Third-line antiretroviral therapy in Africa: effectiveness in a Southern African retrospective cohort study
© Meintjes et al. 2015
Received: 4 June 2015
Accepted: 16 November 2015
Published: 1 December 2015
An increasing number of patients in Africa are experiencing virologic failure on second-line antiretroviral therapy (ART) and those who develop resistance to protease inhibitors (PI) will require third-line ART, but no data on the outcomes of third-line are available from the region. We assessed the virologic outcomes and survival of patients started on salvage ART in a Southern African private sector disease management programme.
Retrospective observational cohort study with linkage to the national death register. Adults (≥18 years) who started salvage ART between July 2007 and December 2011 were included. Salvage ART was defined by inclusion of darunavir or tipranavir in an ART regimen after having failed another PI. For Kaplan–Meier (KM) analysis, patients were followed up until event, or censored at death (only for virologic outcomes), leaving the programme, or April 2014.
152 patients were included. Subtype was known for 113 patients: 111 (98 %) were infected with subtype C. All 152 had a genotype resistance test demonstrating major PI resistance mutations. Salvage drugs included were: darunavir/ritonavir (n = 149), tipranavir/ritonavir (n = 3), raltegravir (n = 58), and etravirine (n = 8). Median follow-up was 2.5 years (IQR = 1.5–3.3). 82.9 % achieved a viral load ≤400 copies/ml and 71.1 % ≤50 copies/ml. By the end of the study 17 (11.2 %) of the patients had died. The KM estimate of cumulative survival was 87.2 % at 2000 days.
Virologic suppression was comparable to that demonstrated in clinical trials and observational studies of salvage ART drugs conducted in other regions. Few deaths occurred during short term follow-up. Third-line regimens for patients with multidrug resistant subtype C HIV in Africa are virologically and clinically effective.
The emergence of resistance to antiretroviral drugs is an inevitable consequence of expanding access to antiretroviral therapy (ART) and longer durations of exposure. Currently less than 15 % of patients in ART programmes in Africa are on second-line ritonavir-boosted protease inhibitor (PI) regimens [1, 2], but this proportion will increase significantly over time. Recent studies have shown that most patients failing second-line ART in resource-limited settings do not have major PI resistance-associated mutations, implying that failure is due to poor adherence rather than the development of resistance [3, 4]. However, with more patients failing on second-line ART regimens for longer durations this will likely change . The threat of “untreatable” multi-drug resistant HIV after second-line failure in Africa was recently highlighted .
The 2013 World Health Organization (WHO) ART guidelines recommended that national programmes should develop policies and conduct pilot studies for third-line ART for patients with multi-class resistance after second-line failure . Newer ART salvage regimens, which include drugs such as darunavir, raltegravir and etravirine, have been associated with reasonable virologic suppression rates in clinical trials [8–10], but clinical outcome data are limited. Variation in drug resistance patterns and susceptibility have been reported in relation to HIV subtype differences [11–13], but no data exists on effectiveness of salvage regimens in Africa where the majority of patients are infected with subtype C.
We evaluated virologic and clinical outcomes on salvage ART in the Southern African private health care sector amongst patients who had previously experienced virologic failure on a PI-containing regimen and in whom a genotype antiretroviral resistance test (GART) prior to starting salvage ART demonstrated at least one major PI mutation. Our broader aim was to inform advocacy and planning for third-line ART in programmes in sub-Saharan Africa.
