Founder effect in spinal and bulbar muscular atrophy (SBMA)
Founder effect in spinal and bulbar muscular atrophy (SBMA)Fumiaki Tanaka1, Manabu Doyu1, Yasuhiro Ito1, Michiyo Matsumoto1,2, Terunori Mitsuma2, Koji Abe3, Masashi Aoki3, Yasuto Itoyama3, Kenneth H. Fischbeck4 and Gen Sobue1,*
1Department of Neurology, Nagoya University School of Medicine, 65 Tsurumai-cho, Showa-ku, Nagoya 466, Japan, 2Division of Neurology, Fourth Department of Internal Medicine, Aichi Medical University, Aichi 480-11, Japan, 3Department of Neurology, Tohoku University School of Medicine, Sendai 980, Japan and 4Department of Neurology, University of Pennsylvania School of Medicine, Philadelphia, PA 19104-6146, USA
Received April 4, 1996;Revised and Accepted June 24, 1996
We analyzed the polymorphic (CAG)n and (GGC)n repeats of the androgen receptor gene in 113 unrelated X-linked spinal and bulbar muscular atrophy (SBMA) X chromosomes and 173 control X chromosomes in Japanese males. The control chromosomes had an average CAG repeat number of 21 +- 3 with a range from 14-32 repeat units, and SBMA chromosomes had a range from 40-55 with a median of 47 +- 3 copies. The control chromosomes had seven different alleles of the (GGC)n repeat with the range of 11 to 17; the most frequent size of (GGC)n was 16 (79%), while (GGC)17 was very rare (1%). However, in SBMA chromosomes only two alleles were seen; the most frequent size of (GGC)n was 16 (61%) followed by 17 (39%). (GGC)n size distribution was significantly different between SBMA and control chromosomes (P <0.0001), indicating the presence of linkage disequilibrium. There was no allelic association between the (CAG)n and (GGC)n microsatellites among control subjects as well as SBMA patients, which suggests that a founder effect makes a more significant contribution to generation of Japanese SBMA chromosomes than new mutations.
Several neurogenetic diseases caused by triplet repeat mutations including myotonic dystrophy (DM) (1 ), fragile X syndrome (Fra X) (2 ,3 ), spinocerebellar ataxia type 1 (SCA1) (4 ), Machado-Joseph disease (MJD) (5 ) and Huntington's disease (HD) (6 -9 ), dentatorubral and pallidoluysian atrophy (DRPLA) (10 ) have been reported to be associated with founder chromosomes, based on linkage disequilibrium to flanking polymorphic markers. A recent study has suggested that new mutations occur in a subgroup of unstable high-normal triplet repeat alleles with a particular founder chromosomal haplotype (7 -10 ).
The molecular abnormality of X-linked spinal and bulbar muscular atrophy (SBMA) is expansion of a triplet repeat, (CAG)n, located in the first exon of the androgen receptor (AR) gene (11 ). Another triplet repeat, (GGC)n is located approximately 1.2 kb downstream from (CAG)n in the first exon of the AR gene (12 ).
In order to investigate the origin of the SBMA mutations in the Japanese population, we performed (CAG)n and (GGC)n analysis of the AR gene locus in unrelated SBMA and normal X chromosomes in Japanese males, and found linkage disequilibrium between (GGC)n haplotype and (CAG)n mutation. We further investigated the distribution of (CAG)n repeat sizes in a large cohort of Japanese SBMA patients and controls and analyzed the association between the two microsatellites on the normal and SBMA chromosomes separately.
One hundred and fifty-three Japanese control chromosomes displayed an average CAG repeat number of 21 +- 3 with a range from 14-32 repeat units, 20 repeat units being the most common (Table 1 , Fig. 1 ). The analysis of 113 SBMA chromosomes revealed 15 alleles ranging in size from 40-55 with a median of 47 +- 3 (CAG)n copies (Table 2 , Fig. 1 ).
The range of GGC repeat sizes was from 11-17 repeats in 173 controls, while restricted to 16 and 17 repeats in 92 SBMA chromosomes (Table 1 , 2 ; Figs 2 , 3 ). In both control and SBMA samples, the most frequent allele size of the (GGC)n repeat was 16; 137 (79%) of 173 control chromosomes and 56 (61%) of 92 SBMA chromosomes (Table 1 , 2 ; Fig. 3 ). Although there were (GGC)17 in over one third of SBMA chromosomes (39%), only 1% of control chromosomes exhibited (GGC)17 (Fig. 3 ). Comparing SBMA to all controls, the repeat length distributions were significantly different for GGC ([chi]2 = 81.2, P <0.0001 with d.f. = 6), consistent with linkage disequilibrium (Fig. 3 ).
There was no allelic association between the (CAG)n and (GGC)n microsatellites among control subjects (Kruskal-Wallis test: 6 d.f., P = 0.18) (Table 1 ), although the distribution variance of CAG repeat size with an allele of (GGC)16 was significantly wider than that with (GGC)11-15,17 (F test, F = 0.57, P <0.05) (Table 1 ). There was also no allelic association among SBMA subjects (Mann-Whitney U test: U = 790.5, P = 0.45) (Table 2 ).
