Genetic linkage analysis supports the presence of two susceptibility loci for alcoholism and heavy drinking on chromosome 1p22.1-11.2 and 1q21.3-24.2
© Guerrini et al; licensee BioMed Central Ltd. 2005
Received: 14 June 2004
Accepted: 01 March 2005
Published: 01 March 2005
In order to confirm a previous finding of linkage to alcoholism on chromosome 1 we have carried out a genetic linkage study.
DNA from eighteen families, densely affected by alcoholism, was used to genotype a set of polymorphic microsatellite markers at loci approximately 10 centimorgans apart spanning the short arm and part of the long arm of chromosome 1. Linkage analyses were performed using the classical lod score and a model-free method. Three different definitions of affection status were defined, these were 1. Heavy Drinking (HD) where affected subjects drank more than the Royal College of Psychiatrists recommended weekly amount. 2. The Research Diagnostic Criteria for alcoholism (RDCA) 3. Alcohol Dependence Syndrome (ADS) as defined by Edwards and Gross (1976) and now incorporated into ICD10 and DSMIV.
Linkage analyses with the markers D1S1588, D1S2134, D1S1675 covering the cytogenetic region 1p22.1-11.2 all gave positive two point and multipoint lods with a maximum lod of 1.8 at D1S1588 (1p22.1) for the RDCA definition of alcoholism. Another lod of 1.8 was found with D1S1653 in the region 1q21.3-24.2 using the HD affection model.
These results both support the presence of linkage in the 1p22.1-11.2 region which was previously implicated by the USA Collaborative Study of the Genetics of Alcoholism (COGA) study and also suggest the presence of another susceptibility locus at 1q21.3-24.2.
Epidemiological studies report that alcoholism as defined by the Research Diagnostic Criteria (RDC) affects almost 10–15% of the general population in the USA and 1–5% in Europe . Drinking behaviour is clearly partly determined by cultural and psychological factors, but genetic factors also play an important part as shown by family, twin and adoption studies . The overall heritability for alcoholism has been estimated to be around 50% to 60% . However there are almost certainly multiple aetiological subtypes of alcoholism, which will eventually be shown to have heterogeneous genetic and cultural components [2, 4]. Many genetic association studies of alcoholism have sought to identify candidate susceptibility genes, but few linkage studies have been undertaken so far. Two genome-wide linkage studies have been performed on US populations. One was carried out on a well defined population of south western USA American Indians  and the other on a large sample of families by the Collaborative Study of the Genetics of Alcoholism (COGA) [6, 7]. In the native American Indian study two chromosomal regions provided suggestive evidence for linkage. One was on chromosome 11p close to the DRD4 dopamine receptor and the tyrosine hydroxylase genes and the other on chromosome 4p near the β1 GABA receptor gene. Three loci in the ADH cluster on chromosome 4 also gave evidence of linkage on two point but not multi-point linkage analyses . On the other hand the COGA study, the multi-point linkage analysis provided suggestive evidence of linkage on chromosome 1 and 7 with more modest evidence for a locus on chromosome 2. In addition, there was suggestive evidence for a protective locus on chromosome 4 near the ADH gene cluster . This study  implicated chromosome 1 in two distinct regions on 1p21-35. Two-point analysis of affected sib-pairs showed a significant increase of allele sharing for two adjacent markers D1S532 and D1S1588. The multipoint linkage analysis reported a lod of 2.93 for D1S1588. A second region near D1S224, 60 cM apart from the first locus, had a multipoint lod score of 1.65. In the COGA replication set of families , linkage near the marker D1S224 with a maximum multipoint lod score of 1.6 was reported. In the combined COGA sample a LOD score of 2.6 was reported near markers D1S2614 and D1S1588. Re-analysis of COGA data  for linkage to an alcoholism-related phenotype consisting of alcoholism and depression in the combined COGA samples found a maximum lod of 5.12 near the markers D1S1648 and D1S1588. Furthermore, the region on chromosome 1p near D1S1588 and D1S1631 was also identified as demonstrating possible linkage to the "low level of response to alcohol" phenotype with a maximum lod score of 2.0 . Linkage was also supported in the COGA dataset of an endophenotype characterized by a later age of onset of regular drinking and higher harm avoidance to a region near D1S518 on 1q . Mouse linkage analyses have also shed light on the genetic determinants of alcohol consumption. The extensive syntenic homology between the mouse and human genomes enables predictions about which human loci are syntenic with mouse alcohol related loci. Buck and co-workers, who studied several mouse alcohol related phenotypes, predicted that genes related to physical dependence on ethanol may localize to human chromosome regions 1q21-43, 2q11-32, 5p15, 5q14-21, and 9p24-22, 10q23-26 . The purpose of the current study was to test the hypothesis that the positive linkage reported on human chromosome 1p21-23 by the COGA study and elsewhere on chromosome 1 could be replicated in a United Kingdom sample of families multiply affected by alcoholism.
