Genome-wide association study of alcohol dependence.
- Authors
- Treutlein, Jens; Cichon, Sven; Ridinger, Monika; Wodarz, Norbert; Soyka, Michael; Zill, Peter; Maier, Wolfgang; Moessner, Rainald; Gaebel, Wolfgang; Dahmen, Norbert; Fehr, Christoph; Scherbaum, Norbert; Steffens, Michael; Ludwig, Kerstin U; Frank, Josef; Wichmann, H Erich; Schreiber, Stefan; Dragano, Nico; Sommer, Wolfgang H; Leonardi-Essmann, Fernando; Lourdusamy, Anbarasu; Gebicke-Haerter, Peter; Wienker, Thomas F; Sullivan, Patrick F; Nöthen, Markus M; Kiefer, Falk; Spanagel, Rainer; Mann, Karl; Rietschel, Marcella
- Year
- 2009
- Journal
- Archives of general psychiatry
- PMID
- 19581569
- DOI
- 10.1001/archgenpsychiatry.2009.83
- PMCID
- PMC4229246
CONTEXT: Alcohol dependence is a serious and common public health problem. It is well established that genetic factors play a major role in the development of this disorder. Identification of genes that contribute to alcohol dependence will improve our understanding of the mechanisms that underlie this disorder. OBJECTIVE: To identify susceptibility genes for alcohol dependence through a genome-wide association study (GWAS) and a follow-up study in a population of German male inpatients with an early age at onset. DESIGN: The GWAS tested 524,396 single-nucleotide polymorphisms (SNPs). All SNPs with P < 10(-4) were subjected to the follow-up study. In addition, nominally significant SNPs from genes that had also shown expression changes in rat brains after long-term alcohol consumption were selected for the follow-up step. SETTING: Five university hospitals in southern and central Germany. PARTICIPANTS: The GWAS included 487 male inpatients with alcohol dependence as defined by the DSM-IV and an age at onset younger than 28 years and 1358 population-based control individuals. The follow-up study included 1024 male inpatients and 996 age-matched male controls. All the participants were of German descent. MAIN OUTCOME MEASURES: Significant association findings in the GWAS and follow-up study with the same alleles. RESULTS: The GWAS produced 121 SNPs with nominal P < 10(-4). These, together with 19 additional SNPs from homologues of rat genes showing differential expression, were genotyped in the follow-up sample. Fifteen SNPs showed significant association with the same allele as in the GWAS. In the combined analysis, 2 closely linked intergenic SNPs met genome-wide significance (rs7590720, P = 9.72 x 10(-9); rs1344694, P = 1.69 x 10(-8)). They are located on chromosome region 2q35, which has been implicated in linkage studies for alcohol phenotypes. Nine SNPs were located in genes, including the CDH13 and ADH1C genes, that have been reported to be associated with alcohol dependence. CONCLUSIONS: This is the first GWAS and follow-up study to identify a genome-wide significant association in alcohol dependence. Further independent studies are required to confirm these findings.
Pre and post quality control QQ plot of Armitage's trend test p-values of autosomal SNPs. SNPs at which the test statistic exceeds 30, are represented by triangles at the top of the plot.
Genome-wide overview of GWAS findings. SNPs at which the test statistic exceeds 30, are represented by triangles at the top of the plot.
Illustration of p-values in a +/− 1Mb interval around the most significant findings at 2q35: rs1344694, rs7590720 and rs705648. Gene annotations from UCSC RefSeq genes, LD-maps from HapMap.
