Search for intracranial aneurysm susceptibility gene(s) using Finnish families

Background Cerebrovascular disease is the third leading cause of death in the United States, and about one-fourth of cerebrovascular deaths are attributed to ruptured intracranial aneurysms (IA). Epidemiological evidence suggests that IAs cluster in families, and are therefore probably genetic. Identification of individuals at risk for developing IAs by genetic tests will allow concentration of diagnostic imaging on high-risk individuals. We used model-free linkage analysis based on allele sharing with a two-stage design for a genome-wide scan to identify chromosomal regions that may harbor IA loci. Methods We previously estimated sibling relative risk in the Finnish population at between 9 and 16, and proceeded with a genome-wide scan for loci predisposing to IA. In 85 Finnish families with two or more affected members, 48 affected sibling pairs (ASPs) were available for our genetic study. Power calculations indicated that 48 ASPs were adequate to identify chromosomal regions likely to harbor predisposing genes and that a liberal stage I lod score threshold of 0.8 provided a reasonable balance between detection of false positive regions and failure to detect real loci with moderate effect. Results Seven chromosomal regions exceeded the stage I lod score threshold of 0.8 and five exceeded 1.0. The most significant region, on chromosome 19q, had a maximum multipoint lod score (MLS) of 2.6. Conclusions Our study provides evidence for the locations of genes predisposing to IA. Further studies are necessary to elucidate the genes and their role in the pathophysiology of IA, and to design genetic tests.


Background
In spite of advances in surgical and pharmacological treatment, about half of the aneurysmal subarachnoid hemorrhage (SAH) patients die and many who survive need rehabilitation to maintain independence, causing significant economic losses to medical and social care. About 90% of SAH cases are caused by a ruptured IA [1]. Per-case mortality for ruptured IAs is about 30 to 50% and morbidity about 66% as opposed to about 2% mortality and 4% morbidity for elective surgery of unruptured IAs in asymptomatic low-risk patients [2,3]. Given the marked contrast between the outcomes of elective versus emergency surgery, the goal has to be identification and treatment of IAs prior to rupture.
There is substantial debate regarding the cost-benefit ratio of population screening [4][5][6][7][8]. Restricting screening to those individuals at high risk both for developing IA and for rupture would improve the cost-benefit ratio. Characterization of environmental and genetic risk factors would allow not only reduction of risk through behavior modification, but also significantly improve detection. Additionally, some environmental and genetic risk factors may be amenable to pharmacological intervention. Simple tests for genetic risk factors would permit the identification of individuals at high risk for development and rupture of aneurysms, consequently allowing diagnostic effort to be concentrated on a smaller group that is at higher risk.
Currently, several risk factors have been identified including cigarette smoking, arterial hypertension, gender, aging, atherosclerosis and heavy alcohol consumption [9][10][11][12]. Initial indications of a genetic component were based on collections of case reports that suggested that IAs are associated with some rare simple Mendelian disorders, e.g. autosomal dominant polycystic kidney disease, Ehlers Danlos syndrome type IV and the Marfan syndrome [13]. More recent systematic prevalence estimates indicate either absence of association or markedly reduced prevalence of IA among patients with rare simple Mendelian disorders [14,15]. Also, genetic analyses of genes known to cause some simple Mendelian disorders have proven negative for collections of patients with IA [16,17]. The familial occurrence of IAs not associated with known simple Mendelian disorders was first noted in 1942 [18] and, since then, nearly one hundred case reports and review articles have been published. Population-based studies of SAH probands show that 7 to 10% have a family history of IA, a higher percentage than previously appreciated [1,19,20]. These familial IA (FIA) families have no signs of any other simple Mendelian disorders predisposing to IA, supporting the possibility that some or all IAs have a genetic component, and that FIA is a genetic disease separate and apart from previously defined diseases. The inheritance patterns of FIA have not been determined, partly be-cause IA is a late age-at-onset disease and partly because it is likely to be a multifactorial disease for which simple Mendelian models will not fit well [1,[21][22][23].

