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HIV-1 tropism: a comparison between RNA and proviral DNA in routine clinical samples from Chilean patients

BACKGROUND: HIV in Chile has a notification rate of 0.01%. Coreceptor antagonists are a family of antiretroviral drugs that are used with the prior knowledge of patients HIV-1 tropism. Viral RNA-based tropism detection requires a plasma viral load ≥1000 copies/mL, while proviral DNA-based detection...

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Autores principales: Ferrer, Pablo, Montecinos, Luisa, Tello, Mario, Tordecilla, Rocio, Rodríguez, Consuelo, Ferrés, Marcela, Pérez, Carlos M, Beltrán, Carlos, Guzmán, Maria A, Afani, Alejandro
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2013
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4231446/
https://www.ncbi.nlm.nih.gov/pubmed/24165156
http://dx.doi.org/10.1186/1743-422X-10-318
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author Ferrer, Pablo
Montecinos, Luisa
Tello, Mario
Tordecilla, Rocio
Rodríguez, Consuelo
Ferrés, Marcela
Pérez, Carlos M
Beltrán, Carlos
Guzmán, Maria A
Afani, Alejandro
author_facet Ferrer, Pablo
Montecinos, Luisa
Tello, Mario
Tordecilla, Rocio
Rodríguez, Consuelo
Ferrés, Marcela
Pérez, Carlos M
Beltrán, Carlos
Guzmán, Maria A
Afani, Alejandro
author_sort Ferrer, Pablo
collection PubMed
description BACKGROUND: HIV in Chile has a notification rate of 0.01%. Coreceptor antagonists are a family of antiretroviral drugs that are used with the prior knowledge of patients HIV-1 tropism. Viral RNA-based tropism detection requires a plasma viral load ≥1000 copies/mL, while proviral DNA-based detection can be performed regardless of plasma viral load. This test is useful in patients with low or undetectable viral loads and would benefit with a proper therapy. The aim of this study was to determine the correlation between HIV RNA and proviral genotypic DNA tropism tests. FINDINGS: Forty three Chilean patients were examined using population-based V3 sequencing, and a geno2pheno false-positive rate (FPR) cutoff values of 5, 5.75, 10 and 20%. With cutoff 5.75% a concordance of 88.4% in tropism prediction was found after a simultaneous comparison between HIV tropism assessment by RNA and DNA. In total, five discrepancies (11.6%) were found, 3 patients were RNA-R5/DNA-X4 and two were RNA-X4/DNA-R5. Proviral DNA enabled the prediction of tropism in patients with a low or undetectable viral load. For cutoff 5 and 5.75% genotypic testing using proviral DNA showed a similar sensitivity for X4 as RNA. We found that the highest sensitivity for detecting the X4 strain occurred with proviral DNA and cutoff of 10 and 20%. Viral loads were higher among X4 strain carriers than among R5 strain carriers (p < 0.05). CONCLUSIONS: A high degree of concordance was found between tropism testing with RNA and testing with proviral DNA. Our results suggest that proviral DNA-based genotypic tropism testing is a useful option for patients with low or undetectable viral load who require a different therapy.
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spelling pubmed-42314462014-11-15 HIV-1 tropism: a comparison between RNA and proviral DNA in routine clinical samples from Chilean patients Ferrer, Pablo Montecinos, Luisa Tello, Mario Tordecilla, Rocio Rodríguez, Consuelo Ferrés, Marcela Pérez, Carlos M Beltrán, Carlos Guzmán, Maria A Afani, Alejandro Virol J Short Report BACKGROUND: HIV in Chile has a notification rate of 0.01%. Coreceptor antagonists are a family of antiretroviral drugs that are used with the prior knowledge of patients HIV-1 tropism. Viral RNA-based tropism detection requires a plasma viral load ≥1000 copies/mL, while proviral DNA-based detection can be performed regardless of plasma viral load. This test is useful in patients with low or undetectable viral loads and would benefit with a proper therapy. The aim of this study was to determine the correlation between HIV RNA and proviral genotypic DNA tropism tests. FINDINGS: Forty three Chilean patients were examined using population-based V3 sequencing, and a geno2pheno false-positive rate (FPR) cutoff values of 5, 5.75, 10 and 20%. With cutoff 5.75% a concordance of 88.4% in tropism prediction was found after a simultaneous comparison between HIV tropism assessment by RNA and DNA. In total, five discrepancies (11.6%) were found, 3 patients were RNA-R5/DNA-X4 and two were RNA-X4/DNA-R5. Proviral DNA enabled the prediction of tropism in patients with a low or undetectable viral load. For cutoff 5 and 5.75% genotypic testing using proviral DNA showed a similar sensitivity for X4 as RNA. We found that the highest sensitivity for detecting the X4 strain occurred with proviral DNA and cutoff of 10 and 20%. Viral loads were higher among X4 strain carriers than among R5 strain carriers (p < 0.05). CONCLUSIONS: A high degree of concordance was found between tropism testing with RNA and testing with proviral DNA. Our results suggest that proviral DNA-based genotypic tropism testing is a useful option for patients with low or undetectable viral load who require a different therapy. BioMed Central 2013-10-28 /pmc/articles/PMC4231446/ /pubmed/24165156 http://dx.doi.org/10.1186/1743-422X-10-318 Text en Copyright © 2013 Ferrer et al.; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Short Report
Ferrer, Pablo
Montecinos, Luisa
Tello, Mario
Tordecilla, Rocio
Rodríguez, Consuelo
Ferrés, Marcela
Pérez, Carlos M
Beltrán, Carlos
Guzmán, Maria A
Afani, Alejandro
HIV-1 tropism: a comparison between RNA and proviral DNA in routine clinical samples from Chilean patients
title HIV-1 tropism: a comparison between RNA and proviral DNA in routine clinical samples from Chilean patients
title_full HIV-1 tropism: a comparison between RNA and proviral DNA in routine clinical samples from Chilean patients
title_fullStr HIV-1 tropism: a comparison between RNA and proviral DNA in routine clinical samples from Chilean patients
title_full_unstemmed HIV-1 tropism: a comparison between RNA and proviral DNA in routine clinical samples from Chilean patients
title_short HIV-1 tropism: a comparison between RNA and proviral DNA in routine clinical samples from Chilean patients
title_sort hiv-1 tropism: a comparison between rna and proviral dna in routine clinical samples from chilean patients
topic Short Report
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4231446/
https://www.ncbi.nlm.nih.gov/pubmed/24165156
http://dx.doi.org/10.1186/1743-422X-10-318
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