Haplotype analysis of the SDF-1 (CXCL12) gene in a longitudinal HIV-1/AIDS cohort study

W. S. Modi, K. Scott, J. J. Goedert, D. Vlahov, S. Buchbinder, R. Detels, S. Donfield, S. J. O'Brien, C. Winkler

    Research output: Contribution to journalArticle

    Abstract

    The stromal-derived factor-1 (SDF-1) chemokine gene encodes the only natural ligand for CXCR4, the coreceptor for the pathogenic X4 HIV-1 strains. A single-nucleotide polymorphism (SNP) in the 3′ untranslated region (SDF1-3′ A = rs1801157) of SDF-1 was reported to be protective against infection and progression in some, but not other, epidemiological studies. To identify additional alleles that may influence HIV-1 infection and progression to AIDS, nine SNPs (including rs1801157) spanning 20.2kb in and around the SDF-1 gene were genotyped in over 3000 African American (AA) and European American (EA) participants enrolled in five longitudinal HIV-1/AIDS natural cohort studies. Six or five haplotypes were present at frequencies greater than 5% in AA or EA, respectively. Six of the nine SNPs occur on only one common haplotype (>5%), while the remaining three SNPs were found on multiple haplotypes, suggesting a complex history of recombination. Among EA, rs754618 was associated with an increased risk of infection (OR = 1.50, P = 0.03), while rs1801157 (= SDF1-3′ A) was associated with protection against infection (OR = 0.63, P = 0.01). In the MACS cohort, rs1801157 was associated with AIDS-87 (RH = 0.31, P = 0.02) and with death (RH = 0.18, P = 0.02). Significant associations to a single disease outcome were found for two SNPs and one haplotype in AA.

    Original languageEnglish (US)
    Pages (from-to)691-698
    Number of pages8
    JournalGenes and immunity
    Volume6
    Issue number8
    DOIs
    StatePublished - Dec 1 2005

    Keywords

    • AIDS
    • Epidemiology
    • HIV-1
    • Haplotypes
    • SDF-1 chemokine

    ASJC Scopus subject areas

    • Immunology
    • Genetics
    • Genetics(clinical)

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    Modi, W. S., Scott, K., Goedert, J. J., Vlahov, D., Buchbinder, S., Detels, R., Donfield, S., O'Brien, S. J., & Winkler, C. (2005). Haplotype analysis of the SDF-1 (CXCL12) gene in a longitudinal HIV-1/AIDS cohort study. Genes and immunity, 6(8), 691-698. https://doi.org/10.1038/sj.gene.6364258