Study subjects
Eighty-five families with at least two members with ruptured or unruptured IA and no family history of polycystic kidney disease were ascertained from a sampling frame of 1150 consecutive patients treated between 1977 and 1990 for aneurysmal SAH by the Department of Neurosurgery at the University Hospital of Kuopio, which serves a genetically homogenous population of 870,000 in eastern Finland [1]. Initially, family history was assessed by a short questionnaire and all putative cases were confirmed from medical and autopsy records. Due to the high mortality of IA and lack of pre-rupture symptoms, surviving relatives with known IA were rare. We therefore used magnetic resonance angiography to screen 264 siblings over the age of 30 of the IA probands [1]. Positive magnetic resonance angiography findings were then confirmed using digital subtraction angiography. Upper-abdominal ultrasonography was performed on all screened individuals and confirmed that none of these individuals had evidence of polycystic kidney disease. In this manner, we detected 30 siblings with asymptomatic IA, giving a total of 49 affected sib pairs from 25 sibships (22 extended families; families 10, 21 and 29 had two sibships each; Figure 1 and Table 1). One non-sib pair was detected in one of the sibships in family 21 (see Statistical analyses below; Figure 1) and eliminated from the analyses, leaving 48 ASPs for the genome scan. The ASPs were comprised of 26 males and 34 females. Blood samples were obtained from affected family members, unaffected siblings, and parents, where possible. Due to the late age at onset, parents were available in only a few of the families. All family records were confirmed through registries kept by the Evangelical Lutheran Church of Finland.
The study protocol was reviewed and approved by the Institutional Review Boards of both the University Hospital of Kuopio and Wayne State University.

Study design
Whole-genome scans are labor-intensive and costly since each individual in the study must be genotyped for all markers. Reduction of the number of samples genotyped, or the number of markers, or both, has been shown to be efficient [24][25][26][27][28]. We used a two-stage design. In stage 1, samples are genotyped at low density and subsequently at higher density in stage 2, thereby reducing the overall number of markers genotyped. Stage 1 data were analysed using a liberal α Ϸ 0.05 (lod = 0.8). Regions exceeding the threshold were genotyped in stage 2.
Power was computed assuming a two-stage design, 49 ASPs, and a map density of 15 cM. For stage I alone, we had at least 96% power to detect "significant linkage" (lod score of 3.6) [29] to a locus with a locus-specific relative risk to siblings of 8 and at least 90% power to detect "suggestive linkage" to a locus with a locus-specific relative risk of 4.

DNA isolation and pre-amplification
Blood was collected into EDTA-containing tubes. Genomic DNA was isolated either by an automated procedure (Genepure DNA extractor, Applied Biosystems, Inc., Foster City, CA) or manually (Puregene DNA isolation kit, Gentra Systems, Inc., Minneapolis, MN). Genotyping was performed using genomic DNA, either untreated or amplified linearly using primer-extension preamplification [30,31]. Approximately 0.5 µg genomic DNA was used for preamplification with an N 15 -primer [30,31]. The result-ing preamplified DNA was then used as a template in marker PCRs with specific primers.

Genotyping
Most of the initial genotyping was performed by the National Heart Lung and Blood Institute Mammalian Genotyping Service at the Marshfield Research Foundation using the 10 cM Weber version 8 screening set [32]. Primer pairs for additional markers were obtained from Research Genetics, Inc. (Huntsville, AL). For the additional genotyping, PCRs were carried out with one of the primers radioactively labeled. PCRs were set up using a laboratory workstation (Biomek 1000; Beckman, Palo Alto, CA) and performed in PEC 9600 thermal cyclers (Perkin Elmer Cetus, Foster City, CA). The alleles were scored visually from autoradiographs and entered into an Oracle database (Oracle Corp., Redwood Shores, CA). Population frequencies for each marker were estimated from a sample of 20 to 24 unrelated Finnish subjects.

Statistical analyses
A Markov-process-based test of genetic relationship [33] using all the marker data across the genome was used on each nuclear family to confirm the sib-pair relationship; one non-sib pair was detected in one of the sibships in family 21 ( Figure. 1) and eliminated from the analyses. The results were consequently derived from 24 sibships (Figure 1).
The genotype data were analyzed for genetic linkage with both single-marker and multipoint model-free ASP lod score analysis [34] using the computer program MAP-MAKER/SIBS [35].