Distribution of (CAG)n and (GGC)n in control subjects
(CAG)n/(GGC)n
11
12
13
14
15
16
17
*
Total
14
1
1
15
1
1
16
2
2
17
1
8
9
18
5
5
19
3
12
1
1
17
20
5
1
1
18
1
1
27
21
3
2
17
22
22
2
2
1
1
16
22
23
1
2
10
2
15
24
1
2
11
14
25
3
8
11
26
2
2
27
1
1
2
28
1
1
29
1
1
30
31
32
1
1
**
1
1
22
Total
12
9
4
2
7
137
2
173/153
Absolute numbers of chromosomes for each genotype are indicated.*no available data for GGC repeat size; **no available data for CAG repeat size.No association between the two microsatellites among 149 control subjects (Kruskal-Wallis test: 6 d.f., P = 0.18).Variance of CAG repeat size with an allele of (GGC)16 is wider than that with (GGC)11-15,17 (F test, F = 0.57, P <0.05).
Distribution of (CAG)n and (GGC)n in SBMA subjects
(CAG)n/(GGC)n
16
17
*
Total
40
2
1
3
41
1
1
2
4
42
4
1
5
43
3
4
1
8
44
5
2
7
45
3
2
1
6
46
9
4
3
16
47
12
3
5
20
48
3
4
4
11
49
4
5
3
12
50
2
1
3
6
51
1
4
2
7
52
3
2
5
53
54
2
2
55
1
1
**
6
1
Total
56
36
92/113
Absolute numbers of chromosomes for each genotype are indicated.*no available data for GGC repeat size; **no available data for CAG repeat size.No association between the two microsatellites among 85 SBMA subjects (Mann-Whitney U test: U = 790.5, P = 0.45).
A cohort of 153 Japanese control chromosomes displayed an average CAG repeat number of 21 +- 3 with a range from 14-32 repeat units (Table 1 , Fig. 1 ), which is consistent with a previous report of 39 Asian controls with an average repeat number of 22 +- 3 ranging in size from 15-29 (13 ) and those of 37 Caucasian control population with 16-26 with a median of 22 +- 3 (14 ). The 113 SBMA chromosomes ranging in size from 40-55 with a median of 47 +- 3 (CAG)n copies was also consistent with a previous report of a mixed SBMA population with 47 +- 4 (CAG)n (14 ), although the range of size for Caucasians was somewhat larger (40-62). The expanded CAG repeats of the SBMA AR gene in the present study showed a narrower range of distribution (16 different repeats, 40-55) than the other CAG repeat diseases (35-50 different repeats in HD, SCA1 and DRPLA, except 21-24 repeats in MJD) (15 -17 ). These findings also indicate relative stability of (CAG)n in SBMA, consistent with the relatively narrow meiotic instability (14 ) and relatively narrow instability in somatic tissue mosaicism (18 ) that has been previously reported.
The Japanese control and SBMA subjects were drawn from widely dispersed geographical areas of Japan.
For determining the GGC repeat sizes by polymerase chain reaction (PCR), we used previously described methods (12 ,13 ) with some modifications: the reaction volumes were 10 [mu]l containing ~150 ng of purified genomic DNA, 0.4 [mu]M of each fluorescein-labeled primer flanking the GGC repeat in exon 1 of the AR gene (5'-ACACTCTCTTCACAGCCGA-3') and ( 5'-ACTGGGATAGGGCACT CTGCT-3'), 1 * PCR buffer (50 mM KCl, 10 mM Tris-HCl (pH 8.3), 1.5 mM MgCl2), 200 [mu]M dATP, dCTP and dTTP, 50 [mu]M dGTP, 150 [mu]M 7-deaza dGTP and 0.1 U of Taq polymerase (Takara, Japan). The Taq polymerase was added to the PCR reactions after the genomic DNA had denatured at 95oC for 5 min; PCR conditions were 35 cycles of denaturation at 95oC for 1 min, annealing at 60oC for 1 min, and elongation at 72oC for 1 min, with a final extension of 7 min. The PCR products were analyzed by electrophoresis in 6% HydroLink LongRanger gels (AT Biochem, PA, USA) with an autoread sequencer (ALFred, Pharmacia, Sweden). Their sizes were determined by comparison to M13 DNA dideoxy sequencing ladders. The size of (CAG)n was determined in SBMA subjects and controls as previously described (25 ).
The size of (GGC)n was analyzed for association with the SBMA mutation using a [chi]2 test. In addition, to examine the association between CAG and GGC size, Kruskal-Wallis test was used among controls and Mann-Whitney U test was used among SBMA subjects. The distribution variance of CAG repeat size among controls was analyzed using an F test.
Part of this work was supported by grants from the Ministry of Welfare and Health of Japan, the Uehara Memorial Research Foundation, the Muscular Dystrophy Association and the National Institutes of Health.
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*To whom correspondence should be addressed
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