Evidence for selection at HIV host susceptibility genes in a West Central African human population

Table 1 Frequencies of alleles protective against HIV-1 in Biaka and Mbuti Pygmies

Gene	SNP	Coding Variant	Protective Allele	Biaka	Mbuti
Non-synonymous coding SNP
APOBEC3G	rs8177832a	H186R	A	0.86**	0.65
APOBEC3H	rs139298	K121E	A	0.25	0.12
CXCR6	rs2234355	E3K	A	0.38*	0.12
TRIM5	rs10838525	R136Q	T	0.11	0.00
PARD3B	rs10185378b	T- > I	T	0.18	0.19
Associated with HIV-1 infection/AIDS progression in an African American cohort
CUL5	rs11212495		A	1.00	0.96
HLA-C	rs9264942		C	0.46	0.27
Associated with HIV-1 infection/AIDS progression in a European cohort
RPA12 (ZNRD1)	rs9261174		C	0.32	0.31

Human genes are listed for which a SNP reported to be associated with HIV-1 outcome was genotyped in the human genome diversity panel (HGDP). For each SNP, allele frequencies are listed for the protective allele in Biaka and Mbuti.
Boldface indicates protective alleles for which the Biaka had a higher allele frequency than the Mbuti. For coding variants, the amino acid listed after the position is the protective variant. Within each pygmy population, all alleles were at Hardy-Weinberg equilibrium after Bonferroni correction (p < 0.00625).
*Indicates that the allele frequency difference between Biaka and Mbuti is significant (p < 0.05) using Fisher's exact test.
**Indicates that the allele frequency difference between Biaka and Mbuti is significant after Bonferroni correction for multiple tests (p < 0.00625).

ISSN: 2730-7182