Proportion of the individuals for each affection status category and their mean age (TT Lifelong abstainers; SD Social Drinkers; HD Heavy drinkers; RDCA Research Diagnostic Criteria Alcoholism; ADS Alcohol Dependence Syndrome)
Mean age ± SD (yrs) in all cases and relatives
58.2 ± 13
50.4 ± 17.1
41.5 ± 14.1
41.5 ± 13.5
42.1 ± 11.9
HD affection model
RDCA affection model
Assuming recessive transmission the marker D1S1679 was linked to RDC alcoholism with a two-point HLOD of 1.0 and a three-point HLOD of 1.6 with the markers D1S1677 and D1S1679. The MLOD two point MFLINK score with D1S1677 was 0.9 and this increased to 1.4 with a three-point model-free analysis.
ADS affection model
MFLINK two-point MALODs for the HD, RDCA and ADS diagnostic categories. In bold MALOD score value ≥1.
The COGA study first reported evidence of a locus linked to alcoholism on chromosome 1p with the markers D1S532 and D1S1588 linked to Alcohol Dependence . Curtis and coworkers, in their reanalysis of the initial COGA dataset computed a MALOD lod score of 1.75 with the marker D1S1588 . The COGA group repeated the analysis in a new set of families and the lod score at D1S1588 was 1.6 in this replication data set. The combined analysis of the two COGA samples gave a lod of 2.6 . The COGA study also conducted a regression method of linkage so as to include unaffected and discordant pairs. D1S1588 then gave a peak lod score of 2.9. Our own results of a lod of 1.8 at the region near D1S1588 offers support but not clear confirmation for the COGA findings. A second region on chromosome 1p, near D1S224, approximately 60 cM proximal to D1S1588, gave a multipoint lod score of 1.7 in the COGA study . The current British study gave a MALOD score of 1.2 over this region with the marker D1S1675 under the HD model, and a MALOD of 1.2 with the marker D1S3723 for the RDCA category.
Dick et al  who analysed the COGA data have suggested that there is a locus on the long arm of chromosome 1 near the marker D1S518 linked to the endophenotype of a late age of onset of regular drinking and high harm avoidance. In a mouse recombinant inbred strain linkage study, a quantitative trait locus for physical dependence on alcohol was mapped to the murine chromosome 1 which is a region syntenic with human chromosome 1q21-43. In the present UK linkage analyses a three point HLOD score of 1.8 was found with the combined markers D1S1653 and D1S1677 for the HD phenotype. The positioning of the lod reported by Dick , the mouse genetic study and the UK linkage study are all compatible with a second locus for alcoholism which is on the proximal part of the long arm of chromosome 1 at 1q21.3-24.2.
In the UK linkage study the two regions on chromosome 1 are implicated with two different affection status categories. We could speculate that the two different loci on chromosome 1 could be mediating an effect on alcoholism through two loci that have different types of effect on susceptibility. The most interesting and probably important finding from the COGA linkage study is that the stratification of families that have members with both alcoholism and depression maximizes the lod to 5.12 on chromosome 1p near the markers D1S1648 and D1S1588 . Without stratification based on clinical phenotype in the combined COGA sample a LOD score of 2.6 was obtained. These findings provide a strong indication that the 1p locus near D1S1588 is mediating its effect on alcoholism through a genetic susceptibility for depression and anxiety. A recent genome wide scan for quantitative-trait loci carried out by Fullerton and colleagues  identified a locus on chromosome 1p, D1S2868, linked to neuroticism. The authors speculated that this locus influences traits genetically related to neuroticism and maps near the locus, D1S1588, identified by Nurnberger et al.  for the endophenotype of alcoholism and depression. It is a generally accepted clinical fact that it is very difficult to diagnose whether depression or anxiety are predisposing to alcoholism or resulting from it. It is likely that both effects occur simultaneously. The twin and family study data to date, strongly supports the hypothesis that alcoholism both causes and augments pre-existing depression and anxiety [17–19]. The resolution of this issue at a biological and psychosocial level is a high priority for psychiatry as a whole because of the very high population prevalence of these comorbid disorders in most populations. The full understanding of these linkage findings in alcoholism may help us unravel basic aetiological mechanisms and help create new treatment and preventive strategies based on a fuller understanding of genetic and environmental factors involved in comorbidity. It would seem justified to start allelic association studies on chromosome 1 in order to fine map susceptibility genes for patients comorbid for depression, anxiety and alcoholism. A positive finding would gain support from the prior linkage studies of both alcoholism and affective disorders and vice versa. The presence of locus heterogeneity for genetic effects on depression, anxiety and alcoholism will require relatively large case-control studies of alcoholics with adequate clinical assessment to detect alcoholics with and without comorbid disorders.
a) Family Sample
Prior to commencing the study, ethical permission for this research project was obtained from the University College London Medical School Clinical Investigations Panel which has been updated in 2003 with multicentre research ethics committee (MREC) approval. Information stored on computer was registered under the 1984 Data Protection Act.
