Genotypic prediction of human immunodeficiency virus type 1 tropism by use of plasma and peripheral blood mononuclear cells in the routine clinical laboratory

Journal of Clinical Microbiology

Volumn 49, Issue 7, 2011, Pages 2697-2699

  Paar, Christian ^a   Geit, Maria ^a   Stekel, Herbert ^a   Berg, Jörg ^a,b  

^a KEPLER UNIVERSITY HOSPITAL   (Austria)

^b MEDICAL UNIVERSITY OF GRAZ   (Austria)

Author keywords

[No Author keywords available]

Indexed keywords

VIRUS DNA; VIRUS RNA;

ACCURACY; ARTICLE; COHORT ANALYSIS; CONTROLLED STUDY; GENE AMPLIFICATION; GENOTYPE; HIV TEST; HUMAN; HUMAN IMMUNODEFICIENCY VIRUS 1; NONHUMAN; NUCLEOTIDE SEQUENCE; PERIPHERAL BLOOD MONONUCLEAR CELL; PLASMA; PREDICTION; PRIORITY JOURNAL; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; VIRAL TROPISM; VIRUS LOAD;

DNA, VIRAL; GENOTYPE; HIV INFECTIONS; HIV-1; HUMANS; LEUKOCYTES, MONONUCLEAR; MOLECULAR TYPING; PLASMA; RNA, VIRAL; SEQUENCE ANALYSIS, DNA; VIRAL TROPISM; VIROLOGY;

HUMAN IMMUNODEFICIENCY VIRUS 1;

EID: 79959836577     PISSN: 00951137     EISSN: 1098660X     Source Type: Journal    
DOI: 10.1128/JCM.00336-11     Document Type: Article

References (28)