Genome-wide linkage analysis
We performed stage I of a two-stage genome scan using the 48 Finnish ASPs. Due to the genetic homogeneity of the Finnish population [36][37][38][39][40] the probability of identifying genetic risk factors in a complex disease such as FIA may be substantially improved [37,38,40]. In the first stage a 10 cM genome scan was performed using the Weber screening set 8 [32] and the data analyzed using both two-point and multipoint ASP linkage analysis. Seven regions on chromosomes 4, 6, 7p, 7q, 14, 19, and X, with multipoint lod scores exceeding 0.8 (pointwise P-value Ϸ 0.05) were identified ( Table 2). Two regions had MLSs exceeding 2.0 (2.58 on chromosome 19; 2.08 on chromosome X). Two-point lod scores exceeded 1.0 for two adjacent markers in each of these regions, ruling out substantial genotyping error in one marker as the cause of the high lod scores. Three additional regions with multipoint lod scores exceeding 0.8 (chromosomes 4, 6, and 7q) also had substantial two-point lod scores at more than one marker. For two regions (7p and 14q), however, only one marker had a high two-point lod score. In both cases, the significant marker was either the first or the last marker typed on the chromosome. Following conventional guidelines, we considered an MLS of 3.6 or greater to be "significant linkage" and an MLS of 2.2 to be "suggestive linkage" [29].
In stage 2, we genotyped additional markers in the seven regions identified in stage 1. Four additional markers flanking D7S1819 on 7p and nine additional markers flanking D14S1434 on 14q were typed and the resulting maximum MLSs were 0.28 (7p) and 0.80 (14q), indicating that the previous linkage signals were likely due to the increased statistical variability commonly seen in the multipoint signal at the most extreme markers. We therefore eliminated regions 7p and 14q from further consideration. Additional markers were typed in the two regions on chromosome 19 and X with maximum MLSs exceeding 2.0. A multipoint plot for the chromosome 19 is shown in Figure 2; the maximum MLS was 2.58 at D19S245 -D19S246. The maximum MLS for chromosome X decreased from 2.08 at DXS987 to 1.33 at DXS1226, (about 10 cM centromeric from DXS987). The MLS for the region on chromosome X decreased considerably with the addition of several new markers and consequent improvement in the accuracy of the multipoint allele-sharing estimates, which were clearly overestimated when only the initial scan markers were included in the analysis. All the evidence for linkage in this region was due to 8 brother-brother pairs; the 16 sister-sister pairs and the 25 brother-sister pairs gave maximum MLSs close to zero in this region.

Discussion
The relatively high prevalence of IAs and aneurysmal SAH place the disease in the group of moderately common disorders. Consequently, it shares some of the features that make common disorders complex with respect to genetic analysis. These include: low sibling relative risks due to

Figure 2
Chromosome 19 multipoint lod score versus genetic distance (cM). Also indicated below the cM scale are the polymorphic markers. the high population prevalence; presence of multiple genetic loci, each contributing a small portion of the sibling relative risk; incomplete penetrance of genetic loci; environmental risk factors; late age at onset; and phenocopies, i.e. disease due to purely environmental factors. Additional complexity for genetic analysis arises due to diagnostic uncertainty. Several measures were taken to increase the probability of success. We used robust, model-free, allelesharing genetic analyses to address the complexity, we studied a relatively genetically homogenous population, and we verified that all putative IAs were saccular [1,20,[41][42][43]. It is expected that a genetically homogeneous population, particularly one with a recent population bottleneck [37,38], segregates for fewer disease loci thereby allowing a smaller sample size to be informative. Additionally, our study design was cost-effective, two-stage design with 48 ASPs. We are collecting an additional 150 ASPs for further study.
The most promising locus with a maximum MLS of 2.6 was on chromosome 19. The peak is located approximately in 19q12-13, a gene-rich region containing a number of loci related to cerebrovascular, cardiovascular and membrane physiology and pathobiology.  [50]. Mutations in the P/Q-type Ca(2+)-channel alpha 1A-subunit gene on 19q12 cause familial hemiplegic migraine, episodic ataxia type 2, and spinocerebellar ataxia type 6 (MIM 141500) [51,52].
It is noteworthy that none of the regions in which we found some evidence for linkage, either tentative or suggestive, are similar to the regions detected in another recent genome-wide scan for IA susceptibility genes [53]. Although our study found evidence for a region with tentative linkage on chromosome 7q, the region identified in this study is near the telomere and does not overlap with the region of suggestive linkage near the centromere on 7q identified in Onda et al. [53]. The populations that were studied are distinct, Finns as compared to Japanese; however, both samples were small and it is therefore possible that there may yet be some overlap in genetic predisposition.

Conclusions
We detected two regions of suggestive linkage, one on chromosome 19 and the other on the X chromosome in a sample of Finnish ASPs. Although we initially detected regions of tentative linkage on chromosomes 4, 6, 7p, 7q and 14, the regions on 7p and 14 were excluded upon additional genotyping. None of the regions detected in this study overlap with the regions detected in a sample of Japanese ASPs [53].

Competing interests
None declared.

Authors' contributions
Author 1 (JMO) participated in the study design and directed the statistical genetic analyses and provided substantial input to the manuscript. Author 2 (SV) performed most of the higher resolution genotyping. Author 3 (HK) participated in the study design and implementation, participated in DNA isolation and performed most of the primer-extension pre-amplification reactions. Author 4 (AR) participated in the design of the family collection, and contacted and collected the family information. Au- thor 5 (JH) conceived of the family data collection and supervised AR. Author 6 (MR) coordinated the collection of blood specimens. Author 7 (L-LK) performed the statistical analyses under the supervision of JMO. Author 8 (GT) participated in the study design and coordination, DNA isolation, genotyping, drafting the manuscript, and obtained funding for the study.
All authors read and approved the final manuscript.