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UNAIDS announces that the goal of 15 million people on life-saving HIV treatment by 2015 has been met nine months ahead of schedule 2015. Available from: http:\/\/www.unaids.org\/en\/resources\/presscentre\/pressreleaseandstatementarchive\/2015\/july\/20150714_PR_MDG6report<\/ext-link>."},{"key":"ref2","doi-asserted-by":"crossref","first-page":"19164","DOI":"10.7448\/IAS.17.1.19164","article-title":"Increasing the use of second-line therapy is a cost-effective approach to prevent the spread of drug-resistant HIV: a mathematical modelling study","volume":"17","author":"BE Nichols","year":"2014","journal-title":"Journal of the International AIDS Society"},{"issue":"Suppl 2","key":"ref3","doi-asserted-by":"crossref","first-page":"S57","DOI":"10.1093\/infdis\/jit111","article-title":"Transmission of drug resistant HIV and its potential impact on mortality and treatment outcomes in resource-limited settings","volume":"207","author":"V Cambiano","year":"2013","journal-title":"The Journal of infectious diseases"},{"issue":"4","key":"ref4","doi-asserted-by":"crossref","first-page":"307","DOI":"10.1016\/S1473-3099(11)70255-9","article-title":"Effect of pretreatment HIV-1 drug resistance on immunological, virological, and drug-resistance outcomes of first-line antiretroviral treatment in sub-Saharan Africa: a multicentre cohort study","volume":"12","author":"RL Hamers","year":"2012","journal-title":"The Lancet infectious diseases"},{"issue":"2","key":"ref5","doi-asserted-by":"crossref","first-page":"185","DOI":"10.1097\/QAD.0b013e32834e9d7d","article-title":"Relationship between minority nonnucleoside reverse transcriptase inhibitor resistance mutations, adherence, and the risk of virologic failure","volume":"26","author":"JZ Li","year":"2012","journal-title":"AIDS"},{"key":"ref6","unstructured":"UNAIDS. 90-90-90: An ambitious treatment target to help end the AIDS epidemic 2015 [cited 2015 07\/10\/2015]."},{"issue":"7","key":"ref7","doi-asserted-by":"crossref","first-page":"1467","DOI":"10.1093\/jac\/dkr157","article-title":"Evolutionary pathways of transmitted drug-resistant HIV-1","volume":"66","author":"M Pingen","year":"2011","journal-title":"The Journal of antimicrobial chemotherapy"},{"issue":"Suppl 2","key":"ref8","doi-asserted-by":"crossref","first-page":"25","DOI":"10.1177\/135965350801302S04","article-title":"Recommendations for surveillance of transmitted HIV drug resistance in countries scaling up antiretroviral treatment","volume":"13","author":"DE Bennett","year":"2008","journal-title":"Antivir Ther"},{"key":"ref9","unstructured":"WHO. The HIV drug resistance report-2012. 2012."},{"issue":"4","key":"ref10","doi-asserted-by":"crossref","first-page":"e1001810","DOI":"10.1371\/journal.pmed.1001810","article-title":"Geographic and temporal trends in the molecular epidemiology and genetic mechanisms of transmitted HIV-1 drug resistance: an individual-patient- and sequence-level meta-analysis","volume":"12","author":"SY Rhee","year":"2015","journal-title":"PLoS medicine"},{"issue":"10","key":"ref11","doi-asserted-by":"crossref","first-page":"750","DOI":"10.1016\/S1473-3099(11)70149-9","article-title":"HIV-1 drug resistance in antiretroviral-naive individuals in sub-Saharan Africa after rollout of antiretroviral therapy: a multicentre observational study","volume":"11","author":"RL Hamers","year":"2011","journal-title":"The Lancet infectious diseases"},{"issue":"7","key":"ref12","doi-asserted-by":"crossref","first-page":"975","DOI":"10.3851\/IMP1416","article-title":"Prevalence of HIV type-1 drug-associated mutations in pre-therapy patients in the Free State, South Africa","volume":"14","author":"KH Huang","year":"2009","journal-title":"Antivir Ther"},{"issue":"Suppl 4","key":"ref13","doi-asserted-by":"crossref","first-page":"S334","DOI":"10.1093\/cid\/cir1017","article-title":"Surveillance of transmitted HIV-1 drug resistance in Gauteng and KwaZulu-Natal Provinces, South Africa, 2005\u20132009","volume":"54","author":"GM Hunt","year":"2012","journal-title":"Clin Infect Dis"},{"issue":"Suppl 