title: Performance evaluation of an in-house human immunodeficiency virus type-1 protease-reverse transcriptase genotyping assay in Cameroon.
abstract: Most commercial HIV-1 genotyping assays are hampered by high cost in resource-limited settings. Moreover, their performance might be influenced over time by HIV genetic heterogeneity and evolution. An in-house genotyping protocol was developed, and its sequencing performance and reproducibility were compared to that of ViroSeq™. One hundred ninety plasma samples from HIV-1-infected subjects in Cameroon, a resource-limited setting with a high HIV genetic variability, were processed for pol gene sequencing with an in-house protocol, ViroSeq™, or both. Only non-B subtypes were found. The in-house sequencing performance was 98.7% against 92.1% with ViroSeq™. Among 36 sequence pairs obtained using both assays, the overall rate of discordant amino acid positions was negligible (0.24%). With its high sensitivity and reproducibility, as well as its affordable cost (about half of ViroSeq™: 92 euros vs. 217 euros), this in-house assay is a suitable alternative for HIV-1 genotyping in resource-limited and/or in high-genetic-diversity settings.
authors.affiliation: CIRCB: Chantal BIYA International Research Centre for Research on HIV/AIDS Prevention and Management, Yaoundé, Cameroon.
authors.forename: J
authors.initials: J
authors.lastname: Fokam
authors.forename: R
authors.initials: R
authors.lastname: Salpini
authors.forename: M M
authors.initials: MM
authors.lastname: Santoro
authors.forename: V
authors.initials: V
authors.lastname: Cento
authors.forename: R
authors.initials: R
authors.lastname: D'Arrigo
authors.forename: C
authors.initials: C
authors.lastname: Gori
authors.forename: C F
authors.initials: CF
authors.lastname: Perno
authors.forename: V
authors.initials: V
authors.lastname: Colizzi
authors.forename: A
authors.initials: A
authors.lastname: Nanfack
authors.forename: L C
authors.initials: LC
authors.lastname: Gwom
authors.forename: G
authors.initials: G
authors.lastname: Cappelli
authors.forename: D
authors.initials: D
authors.lastname: Takou
mesh_terms: D000328:Adult; D000368:Aged; D002163:Cameroon / Q000453:epidemiology; D005260:Female; D005821:Genetic Techniques; D005838:Genotype; D015658:HIV Infections / Q000821:virology*; D054303:HIV Reverse Transcriptase / Q000235:genetics*; D015497:HIV-1 / Q000145:classification / Q000201:enzymology / Q000235:genetics* / Q000302:isolation & purification*; D006801:Humans; D008297:Male; D008875:Middle Aged; D008969:Molecular Sequence Data; D010802:Phylogeny
chemical_list: C514824:reverse transcriptase, Human immunodeficiency virus 1; D054303:HIV Reverse Transcriptase