HIV type 1 V3 domain serotyping and genotyping in Gauteng, Mpumalanga, Kwazulu-Natal, and Western Cape Provinces of South Africa
Date
1999
Authors
Engelbrecht S.
Smith T.-L.
Kasper P.
Faatz E.
Zeier M.
Moodley D.
Clay C.G.
Van Rensburg E.J.
Journal Title
Journal ISSN
Volume Title
Publisher
Abstract
More than 20.8 million people are living with HIV/AIDS in sub-Saharan Africa, with southern Africa the worst affected area and accounting for one of the fastest growing AIDS epidemics worldwide. Samples from 81 patients, including 25 from KwaZulu-Natal, 26 from Gauteng, 5 from Mpumalanga, and 25 from Western Cape Province, were serotyped using a competitive V3 peptide enzyme immunoassay (cPEIA). Viral RNA was also isolated from serum and the V3 region amplified by reverse transcriptase polymerase chain reaction (RTPCR) to obtain a 240-bp product for direct sequencing of 29 samples. CLUSTAL W was used to make multiple sequence alignments. Distance calculation, tree construction methods, and bootstrap analysis were done using TREECON. Subtype C-like V3 100p sequences predominate in all provinces tested in South Africa. Discordant sero- and genotype results were observed in one patient only. The correlation between sero- and genotyping was 96% (24 of 25) in KwaZulu-Natal and 100% in Gauteng and Mpumalanga. In Western Cape Province 18% of patients were identified as sero/genotype B and 82% as sero/genotype C. Our data show that results of the second-generation V3 cPEIA correlated well with V3 sequencing and would be a rapid and affordable screening test to monitor the explosive southern African HIV-1 epidemic.
Description
Keywords
virus RNA, acquired immune deficiency syndrome, article, genotype, human immunodeficiency virus 1, human immunodeficiency virus infection, nonhuman, nucleotide sequence, priority journal, reverse transcription polymerase chain reaction, screening test, serotype, South Africa, virus infection, Adolescent, Adult, Aged, Amino Acid Sequence, Base Sequence, Child, Child, Preschool, DNA, Viral, Genotype, HIV Envelope Protein gp120, HIV Infections, HIV-1, Humans, Middle Aged, Molecular Sequence Data, Peptide Fragments, Phylogeny, Serotyping, South Africa
Citation
AIDS Research and Human Retroviruses
15
4
15
4