Caucasian families multiply affected by alcoholism, and suitable for linkage studies, were ascertained with the following selection criteria.
(a) Presence of two or preferably more cases of alcoholism as defined by the RDC.
(b) Large families, preferably with two or more generations willing and able to participate.
(c) Evidence of unilineal inheritance of alcoholism in the parental generation, which meant that families were excluded where both parents were affected.
(d) Willingness of as many family members as possible, especially affected individuals, to participate in the research project. The families were identified from hospital records, clinicians, advertisements in the media and other contacts . The families were all white Caucasian in origin. The subjects were diagnosed using the following interview schedules: the Schedule for Affective Disorders and Schizophrenia – Lifetime version (SADS-L) which provides an RDC diagnosis of alcoholism , a "lifetime modification" of sections 1 and 3 of the Clinical Alcoholism Interview schedule , the Lifetime Drinking History  and a lifetime modification of the Severity of Alcohol Dependence Questionnaire (SADQ) . Heavy Drinking (HD) was defined as drinking in excess of the Royal College of Psychiatrists recommendations, i.e. more than 14 units per week for females or 21 units per week for males, for over one month (Royal College of Psychiatrists, 1986). Diagnoses were made at three levels and these were employed in the linkage analyses in a hierarchical manner. All subjects fulfilling criteria for the Alcohol Dependence Syndrome (ADS) also fulfilled the criteria for RDC alcoholism (RDCA) and HD. All subjects meeting criteria for RDCA by definition also met the criteria for HD. Individuals who were drinking regularly below these limits, or who drank infrequently, were classified as social drinkers (SD), these individuals were considered as unaffected in the linkage analyses. Subjects who had never drunk alcohol, or had only one or two drinks in a lifetime, were considered to be lifelong abstainers (TT) and were also considered as unaffected. In order to check the RDCA, HD, SD and TT assessments, the interview schedules were examined by two independent psychiatrists. Where discrepancies arose between two raters, a consensus diagnosis was reached by process of joint discussion and consideration of the data.
b) Laboratory procedures
Fifty nanograms of total genomic DNA was extracted from venous blood samples and amplified by Polymerase Chain Reaction (PCR) with oligonucleotide primers using standard methodology . Short Tandem Repeat markers from the Research Genetics Set 9 genome screening panel and key markers from the COGA study were typed. A M13 tail was added to one of the oligonucleotide primers which was used to hybridise with a complementary oligonucleotide pre-labelled with infra red dyes that fluoresce at either 700 or 800 nm. The resulting images from argon laser scanning allow a highly detailed visualisation of genetic polymorphisms . Gel electrophoresis and pattern visualization was performed using LI-COR Model 4200 automated fluorescent DNA sequencers .
Marker location and type of polymorphism http://www.ensembl.org
Genotypes were read blind to diagnostic information. Tests for Mendelian inheritance of marker data were performed and inconsistent genotypes were repeated or omitted.
c) Linkage analysis
The linkage analysis was performed using the classical lod score method and using likelihood-based model-free analysis carried out with the MFLINK program . For lod score analyses, the programs MLINK and LINKMAP were used from the FASTLINK package . Three affection models were used: ADS, RDCA and HD. Each affection model was analysed assuming dominant transmission, recessive transmission and using the model-free method. For dominant models the frequency of the abnormal allele was set to 0.02 and for recessive models to 0.2. The penetrance for normal and abnormal genotypes respectively were set to 0.02 and 0.5 for ADS, to 0.04 and 0.7 for RDCA and to 0.2 and 0.9 for HD. These penetrance values were chosen to produce models approximately consistent with prevalence data from previous epidemiological research of 0.04, 0.06 and 0.2 for ADS, RDCA and HD respectively [28, 29]. Two-point and three-point analysis was carried out for all affection definitions and transmission models. Classical linkage analysis was carried out under the assumption that locus heterogeneity might be present, yielding an HLOD statistic.
