TY - JOUR
T1 - Role of TNF block genetic variants in HIV-associated sensory neuropathy in black Southern Africans
AU - Wadley, Antonia L.
AU - Hendry, Liesl M.
AU - Kamerman, Peter R.
AU - Chew, Constance S N
AU - Price, Patricia
AU - Cherry, Catherine L.
AU - Lombard, Zané
PY - 2015/3/1
Y1 - 2015/3/1
N2 - HIV-associated sensory neuropathy (HIV-SN) is a common neurological complication of HIV infection. The TNF block is a region within the central MHC that contains many immunoregulatory genes. Polymorphisms and haplotypes of the TNF block have been associated with increased risk of HIV-SN in Asians and whites. Here we investigated genetic associations with HIV-SN in 342 black Southern Africans (190 cases and 152 neuropathy-free controls) using single nucleotide polymorphisms (SNPs) spanning the TNF block and a set of haplotypes defined by 31 SNPs in Asian and white populations (denoted FVa). We included population-appropriate tagSNPs derived from an African population (Yoruban, YRI, HapMap) and derived extended haplotypes comprising 61 SNPs (denoted FVa-ext b). We found no association between HIV-SN and carriage of two SNPs (TNF-1031/rs1799964∗C and BAT1 (intron10)/rs9281523∗C) associated with HIV-SN in whites and Asians. Additionally, a haplotype containing TNF-1031/rs1799964∗C associated with increased risk of HIV-SN in Asians, but was not present in this African population. However, alleles of seven SNPs associated with reduced risk of HIV-SN (corrected for age, height and multiple comparisons). These were rs11796∗A, rs3130059∗G, rs2071594∗C, NFKBIL1-62/rs2071592∗A, rs2071591∗A, LTA+252/rs909253∗G, rs1041981∗C. One haplotype (FV18-ext1), not containing these alleles, was associated with increased risk of HIV-SN after correction for age, height and multiple comparisons. Our results confirm the involvement of genes in the TNF block in altering risk for HIV-SN, but genotypes critical in this African population differed from those affecting HIV-SN in whites and Asians. These differences support the need for genetic association studies in diverse populations.
AB - HIV-associated sensory neuropathy (HIV-SN) is a common neurological complication of HIV infection. The TNF block is a region within the central MHC that contains many immunoregulatory genes. Polymorphisms and haplotypes of the TNF block have been associated with increased risk of HIV-SN in Asians and whites. Here we investigated genetic associations with HIV-SN in 342 black Southern Africans (190 cases and 152 neuropathy-free controls) using single nucleotide polymorphisms (SNPs) spanning the TNF block and a set of haplotypes defined by 31 SNPs in Asian and white populations (denoted FVa). We included population-appropriate tagSNPs derived from an African population (Yoruban, YRI, HapMap) and derived extended haplotypes comprising 61 SNPs (denoted FVa-ext b). We found no association between HIV-SN and carriage of two SNPs (TNF-1031/rs1799964∗C and BAT1 (intron10)/rs9281523∗C) associated with HIV-SN in whites and Asians. Additionally, a haplotype containing TNF-1031/rs1799964∗C associated with increased risk of HIV-SN in Asians, but was not present in this African population. However, alleles of seven SNPs associated with reduced risk of HIV-SN (corrected for age, height and multiple comparisons). These were rs11796∗A, rs3130059∗G, rs2071594∗C, NFKBIL1-62/rs2071592∗A, rs2071591∗A, LTA+252/rs909253∗G, rs1041981∗C. One haplotype (FV18-ext1), not containing these alleles, was associated with increased risk of HIV-SN after correction for age, height and multiple comparisons. Our results confirm the involvement of genes in the TNF block in altering risk for HIV-SN, but genotypes critical in this African population differed from those affecting HIV-SN in whites and Asians. These differences support the need for genetic association studies in diverse populations.
UR - http://www.scopus.com/inward/record.url?scp=84938417328&partnerID=8YFLogxK
U2 - 10.1038/ejhg.2014.104
DO - 10.1038/ejhg.2014.104
M3 - Article
AN - SCOPUS:84938417328
SN - 1018-4813
VL - 23
SP - 363
EP - 368
JO - European Journal of Human Genetics
JF - European Journal of Human Genetics
IS - 3
ER -