| Name | Type |
|---|---|
| 15 SNPs local | variant |
| 2q35 local | variant |
| AA rat local | cohort |
| AA rats | cohort |
| acetyl-CoA | drug |
| ADH | gene |
| ADH1A | gene |
| ADH1B | gene |
| ADH1C | gene |
| ADH1C*2 allele local | variant |
| ADH gene cluster | gene |
| Age at onset <45 local | phenotype |
| alcohol | phenotype |
| alcohol abuse | phenotype |
| alcohol dependence | phenotype |
| alcohol-dependent rats | cohort |
| alcohol preference | phenotype |
| alcohol preferring P rats local | cohort |
| Alcohol Problems | phenotype |
| alcohol-related phenotypes | phenotype |
| alcohol sensitivity | phenotype |
| amygdala | anatomy |
| animal models | cohort |
| bipolar disorder | phenotype |
| Bonn local | cohort |
| Bonn/Essen/Düsseldorf/Homburg sites local | cohort |
| brain | anatomy |
| CAST | gene |
| CCDC41 local | gene |
| CDH local | gene |
| CDH13 | gene |
| Collaborative Study on the Genetics of Alcoholism (COGA) | cohort |
| Comorbid alcoholism and depression phenotype local | phenotype |
| complex diseases | phenotype |
| constraint | phenotype |
| coronary calcification | phenotype |
| coronary heart disease | phenotype |
| D2S1371 local | variant |
| D2S2382 local | variant |
| D2S434 local | variant |
| diabetes | phenotype |
| differentially expressed genes | gene |
| disorder | phenotype |
| DNA | drug |
| dorsal striatum | anatomy |
| early age at onset | phenotype |
| Early age at onset of alcohol dependence local | phenotype |
| East Asian | cohort |
| ERAP1 | gene |
| ESR1 | gene |
| Essen/Düsseldorf/Homburg local | cohort |
| ethanol consumption | phenotype |
| European population | cohort |
| Europeans | cohort |
| folate deficiency | phenotype |
| follow-up sample local | cohort |
| GATA | gene |
| GATA4 | gene |
| GeneChip® Rat Genome U34 Set local | drug |
| Gene Ontology | drug |
| German Addiction Research Network local | cohort |
| German controls | cohort |
| German descent local | cohort |
| German GWAS local | cohort |
| German male follow-up cohort local | cohort |
| German patients local | cohort |
| German population | cohort |
| GWAS | cohort |
| GWAS cases | cohort |
| GWA study | cohort |
| HAD rat local | cohort |
| HAD rats local | cohort |
| heavy drinking | phenotype |
| Heinz Nixdorf Recall study local | cohort |
| Heinz Nixdorf Recall Study local | cohort |
| HNR local | cohort |
| human alcoholics | phenotype |
| Human Hap 550 BeadChips local | drug |
| Human homologs of rat genes local | gene |
| hypertension | phenotype |
| Irish Affected Sib Pair Study of Alcohol Dependence local | cohort |
| Irish Affected Sib Pair Study of Alcohol Dependence (IASPSAD) local | cohort |
| Irish controls local | cohort |
| Irish patients local | cohort |
| Kora local | cohort |
| KORA local | cohort |
| KORA study local | cohort |
| LR to alcohol local | phenotype |
| Mainz local | cohort |
| Mainz site local | cohort |
| male cases local | cohort |
| male controls local | cohort |
| Mannheim local | cohort |
| Mannheim site local | cohort |
| methamphetamine | drug |
| methamphetamine dependence | phenotype |
| methyl-malonyl-CoA local | drug |
| methyl-tetrahydrofolate local | drug |
| Methyl-tetrahydrofolate local | drug |
| mouse brain | anatomy |
| Munich local | cohort |
| Munich site local | cohort |
| National Genome Research Project local | cohort |
| NGFN local | cohort |
| nicotine addiction | phenotype |
| P3(00) component of ERP local | phenotype |
| P3 deficits local | phenotype |
| PECR | gene |
| Picogreends DNA Quantitation Kit local | drug |
| PopGen local | cohort |
| PPP2R2B | gene |
| P rats | cohort |
| Propionyl-CoA local | drug |
| rat gene local | gene |
| rats | cohort |
| Regensburg local | cohort |
| Regensburg site local | cohort |
| replication sample | cohort |
| RG U34A arrays local | drug |
| risk taking behaviour local | phenotype |
| rs11640875 local | variant |
| rs13160562 | variant |
| rs13273672 | variant |
| rs13362120 local | variant |
| rs1344694 | variant |
| rs1614972 local | variant |
| rs1693482 | variant |
| rs1864982 local | variant |
| rs6902771 local | variant |
| rs705648 local | variant |
| rs7138291 local | variant |
| rs7590720 | variant |
| schizophrenia | phenotype |
| Selected SNPs local | variant |
| Severe withdrawal symptoms local | phenotype |
| sex | phenotype |
| SNP | cohort |
| tobacco use | phenotype |
| total RNA | drug |
| triglycerides | phenotype |
| vitamin B12 | drug |
| voluntary alcohol consumption | phenotype |
| water | drug |
| WHO MONICA study local | cohort |
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