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Prediction of HIV Type 1 Subtype C Tropism by Genotypic Algorithms Built From Subtype B Viruses
被引:48
作者:
Raymond, Stephanie
[1
,2
,3
]
Delobel, Pierre
[1
,2
,4
]
Mavigner, Maud
[1
]
Ferradini, Laurent
[5
]
Cazabat, Michelle
[1
,3
]
Souyris, Corinne
[1
,3
]
Sandres-Saune, Karine
[1
,2
,3
]
Pasquier, Christophe
[1
,2
,3
]
Marchou, Bruno
[2
,4
]
Massip, Patrice
[2
,4
]
Izopet, Jacques
[1
,2
,3
]
机构:
[1] INSERM, U563, F-31300 Toulouse, France
[2] Univ Toulouse 3, Fac Med Toulouse Purpan, F-31300 Toulouse, France
[3] CHU Toulouse, Hop Purpan, Virol Lab, F-31300 Toulouse, France
[4] CHU Toulouse, Hop Purpan, Serv Malad Infect & Trop, F-31300 Toulouse, France
[5] Epictr, Paris, France
关键词:
HIV envelope protein 120;
V3;
genotype;
phenotype;
CCR5;
CXCR4;
HIV-1 subtype C;
ACTIVE ANTIRETROVIRAL THERAPY;
DISEASE PROGRESSION;
CORECEPTOR USAGE;
SOUTH-AFRICA;
MAJOR CORECEPTOR;
SMALL-MOLECULE;
V3;
SEQUENCES;
CXCR4;
CCR5;
PHENOTYPE;
D O I:
10.1097/QAI.0b013e3181c8413b
中图分类号:
R392 [医学免疫学];
Q939.91 [免疫学];
学科分类号:
100102 ;
摘要:
Background: Genotypic predictions of HIV-1 tropism could simplify CCR5 antagonist usage. However, the genotypic algorithms built from subtype B viruses could be inadequate for non-B subtypes. We therefore performed paired genotypic and phenotypic determination of subtype C tropism. Methods: We studied 52 patients recruited in Malawi and 21 patients recruited in France. We directly sequenced the V3 env region and performed a recombinant virus phenotypic entry assay in parallel. Results: The Malawi patients had 29% of CXCR4-using subtype C viruses compared with only 5% in the patients from France. For detecting CXCR4-using subtype C viruses, the genotypic rule combining the amino acids at positions 11/25 and the net charge of V3 was 93.3% sensitive and 96.4% specific. The Geno2pheno tool was 86.7% sensitive and 89.1% specific. The WebPSSM tool with the SI/NSI matrix was 80% sensitive and 98.2% specific in its subtype B version and 93.3% sensitive and 81.8% specific in its subtype C version. Conclusions: The genotypic determinants of coreceptor usage for HIV-1 subtype C were mainly in V3 and were globally similar to those previously reported for subtype B viruses. The main genotypic algorithms built from subtype B viruses perform well when applied to subtype C viruses.
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页码:167 / 175
页数:9
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