2","key":"ref14","doi-asserted-by":"crossref","first-page":"101","DOI":"10.1177\/135965350801302S09","article-title":"Antiretroviral drug resistance surveillance among drug-naive HIV-1-infected individuals in Gauteng Province, South Africa in 2002 and 2004","volume":"13","author":"V Pillay","year":"2008","journal-title":"Antivir Ther"},{"issue":"4","key":"ref15","doi-asserted-by":"crossref","first-page":"e59787","DOI":"10.1371\/journal.pone.0059787","article-title":"Prevalence of HIV-1 drug resistance among women screening for HIV prevention trials in KwaZulu-Natal, South Africa (MTN-009)","volume":"8","author":"UM Parikh","year":"2013","journal-title":"PloS one"},{"issue":"6","key":"ref16","doi-asserted-by":"crossref","first-page":"558","DOI":"10.1089\/aid.2011.0284","article-title":"Primary drug resistance in South Africa: data from 10 years of surveys","volume":"28","author":"J Manasa","year":"2012","journal-title":"AIDS research and human retroviruses"},{"issue":"9","key":"ref17","doi-asserted-by":"crossref","first-page":"1508","DOI":"10.1002\/jmv.22143","article-title":"Resistance to antiretroviral drugs in newly diagnosed, young treatment-naive HIV-positive pregnant women in the province of KwaZulu-Natal, South Africa","volume":"83","author":"R Parboosing","year":"2011","journal-title":"Journal of medical virology"},{"key":"ref18","article-title":"Increasing HIV-1 Drug Resistance Between 2010 and 2012 in Adults Participating in Population-Based HIV Surveillance in Rural KwaZulu-Natal, South Africa","author":"J Manasa","year":"2016","journal-title":"AIDS research and human retroviruses"},{"issue":"4","key":"ref19","doi-asserted-by":"crossref","first-page":"303","DOI":"10.3329\/jhpn.v29i4.8444","article-title":"Prevalence of antiretroviral drug resistance mutations and HIV-I subtypes among newly-diagnosed drug-naive persons visiting a voluntary testing and counselling centre in northeastern South Africa","volume":"29","author":"JM Nwobegahay","year":"2011","journal-title":"Journal of health, population, and nutrition"},{"issue":"7","key":"ref20","doi-asserted-by":"crossref","first-page":"1009","DOI":"10.1089\/aid.2008.0028","article-title":"Phylogenetic diversity and low level antiretroviral resistance mutations in HIV type 1 treatment-naive patients from Cape Town, South Africa","volume":"24","author":"GB Jacobs","year":"2008","journal-title":"AIDS research and human retroviruses"},{"issue":"6","key":"ref21","doi-asserted-by":"crossref","first-page":"e90845","DOI":"10.1371\/journal.pone.0090845","article-title":"HIV-1 subtypes B and C unique recombinant forms (URFs) and transmitted drug resistance identified in the Western Cape Province, South Africa","volume":"9","author":"GB Jacobs","year":"2014","journal-title":"PloS one"},{"issue":"4","key":"ref22","doi-asserted-by":"crossref","first-page":"523","DOI":"10.1177\/135965350901400414","article-title":"HIV type-1 clade C resistance genotypes in treatment-naive patients and after first virological failure in a large community antiretroviral therapy programme","volume":"14","author":"C Orrell","year":"2009","journal-title":"Antivir Ther"},{"key":"ref23","unstructured":"Claassen M, Van Zyl GU. The improvement, validation and quality assurance of in-house HIV-1 antiretroviral resistance tests for practical use in resistance monitoring of patients receiving antiretroviral combination theray at Tygerberg Hospital Family Clinic. 2008. Available from: http:\/\/scholar.sun.ac.za\/handle\/10019.1\/42809<\/ext-link>."},{"key":"ref24","unstructured":"Bronze M, Moodley K, Steegen K, Papathanasopolous MA, Carmona S, W. S, editors. Development and validation of a one-step genotyping protocol encompassing HIV-1 protease and reverse transcriptase for patient antiretroviral drug resistance monitoring. 1st International Conference African Society for Laboratory Medicine 2012; 1st International Conference African Society for Laboratory Medicine, Cape Town, South Africa."