Common human genetic variants and HIV-1 susceptibility: a genome-wide survey in a homogeneous African population.

Journal Article (Journal Article)

OBJECTIVE: To date, CCR5 variants remain the only human genetic factors to be confirmed to impact HIV-1 acquisition. However, protective CCR5 variants are largely absent in African populations, in which sporadic resistance to HIV-1 infection is still unexplained. We investigated whether common genetic variants associate with HIV-1 susceptibility in Africans. METHODS: We performed a genome-wide association study (GWAS) in a population of 1532 individuals from Malawi, a country with high prevalence of HIV-1 infection. Using single-nucleotide polymorphisms (SNPs) present on the genome-wide chip, we also investigated previously reported associations with HIV-1 susceptibility or acquisition. Recruitment was coordinated by the Center for HIV/AIDS Vaccine Immunology at two sexually transmitted infection clinics. HIV status was determined by HIV rapid tests and nucleic acid testing. RESULTS: After quality control, the population consisted of 848 high-risk seronegative and 531 HIV-1 seropositive individuals. Logistic regression testing in an additive genetic model was performed for SNPs that passed quality control. No single SNP yielded a significant P value after correction for multiple testing. The study was sufficiently powered to detect markers with genotype relative risk 2.0 or more and minor allele frequencies 12% or more. CONCLUSION: This is the first GWAS of host determinants of HIV-1 susceptibility, performed in an African population. The absence of any significant association can have many possible explanations: rarer genetic variants or common variants with weaker effect could be responsible for the resistance phenotype; alternatively, resistance to HIV-1 infection might be due to nongenetic parameters or to complex interactions between genes, immunity and environment.

Full Text

Duke Authors

Cited Authors

  • Petrovski, S; Fellay, J; Shianna, KV; Carpenetti, N; Kumwenda, J; Kamanga, G; Kamwendo, DD; Letvin, NL; McMichael, AJ; Haynes, BF; Cohen, MS; Goldstein, DB; Center for HIV/AIDS Vaccine Immunology,

Published Date

  • February 20, 2011

Published In

Volume / Issue

  • 25 / 4

Start / End Page

  • 513 - 518

PubMed ID

  • 21160409

Pubmed Central ID

  • PMC3150594

Electronic International Standard Serial Number (EISSN)

  • 1473-5571

Digital Object Identifier (DOI)

  • 10.1097/QAD.0b013e328343817b


  • eng

Conference Location

  • England