM, SALIM S · 2002 to 2007
$22.5M
HIV Drug Resistance DatabaseR24AI136618 · NIAID · STANFORD UNIVERSITY · PI ROBERT William SHAFER · 2018 to 2026
$7.3M
Identifying sources of HIV infection in adolescent girls in rural South AfricaR01HD083343 · NICHD · CENTRE/AIDS PROGRAMME/RES/SOUTH AFRICA · PI KHARSANY, AYESHA BM, KOHLER, HANS-PETER · 2015 to 2019
$1.7M
CGH CDC HHS U2G GH000372NIAID NIH HHS R24 AI136618NIAID NIH HHS U19 AI051794NICHD NIH HHS R01 HD083343PEPFARWellcome TrustWellcome Trust 097410/Z/11/ZWellcome Trust 201433/A/16/A
6 · The paper itself

Abstract

There is evidence of increasing levels of pretreatment HIV drug resistance (PDR) in Southern Africa. We used data from two large population-based HIV surveillance studies to estimate prevalence of PDR in KwaZulu-Natal, the province with the highest HIV prevalence in South Africa. Sanger sequencing was performed on samples obtained from a longitudinal HIV surveillance program (study A, 2013-2014) and the HIV Incidence Provincial Surveillance System (study B, 2014-2015). Sequences were included for adult HIV positive participants (age ≥15 years for study A, age 15-49 years for study B) with no documented prior exposure to antiretroviral therapy (ART). Overall and drug class-specific PDR was estimated using the World Health Organization 2009 surveillance drug resistance mutation (SDRM) list, and phylogenetic analysis was performed to establish evidence of drug resistance transmission linkage. A total of 1,845 sequences were analyzed (611 study A; 1,234 study B). An overall PDR prevalence of 9.2% [95% confidence interval (CI) 7.0-11.7] was observed for study A and 11.0% (95% CI 8.9-13.2) for study B. In study B, the prevalence of non-nucleoside reverse-transcriptase inhibitor (NNRTI) PDR exceeded 10% for sequences collected in 2014 (10.2%, 95% CI 7.5-12.9). The most prevalent SDRMs were K103NS (7.5%), M184VI (2.4%), and V106AM (1.4%). There was no evidence of large transmission chains of drug-resistant virus. High level NNRTI PDR (>10%) suggests a need to modify the standard first-line ART regimen and to focus attention on improving the quality of HIV prevention, treatment, and care.

Indexed as

Drug Resistance, ViralMutationAdolescentAdultEpidemiological MonitoringFemaleGenotypeHIV-1HIV InfectionsHIV ProteaseHIV Reverse TranscriptaseHumansLongitudinal StudiesMaleMiddle AgedPrevalenceHIV ProteaseHIV Reverse TranscriptaseRNA, Viralantiretroviral therapyHIVmolecular epidemiologypretreatment drug resistanceSouth Africasurveillance

Identifiers

PMID30430843
PMCPMC6360398

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.