1. Berger, E. A., et al. 1998. A new classification for HIV-1. Nature 391:240.
2. Coakley, E., et al. 2009. Comparison of human immunodeficiency virus type 1 tropism profiles in clinical samples by the Trofile and MT-2 assays. Antimicrob. Agents Chemother. 53:4686-4693.
3. Corbeau, P., and J. Reynes. 2009. CCR5 antagonism in HIV infection: ways, effects, and side effects. AIDS 23:1931-1943.
4. Delobel, P., et al. 2007. Population-based sequencing of the V3 region or env for predicting the coreceptor usage of human immunodeficiency virus type 1 quasispecies. J. Clin. Microbiol. 45:1572-1580.
5. Dorr, P., et al. 2005. Maraviroc (UK-427,857), a potent, orally bioavailable, and selective small-molecule inhibitor of chemokine receptor CCR5 with broad-spectrum anti-human immunodeficiency virus type 1 activity. Antimicrob. Agents Chemother. 49:4721-4732.
6. Erali, M., S. Page, L. G. Reimer, and D. R. Hillyard. 2001. Human immunodeficiency virus type 1 drug resistance testing: a comparison of three sequence-based methods. J. Clin. Microbiol. 39:2157-2165.
7. Garrido, C., et al. 2008. Evaluation of eight different bioinformatics tools to predict vital tropism in different human immunodeficiency virus type 1 subtypes. J. Clin. Microbiol. 46:887-891.
8. Grant, R. M., et al. 2003. Accuracy of the TRUGENE HIV-1 genotyping kit. J. Clin. Microbiol. 41:1586-1593.
9. Gulick, R. M., et al. 2008. Maraviroc for previously treated patients with R5 HIV-1 infection. N. Engl. J. Med. 359:1429-1441.
10. Harrigan, P. R., and A. M. Gerretti. 2011. Genotypic tropism testing: evidence- based or leap of faith? AIDS 25:257-264.
11. Heger, E., et al. 2011. European coreceptor proficiency panel test. Rev. Antivir. Ther. Infect. Dis. 2:25.
12. Hölzl, G., M. Stöcher, V. Leb, H. Stekel, and J. Berg. 2003. Entirely automated quantification of human immunodeficiency virus type 1 (HIV-1) RNA in plasma by using the ultrasensitive COBAS AMPLICOR HIV-1 monitor test and RNA purification on the MagNA pure LC instrument. J. Clin. Microbiol. 41:1248-1251.
13. Jensen, M. A., et al. 2003. Improved coreceptor usage prediction and genotypic monitoring of R5-to-X4 transition by motif analysis of human immunodeficiency virus type 1 env V3 loop sequences. J. Virol. 77:13376-13388.
14. Lengauer, T., O. Sander, S. Sierra, A. Thielen, and R. Kaiser. 2007. Bioinformatics prediction of HIV coreceptor usage. Nature Biotechnol. 25:1407-1410. (Pubitemid 350233143)
15. Low, A. J., L. C. Swenson, and P. R. Harrigan. 2008. HIV coreceptor phenotyping in the clinical setting. AIDS Rev. 10:143-151.
16. McGovern, R. A., et al. 2010. Population based V3 genotypic tropism assay: a retrospective analysis using screening samples from the A4001029 and MOTIVATE studies. AIDS 24:2517-2525.
17. Paar, C., et al. 2008. Genotypic antiretroviral resistance testing for human immunodeficiency virus type 1 integrase inhibitors by use of the TruGene sequencing system. J. Clin. Microbiol. 46:4087-4090.
18. Parisi, S. G., et al. 2011. A study of HIV coreceptor tropism in paired plasma PBMC and cerebrospinal fluid isolates from antiretroviral naive subjects. J. Clin. Microbiol. 49:1441-1445.
19. Poveda, E., et al. 2009. Design and validation of new genotypic tools for easy and reliable estimation of HIV tropism before using CCR5 antagonists. J. Antimicrob. Chemother. 63:1006-1010.
20. Raymond, S., et al. 2010. Development and performance of a new recombinant virus phenotypic entry assay to determine HIV-1 coreceptor usage. J. Clin. Virol. 47:126-130.
21. Recordon-Pinson, P., et al. 2010. Evaluation of the genotypic prediction of HIV-1 coreceptor use versus phenotypic assay and correlation with virological response to Maraviroc: the ANRS GenoTropism study. Antimicrob. Agents Chemother. 54:3335-3340.
22. Sánchez, V., et al. 2010. Performance of genotypic algorithms for predicting HIV-1 tropism measured against the enhanced-sensitivity Trofile correceptor tropism assay. J. Clin. Microbiol. 48:4235-4239.
23. Saracino, A., et al. 2007. HIV-1 biological phenotype and predicted corecpetor usage based on V3 loop sequence in paired PBMC and plasma samples. Virus Res. 130:34-42. (Pubitemid 350051085)
24. Seclén, E., M. del Mar González, C. De Mendoza, V. Soriano, and E. Poveda. 2010. Dynamics of HIV tropism under suppessive antiretroviral therapy: implications for tropism testing in subjects with undetectable viraemia. J. Antimicrob. Chemother. 65:1493-1496.
25. Sing, T., et al. 2007. Predicting HIV coreceptor usage on the basis of genetic and clinical covariates. Antivir. Ther. 12:1097-1106.
26. Soulié, C., et al. 2010. Factors associated with proviral DNA HIV-1 tropism in antiretroviral therapy-treated patients with fully suppressed plasma HIV viral load: implications for the clinical use of CCR5 antagonists. J. Antimicrob. Chemother. 65:749-751.
27. Swenson, L. C., et al. 2011. Deep sequencing to infer HIV-1 co-receptor usage: application to three clinical trials of Maraviroc in treatment- experienced patients. J. Infect. Dis. 203:237-245.
28. Whitcomb, J. M., et al. 2007. Development and characterization of a novel single-cycle recombinant virus assay to determine human immunodeficiency virus type 1 coreceptor tropism. Antimicrob. Agents Chemother. 51:566-575.