Demographic and clinical characteristics and genotype antiretroviral resistance test profile of the 152 patients when starting salvage ART
Number (%) or median (IQR)
75 (49 %)
CD4 count when initially started ART (cells/mm3) (n = 109)
HIV VL when initially started ART (copies/ml) (n = 100)
CD4 count when started salvage ART (cells/mm3) (n = 152)
HIV VL when started salvage ART (copies/ml) (n = 152)
Number of ART regimens prior to salvage ART
Known to have originally initiated ART with dual NRTI regimen
53 (34.9 %)
Duration of ART exposure prior to salvage ART (years) (n = 122)a
Duration of PI exposure prior to salvage ART (years) (n = 148)b
Genotype antiretroviral resistance test (GART)c
Thymidine analogue mutationsd, e
45 (30 %)
35 (23 %)
72 (47 %)
Major protease inhibitor mutationsf
38 (25 %)
114 (75 %)
Stanford resistance scores
Lopinavir score > 29 (intermediate/high level resistance)
136 (89.5 %)
Lopinavir score > 59 (high level resistance)
88 (57.9 %)
Darunavir score > 29 (intermediate/high level resistance)
14 (9.2 %)
Darunavir score > 59 (high level resistance)
0 (0.0 %)
Etravirine score > 29 (intermediate/high level resistance)
28 (18.4 %)
Etravirine score > 59 (high level resistance)
7 (4.6 %)
The following salvage drugs were prescribed: darunavir/ritonavir (n = 149), tipranavir/ritonavir (n = 3), raltegravir (n = 58) and etravirine (n = 8). NRTI drugs were included in 149 salvage regimens: tenofovir (TDF)/emtricitabine (FTC) in 105, TDF/FTC/zidovudine (AZT) in 22, AZT/lamivudine (3TC) in 9, and other NRTI combinations in 13. In 2 patients although salvage therapy was authorised it could not be verified from documentation available that they had been dispensed salvage therapy. These 2 patients were, however, included in the analyses as we could not determine that they definitely had not been dispensed salvage therapy.
Multivariate logistic regression analysis of factors associated with HIV viral load suppression ≤50 copies/ml on salvage ARTa
Unadjusted odds ratio (95 % CI)
Adjusted odds ratio (95 % CI)
Age (per year increase)
HIV viral load at start of salvage ART (per log10 unit increase)
Darunavir resistance score (per 10 point increase on Stanford database)
Raltegravir in salvage regimen
A high proportion of these Southern African private sector patients on ART salvage therapy for a median of 2.5 years achieved virologic suppression. Factors independently associated with virologic suppression were female sex, lower darunavir resistance score, lower VL at start of salvage ART, and use of raltegravir (although the latter just failed to achieve statistical significance). The KM estimate of survival at 2000 days was 87 %. These results are striking given that this cohort of patients had previously failed multiple lines of therapy.
The proportion of patients achieving virologic suppression in our study was near to that achieved in the ANRS 139 TRIO trial conducted in France in which patients with multiclass resistant HIV were treated with darunavir, raltegravir, etravirine and either NRTIs or enfuvirtide. In that single-arm trial, 88 % of participants achieved virologic suppression (VL <50 copies/ml) at 96 weeks . While a clinical trial may represent a select patient group, several observational studies of patients with multiclass resistant HIV treated with darunavir-based regimens have also reported virologic suppression (VL <50 copies/ml by week 48) being achieved in over 50 % of patients. This includes studies conducted in other developing countries: Brazil (83 % suppression  and 73 % suppression ) and Mexico (69 % suppression ). The inclusion of raltegravir in such darunavir-based regimens has been associated with improved virologic outcomes [16, 18].
The need for evidence regarding the implementation of third-line ART in resource-limited settings has been recognized by the WHO . Our data demonstrated the effectiveness of third-line ART in a programme where the predominant subtype was C, in contrast to clinical trials of salvage drugs done in settings where non-C subtypes predominate. Our findings are in line with those of prior studies, which suggested that raltegravir and darunavir regimens had equivalent efficacy in patients with B and non-B subtype infections and that resistance to these drugs was not more prevalent with non-B subtypes [19–23]. The fact that the majority of patients achieved virologic suppression on regimens including darunavir/ritonavir, raltegravir and NRTIs suggested this could be a standardized third-line regimen, with individual adjustments based on GART.
Important limitations of our study were the retrospective observational study design, which could have resulted in selection and information bias, and potential limited generalizability to the public sector. While there are important socioeconomic differences between private and public sector patients in the region, which could affect outcomes, we felt that our results are applicable to public sector programmes as similar treatment guidelines were followed and 5 year outcomes were previously reported to be similar between AfA and a large South African public sector programme . Of note is that the South African public sector ART programme has recently approved third-line therapy using similar selection criteria to AfA’s. A key strength of our study is that we reported on clinical outcomes.
AfA has been providing ART, GART and new salvage drug options for longer than public sector programmes, thus providing us with the first opportunity to assess outcomes on salvage drugs in an African setting. These data provide the first evidence of the potential effectiveness of third-line regimens based largely upon a backbone of darunavir/ritonavir and raltegravir together with NRTI drugs, in a predominantly subtype C African epidemic. Availability of GART and darunavir/ritonavir and raltegravir (or dolutegravir) needs to be planned for the future as more patients fail second-line PI regimens for longer durations in public sector programmes on the continent. Our results provide evidence that third-line regimens for patients failing second-line ART with multidrug resistant HIV in Africa are likely to be effective.