We are grateful to Prof. G. Edwards, Dr N. Gunaratna and Dr. GK Shaw for assistance in identifying families. The research has been funded by the University of London, the Brewer's Society, the Wellcome Trust (Senior Fellowship in Clinical Science to HMDG), the UK Medical Research Council, the Clinical Research and Development Committee of University College London Medical School, and the Sir Samuel Scott of Yew's Trust.
- Helzer JE, Canino GJ, Yeh EK, Bland RC, Lee CK, Hwu HG, Newman S: Alcoholism – North America and Asia. A comparison of population surveys with the Diagnostic Interview Schedule. Arch Gen Psychiatry. 1990, 47: 313-319.View ArticlePubMedGoogle Scholar
- Cook CC, Gurling HMD: Genetic predisposition to alcohol dependence and problems In: Section IV: Antecedents of Drinking, Alcohol Problems and dependence (Ed Heather, N). Handbook of Alcohol Dependence and Related Problems. Edited by: Heather N, Peters TJ, Stockwell TR. 2001, 257-279.Google Scholar
- Goate AM, Edenberg HJ: The genetics of alcoholism. Curr Opin Genet Dev. 1998, 8: 282-286. 10.1016/S0959-437X(98)80082-8.View ArticlePubMedGoogle Scholar
- Gurling HMD, Cook CCH: The genetic predisposition to alcohol dependence. Current Opinion in Psychiatry. 1999, 12: 269-275. 10.1097/00001504-199905000-00002.View ArticleGoogle Scholar
- Long JC, Knowler WC, Hanson RL, Robin RW, Urbanek M, Moore E, Bennett PH, Goldman D: Evidence for genetic linkage to alcohol dependence on chromosomes 4 and 11 from an autosome-wide scan in an American Indian population. Am J Med Genet. 1998, 81: 216-221. 10.1002/(SICI)1096-8628(19980508)81:3<216::AID-AJMG2>3.0.CO;2-U.View ArticlePubMedGoogle Scholar
- Reich T, Edenberg HJ, Goate A, Williams JT, Rice JP, Van Eerdewegh P, Foroud T, Hesselbrock V, Schuckit MA, Bucholz K, Porjesz B, Li TK, Conneally PM, Nurnberger JI, Tischfield JA, Crowe RR, Cloninger CR, Wu W, Shears S, Carr K, Crose C, Willig C, Begleiter H: Genome-wide search for genes affecting the risk for alcohol dependence. Am J Med Genet. 1998, 81: 207-215.View ArticlePubMedGoogle Scholar
- Foroud T, Edenberg HJ, Goate A, Rice J, Flury L, Koller DL, Bierut LJ, Conneally PM, Nurnberger JI, Bucholz KK, Li TK, Hesselbrock V, Crowe R, Schuckit M, Porjesz B, Begleiter H, Reich T: Alcoholism susceptibility loci: confirmation studies in a replicate sample and further mapping. Alcohol Clin Exp Res. 2000, 24: 933-945. 10.1097/00000374-200007000-00001.View ArticlePubMedGoogle Scholar
- Nurnberger JI, Foroud T, Flury L, Su J, Meyer ET, Hu K, Crowe R, Edenberg H, Goate A, Bierut L, Reich T, Schuckit M, Reich W: Evidence for a locus on chromosome 1 that influences vulnerability to alcoholism and affective disorder. Am J Psychiatry. 2001, 158: 718-724. 10.1176/appi.ajp.158.5.718.View ArticlePubMedGoogle Scholar
- Schuckit MA, Smith TL: The clinical course of alcohol dependence associated with a low level of response to alcohol. Addiction. 2001, 96: 903-910. 10.1046/j.1360-0443.2001.96690311.x.View ArticlePubMedGoogle Scholar
- Dick DM, Nurnberger J, Edenberg HJ, Goate A, Crowe R, Rice J, Bucholz KK, Kramer J, Schuckit MA, Smith TL, Porjesz B, Begleiter H, Hesselbrock V, Foroud T: Suggestive linkage on chromosome 1 for a quantitative alcohol-related phenotype. Alcohol Clin Exp Res. 2002, 26: 1453-1460.View ArticlePubMedGoogle Scholar
- Buck KJ, Rademacher BS, Metten P, Crabbe JC: Mapping murine loci for physical dependence on ethanol. Psychopharmacology (Berl). 2002, 160: 398-407. 10.1007/s00213-001-0988-8.View ArticleGoogle Scholar
- Cook CCH, Hope L, Gurling H: Ascertainment of families for a linkage study of alcoholism. Addiction Biology. 2000, 5: 187-194. 10.1080/13556210050003784.View ArticlePubMedGoogle Scholar