},{"key":"ref25","unstructured":"Lukhwareni A, Bronze M, Ledwaba J, Steegen K, Rossouw I, Hunt H, et al., editors. Validation of a robust in-house genotyping assay for the detection of HIV-1 antiretroviral drug resistance. Pathpoint Conference; 2012; Pathpoint Conference, Cape Town, South Africa."},{"issue":"3","key":"ref26","doi-asserted-by":"crossref","first-page":"e4724","DOI":"10.1371\/journal.pone.0004724","article-title":"Drug resistance mutations for surveillance of transmitted HIV-1 drug-resistance: 2009 update","volume":"4","author":"DE Bennett","year":"2009","journal-title":"PloS one"},{"issue":"4","key":"ref27","doi-asserted-by":"crossref","first-page":"355","DOI":"10.1089\/088922204323048104","article-title":"High prevalence of antiretroviral resistance in treated Ugandans infected with non-subtype B human immunodeficiency virus type 1","volume":"20","author":"N Richard","year":"2004","journal-title":"AIDS Res Hum Retroviruses"},{"key":"ref28","unstructured":"The South African Antiretroviral Treatment Guidelines 2010. Available from: http:\/\/www.sahivsoc.org\/upload\/documents\/Clinical_Guidelines_for_the_Management_of_HIV_AIDS_in_Adults_Adolescents_2010.pdf<\/ext-link>."},{"issue":"7","key":"ref29","doi-asserted-by":"crossref","first-page":"1115","DOI":"10.1093\/infdis\/jir468","article-title":"Transmission clustering drives the onward spread of the HIV epidemic among men who have sex with men in Quebec","volume":"204","author":"BG Brenner","year":"2011","journal-title":"The Journal of infectious diseases"},{"key":"ref30","doi-asserted-by":"crossref","first-page":"262","DOI":"10.1186\/1471-2334-10-262","article-title":"Epidemiological study of phylogenetic transmission clusters in a local HIV-1 epidemic reveals distinct differences between subtype B and non-B infections","volume":"10","author":"K Chalmet","year":"2010","journal-title":"BMC infectious diseases"},{"issue":"1","key":"ref31","doi-asserted-by":"crossref","first-page":"147","DOI":"10.1586\/14787210.2.1.147","article-title":"The impact of the M184V substitution on drug resistance and viral fitness","volume":"2","author":"MA Wainberg","year":"2004","journal-title":"Expert review of anti-infective therapy"},{"issue":"3","key":"ref32","doi-asserted-by":"crossref","first-page":"1395","DOI":"10.1128\/JCM.43.3.1395-1400.2005","article-title":"Diminished replicative fitness of primary human immunodeficiency virus type 1 isolates harboring the K65R mutation","volume":"43","author":"J Weber","year":"2005","journal-title":"Journal of clinical microbiology"},{"issue":"11","key":"ref33","doi-asserted-by":"crossref","first-page":"3437","DOI":"10.1128\/AAC.46.11.3437-3446.2002","article-title":"Molecular mechanisms of resistance to human immunodeficiency virus type 1 with reverse transcriptase mutations K65R and K65R+M184V and their effects on enzyme function and viral replication capacity","volume":"46","author":"KL White","year":"2002","journal-title":"Antimicrobial agents and chemotherapy"},{"issue":"3","key":"ref34","doi-asserted-by":"crossref","first-page":"370","DOI":"10.1097\/QAI.0b013e318266ee3f","article-title":"Outcomes following virological failure and predictors of switching to second-line antiretroviral therapy in a South African treatment program","volume":"61","author":"V Johnston","year":"2012","journal-title":"J Acquir Immune Defic Syndr"}],"container-title":["PLOS ONE"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/dx.plos.org\/10.1371\/journal.pone.0166305","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2022,7,15]],"date-time":"2022-07-15T19:33:03Z","timestamp":1657913583000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pone.0166305"}},"subtitle":[],"editor":[{"given":"Jason","family":"Blackard","sequence":"first","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2016,12,1]]},"references-count":34,"journal-issue":{"issue":"12","published-online":{"date-parts":[[2016,12,1]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pone.0166305","relation":{"has-review":[{"id-type":"doi","id":"10.3410\/f.727052917.793526043","asserted-by":"object"}]},"ISSN":["1932-6203"],"issn-type":[{"value":"1932-6203","type":"electronic"}],"subject":[],"published":{"date-parts":[[2016,12,1]]}}}