Objective
Plasma kynurenine/tryptophan (KT) ratio, a biomarker of indoleamine 2,3-dioxygenase-1 (IDO) activity, is a strong independent predictor of mortality in HIV-infected Ugandans initiating antiretroviral therapy (ART) and may play a key role in HIV pathogenesis. We performed a genome-wide study to identify potential host genetic determinants of KT ratio in HIV-infected ART-suppressed Ugandans.
Design/Methods
We performed genome-wide and exome array genotyping and measured plasma KT ratio during the initial 6-12 months of suppressive ART in Ugandans. We evaluated >16 million SNPs in association with log10KT ratio using linear mixed models adjusted for cohort, gender, pregnancy, and ancestry.
Results
Among 597 Ugandans, 62% were female, median age was 35, median baseline CD4+ count was 135 cells/mm3, and median baseline HIV-1 RNA was 5.1 log10copies/mL. Several polymorphisms in candidate genes TNF, IFNGR1, and TLR4 were associated with log10KT ratio (P<5.0×10−5). An intergenic polymorphism between CSPG5 and ELP6 was genome-wide significant, while several others exhibited suggestive associations (P<5.0×10−7), including genes encoding protein tyrosine phosphatases (PTPRM, PTPRN2) and the vitamin D metabolism gene, CYP24A1. Several of these SNPs were associated with markers of inflammation, coagulation, and monocyte activation, but did not replicate in a small U.S. cohort (N=262; 33% African-American).
Conclusions
Our findings highlight a potentially important role of IFN-γ, TNF−α, and toll-like receptor signaling in determining IDO activity and subsequent mortality risk in HIV-infected ART-suppressed Ugandans. These results also identify potential novel pathways involved in IDO immunoregulation. Further studies are needed to confirm these findings in treated HIV-infected populations.