We conducted a retrospective observational cohort study of adults (≥18 years) enrolled with the Aid for AIDS (AfA) disease management programme, who started salvage ART between 1 July 2007 and 31 December 2011. Salvage ART was defined by inclusion of darunavir or tipranavir in an ART regimen after having experienced virologic failure on another PI. No patients had prior exposure to an integrase inhibitor. All patients had a GART performed prior to starting a salvage ART regimen that was used to inform choice of drugs in this regimen. These GARTs were performed at quality-assured private sector laboratories and results were sent to the patient’s doctor and to AfA. Certain laboratories reported the HIV subtype on the laboratory results sheet routinely, but for some patients (n = 39) this information was not supplied. Salvage drugs that became available during the study period were initially darunavir and later raltegravir and etravirine—these were prescribed to patients commencing salvage regimens after they became available if indicated, but were not added as single drugs for a patient already on salvage ART. Access to tipranavir was very limited.
AfA is a private sector HIV disease management programme that provides HIV care for patients on medical insurance and corporate treatment programmes [25, 26]. HIV care includes clinical interventions coupled with clinical and patient support and on-going adherence management. Although it operates in the private sector, the AfA guidelines are similar to the WHO guidelines with a standardized approach to first-line (NNRTI-based) and second-line (protease inhibitor-based) ART regimens. Demographic and clinical data are captured in the AfA database. Salvage ART was authorized by a clinical committee after reviewing treatment history and GART. All patients starting salvage ART were contacted before being switched to assess commitment and educate them about the regimen, and thereafter monthly for adherence support until viral load was suppressed.
Important differences between AfA and the public sector ART programme in South Africa are: (1) the AfA programme started in 1998 whereas the public sector programme started in 2004; (2) in AfA some patients received initial ART with dual NRTIs for affordability reasons in the late 1990s; (3) certain drugs were available in the private sector before the public sector; (4) GART has been available for patients failing ART in AfA since 2001; and (5) darunavir was readily available to patients on the AfA programme from 2007, and raltegravir from 2009. These two drugs became available in the public sector programme in 2013.
Commencement of salvage ART was checked against the pharmacy claims history on the AfA database. Vital status was available for all patients at the date of data censor: (1) for South Africans through linkage to the South African national death register and (2) for patients outside South Africa from the clinical records. The Stanford HIV Drug Resistance Database (version 6.2.0) was used to calculate mutation scores.
For Kaplan–Meier (KM) analyses of time to virologic suppression or death, patients were followed up until the date of the event or censored at death (only for virologic outcomes), leaving the programme, or date of administrative censor (30 April 2014). Multivariate logistic regression analysis was performed using STATA 13, StataCorp, TX, US, with all variables hypothesised to be associated with outcome included in the model. Virologic rebound was defined as ≥1 viral load (VL) >1000 copies/ml after initial suppression.
GM and GM designed the study; LD, MC, MH and RL extracted and collated data for analysis; GM, LD, MC and MH conducted data analysis; and interpretation of data was conducted by GM, LD, MH, LR and GM. GM drafted the manuscript which was then revised and finalized with contributions from all authors. All authors read and approved the final manuscript.
Graeme Meintjes was supported by a Wellcome Trust fellowship  and in part by the National Research Foundation (NRF) of South Africa [UID: 85858]. The grant holder acknowledges that opinions, findings and conclusions or recommendations expressed in any publication generated by the NRF supported research are that of the author(s), and that the NRF accepts no liability whatsoever in this regard. The funders played no role in design, in the collection, analysis, and interpretation of data; in the writing of the manuscript; nor in the decision to submit the manuscript for publication.
The authors declare that they have no competing interests.
This was obtained from the UCT Human Research Ethics Committee (REF 557/2012).
Preliminary data from this study was previously presented as a poster abstract Dunn L, Coetsee M, Regensberg L, Hislop M, Maartens G, Meintjes G. Virological response to antiretroviral salvage therapy in the Southern African private sector. Southern African HIV Clinicians Society Conference, Cape Town, November 2012.
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