An improved algorithm for determining HIV type 1 subtypes in a primary laboratory in Uganda

Citation
P. Kaleebu et al., An improved algorithm for determining HIV type 1 subtypes in a primary laboratory in Uganda, AIDS RES H, 16(7), 2000, pp. 621-625
Citations number
17
Categorie Soggetti
Immunology
Journal title
AIDS RESEARCH AND HUMAN RETROVIRUSES
ISSN journal
08892229 → ACNP
Volume
16
Issue
7
Year of publication
2000
Pages
621 - 625
Database
ISI
SICI code
0889-2229(20000501)16:7<621:AIAFDH>2.0.ZU;2-A
Abstract
A pilot study was undertaken with the objective of developing a simple, eco nomical, and efficient algorithm through which to subtype HIV-1 in a large epidemiological cohort study in Uganda, A peptide enzyme immunoassay (PEIA) employing both V3 and gp41 regions and a heteroduplex mobility assay (HMA) were evaluated in comparison with DNA sequencing, Of 146 samples selected, 115 (79%) were successfully sequenced. Taking sequence data as the "gold s tandard," other assays were compared with these data, The HMA correctly ide ntified 95 (83%) of the samples, and only 1 sample was wrongly identified. The V3 PEIA alone and in combination with gp41 peptides correctly identifie d 76 and 78% of the samples, respectively; however, the number of wrongly i dentified samples was four times less with the combination compared with V3 peptides alone (4 versus 16%). The sensitivity, specificity, and positive and negative predictive values for serotype A and D samples were greater fo r the combination than V3 peptides alone. We have described a new algorithm to segregate subtypes A and D, This algorithm uses the two peptide assays followed by HMA and then DNA sequencing for untypable samples, giving an ac curacy of 95% at a cost of 37 and 21% for consumables compared with subtypi ng all the samples by HMA or DNA sequencing, respectively. This proposed ap proach is suitable for epidemiological studies in Uganda and other regions with a predominance of A and D subtypes.