Genome-wide association analysis of coffee drinking suggests association with CYP1A1/CYP1A2 and NRCAM.
Amin N., Byrne E., Johnson J., Chenevix-Trench G., Walter S., Nolte IM., kConFab Investigators None., Vink JM., Rawal R., Mangino M., Teumer A., Keers JC., Verwoert G., Baumeister S., Biffar R., Petersmann A., Dahmen N., Doering A., Isaacs A., Broer L., Wray NR., Montgomery GW., Levy D., Psaty BM., Gudnason V., Chakravarti A., Sulem P., Gudbjartsson DF., Kiemeney LA., Thorsteinsdottir U., Stefansson K., van Rooij FJA., Aulchenko YS., Hottenga JJ., Rivadeneira FR., Hofman A., Uitterlinden AG., Hammond CJ., Shin S-Y., Ikram A., Witteman JCM., Janssens ACJW., Snieder H., Tiemeier H., Wolfenbuttel BHR., Oostra BA., Heath AC., Wichmann E., Spector TD., Grabe HJ., Boomsma DI., Martin NG., van Duijn CM.
Coffee consumption is a model for addictive behavior. We performed a meta-analysis of genome-wide association studies (GWASs) on coffee intake from 8 Caucasian cohorts (N=18 176) and sought replication of our top findings in a further 7929 individuals. We also performed a gene expression analysis treating different cell lines with caffeine. Genome-wide significant association was observed for two single-nucleotide polymorphisms (SNPs) in the 15q24 region. The two SNPs rs2470893 and rs2472297 (P-values=1.6 × 10(-11) and 2.7 × 10(-11)), which were also in strong linkage disequilibrium (r(2)=0.7) with each other, lie in the 23-kb long commonly shared 5' flanking region between CYP1A1 and CYP1A2 genes. CYP1A1 was found to be downregulated in lymphoblastoid cell lines treated with caffeine. CYP1A1 is known to metabolize polycyclic aromatic hydrocarbons, which are important constituents of coffee, whereas CYP1A2 is involved in the primary metabolism of caffeine. Significant evidence of association was also detected at rs382140 (P-value=3.9 × 10(-09)) near NRCAM-a gene implicated in vulnerability to addiction, and at another independent hit rs6495122 (P-value=7.1 × 10(-09))-an SNP associated with blood pressure-in the 15q24 region near the gene ULK3, in the meta-analysis of discovery and replication cohorts. Our results from GWASs and expression analysis also strongly implicate CAB39L in coffee drinking. Pathway analysis of differentially expressed genes revealed significantly enriched ubiquitin proteasome (P-value=2.2 × 10(-05)) and Parkinson's disease pathways (P-value=3.6 × 10(-05)).