- Stockwell T, Murphy D, Hodgson R: The severity of alcohol dependence questionnaire: its use, reliability and validity. Br J Addict. 1983, 78: 145-155.View ArticlePubMedGoogle Scholar
- Wyszynski DFPC, Ma Q, Yip AG, Wilcox M, Erlich P, Farrer LA: Genome-wide screen for heavy alcohol consumption. BMC Genet. 2003, 31 (4 Suppl 1): S106-10.1186/1471-2156-4-S1-S106.View ArticleGoogle Scholar
- Curtis D, Zhao JH, Sham PC: Comparison of GENEHUNTER and MFLINK for analysis of COGA linkage data. Genet Epidemiol. 1999, 17 (Suppl 1): S115-120.View ArticlePubMedGoogle Scholar
- Fullerton J, Cubin M, Tiwari H, Wang C, Bomhra A, Davidson S, Miller S, Fairburn C, Goodwin G, Neale MC, Fiddy S, Mott R, Allison DB, Flint J: Linkage analysis of extremely discordant and concordant sibling pairs identifies quantitative-trait loci that influence variation in the human personality trait neuroticism. Am J Hum Genet. 2003, 72: 879-890. 10.1086/374178.PubMed CentralView ArticlePubMedGoogle Scholar
- Gurling HM, Oppenheim BE, Murray RM: Depression, criminality and psychopathology associated with alcoholism: evidence from a twin study. Acta Genet Med Gemellol Roma. 1984, 33: 333-339.PubMedGoogle Scholar
- Mullan MJ, Gurling HM, Oppenheim BE, Murray RM: The relationship between alcoholism and neurosis: evidence from a twin study. Br J Psychiatry. 1986, 148: 435-441.View ArticlePubMedGoogle Scholar
- Merikangas KR, Risch NJ, Weissman MM: Comorbidity and co-transmission of alcoholism, anxiety and depression. Psychol Med. 1994, 24: 69-80.View ArticlePubMedGoogle Scholar
- Spitzer R, Endicott J: The Schedule for Affective Disorders and Schizophrenia, Lifetime Version, 3rd edition. Book The Schedule for Affective Disorders and Schizophrenia, Lifetime Version (Editor ed.^eds.). 1977, City: New York State Psychiatric Institute, 3Google Scholar
- Edwards G, Gross MM: Alcohol dependence: provisional description of a clinical syndrome. Br Med J. 1976, 1: 1058-1061.PubMed CentralView ArticlePubMedGoogle Scholar
- Skinner HA, Sheu WJ: Reliability of alcohol use indices. The Lifetime Drinking History and the MAST. J Stud Alcohol. 1982, 43: 1157-1170.View ArticlePubMedGoogle Scholar
- Litt M, Luty JA: A hypervariable microsatellite revealed by in vitro amplification of a dinucleotide repeat within the cardiac muscle actin gene. Am J Hum Genet. 1989, 44: 397-401.PubMed CentralPubMedGoogle Scholar
- Oetting WS, Lee HK, Flanders DJ, Wiesner GL, Sellers TA, King RA: Linkage analysis with multiplexed short tandem repeat polymorphisms using infrared fluorescence and M13 tailed primers. Genomics. 1995, 30: 450-458. 10.1006/geno.1995.1264.View ArticlePubMedGoogle Scholar
- Middendorf LR, Bruce JC, Bruce RC, Eckles RD, Grone DL, Roemer SC, Sloniker GD, Steffens DL, Sutter SL, Brumbaugh JA, et al: Continuous, on-line DNA sequencing using a versatile infrared laser scanner/electrophoresis apparatus. Electrophoresis. 1992, 13: 487-494.View ArticlePubMedGoogle Scholar
- Curtis D, Sham PC: Model-free linkage analysis using likelihoods. Am J Hum Genet. 1995, 57: 703-716.PubMed CentralPubMedGoogle Scholar
- Schaffer AA: Faster linkage analysis computations for pedigrees with loops or unused alleles. Hum Hered. 1996, 46: 226-235.View ArticlePubMedGoogle Scholar
- Grant BF: Prevalence and correlates of alcohol use and DSM-IV alcohol dependence in the United States: results of the National Longitudinal Alcohol Epidemiologic Survey. J Stud Alcohol. 1997, 58: 464-473.View ArticlePubMedGoogle Scholar
- Colhoun H, Ben-Shlomo Y, Dong W, Bost L, Marmot M: Ecological analysis of collectivity of alcohol consumption in England: importance of average drinker. Bmj. 1997, 314: 1164-1168.PubMed CentralView ArticlePubMedGoogle Scholar
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