| Literature DB >> 19347049 |
Bao Jian Fan1, Dan Yi Wang, Ching-Yu Cheng, Wendy Charles Ko, Shun Chiu Lam, Chi Pui Pang.
Abstract
PURPOSE: To determine the distribution of WD repeat domain 36 (WDR36) sequence variants in Chinese patients with primary open-angle glaucoma (POAG).Entities:
Mesh:
Substances:
Year: 2009 PMID: 19347049 PMCID: PMC2664842
Source DB: PubMed Journal: Mol Vis ISSN: 1090-0535 Impact factor: 2.367
Demographic and clinical features of the study subjects.
| POAG | 135 | 110/25 | 16–85 | 61.0±15.0 | 13–77 | 24.0±8.0 | 0.70–1.00 | 0.80±0.09 |
| HTG | 82 | 67/15 | 35–83 | 63.0±11.3 | 22–45 | 25.7±5.6 | 0.70–1.00 | 0.81±0.10 |
| NTG | 42 | 33/9 | 38–85 | 66.7±10.1 | 13–21 | 17.9±2.3 | 0.70–0.95 | 0.84±0.07 |
| JOAG | 11 | 10/1 | 16–34 | 26.5±6.3 | 24–77 | 32.5±7.8 | 0.70–1.00 | 0.80±0.09 |
| Controls | 77 | 58/19 | 52–86 | 72.0±8.5 | 8–21 | 16.0±3.0 | 0.20–0.50 | 0.40±0.07 |
For controls, age at diagnosis refers to age at inclusion.
WDR36 sequence variants observed in 135 POAG patients and 77 control subjects.
| Nonsynonymous variant | |||||||||||
| Exon 6 | c.718C>G | L240V | Novel | 0 (0.0) | 0 (0.0) | 0 (0.0) | 1 (0.6) | 0/0/82 | 0/0/42 | 0/0/11 | 0/1/76 |
| Exon 7 | c.790A>G | I264V | 37 (22.6) | 16 (19.0) | 6 (27.3) | 36 (23.4) | 4/29/49 | 2/12/28 | 0/6/5 | 3/30/44 | |
| 0 (0.0) | 0 (0.0) | 0 (0.0) | 0/0/42 | 0/0/11 | 0/0/77 | ||||||
| Synonymous variant | |||||||||||
| Exon 4 | c.540T>A | T180T | Novel | 1 (0.6) | 0 (0.0) | 0 (0.0) | 0 (0.0) | 0/1/81 | 0/0/42 | 0/0/11 | 0/0/77 |
| Exon 18 | c.2142C>G | V714V | 16 (9.8) | 9 (10.7) | 1 (4.5) | 9 (5.8) | 0/16/66 | 0/9/33 | 0/1/10 | 0/9/68 | |
| Exon 19 | c.2181A>T | V727V | 30 (18.3) | 15 (17.9) | 6 (27.3) | 33 (21.4) | 4/22/56 | 2/11/29 | 0/6/5 | 2/29/46 | |
| Intronic variant | |||||||||||
| Intron 3 | IVS3–113G>A | - | 49 (29.9) | 19 (22.6) | 6 (27.3) | 41 (26.6) | 9/31/42 | 4/11/27 | 1/4/6 | 5/31/41 | |
| 5 (6.0) | 2 (9.1) | 2 (1.3) | 2/1/39 | 0/2/9 | 0/2/75 | ||||||
| Intron 8 | IVS8+38A>G | - | Novel | 0 (0.0) | 0 (0.0) | 0 (0.0) | 1 (0.6) | 0/0/82 | 0/0/42 | 0/0/11 | 0/1/76 |
| Intron 8 | IVS8+45C>G | - | Novel | 0 (0.0) | 1 (1.2) | 0 (0.0) | 0 (0.0) | 0/0/82 | 0/1/41 | 0/0/11 | 0/0/77 |
| Intron 9 | IVS9–81T>C | - | No SNP ID | 6 (3.7) | 4 (4.8) | 1 (4.5) | 9 (5.8) | 0/6/76 | 0/4/38 | 0/1/10 | 1/7/69 |
| Intron 13 | IVS13+89G>A | - | 31 (18.9) | 19 (22.6) | 5 (22.7) | 28 (18.2) | 4/23/55 | 5/9/28 | 0/5/6 | 3/22/52 | |
| Intron 14 | IVS14+89C>A | - | 62 (37.8) | 23 (27.4) | 7 (31.8) | 42 (27.3) | 15/32/35 | 2/19/21 | 1/5/5 | 9/24/44 | |
| Intron 16 | IVS16–30A>G | - | 40 (24.4) | 17 (20.2) | 3 (13.6) | 33 (21.4) | 7/26/49 | 2/13/27 | 0/3/8 | 3/27/47 | |
| Intron 17 | IVS17+32T>G | - | Novel | 0 (0.0) | 1 (1.2) | 0 (0.0) | 0 (0.0) | 0/0/82 | 0/1/41 | 0/0/11 | 0/0/77 |
| Intron 17 | IVS17+59A>C | - | Novel | 0 (0.0) | 0 (0.0) | 0 (0.0) | 1 (0.6) | 0/0/82 | 0/0/42 | 0/0/11 | 0/1/76 |
| Intron 18 | IVS18+216C>T | - | 16 (9.8) | 9 (10.7) | 1 (4.5) | 14 (9.1) | 0/16/66 | 0/9/33 | 0/1/10 | 0/14/63 | |
| Intron 18 | IVS18–10T>A | - | Novel | 1 (0.6) | 0 (0.0) | 0 (0.0) | 0 (0.0) | 0/1/81 | 0/0/42 | 0/0/11 | 0/0/77 |
| Intron 21 | IVS21+60G>C | - | 19 (11.6) | 9 (10.7) | 1 (4.5) | 9 (5.8) | 0/19/63 | 0/9/33 | 0/1/10 | 0/9/68 | |
One disease-causing mutation, I713V, was found in three patients with HTG (3.7%) and was absent in patients with NTG or JOAG and in controls. The minor allele T of IVS5+30C>T (rs10038177) was found in a significantly higher frequency in HTG patients than in controls (p=7.9×10−7, Bonferroni corrected p=1.5×10−5; OR=15.0, 95% CI: 3.50, 64.2). The allele T carriers (genotypes TT/CT) had an increased HTG risk (p=2.3×10−5; OR=12.9, 95% CI: 2.91, 57.2) compared to non-allele T carriers (genotype CC). None of the other SNPs of WDR36 was found to be associated with HTG, NTG, or JOAG (p>0.05).
Haplotype analysis of WDR36 in 82 HTG patients and 77 control subjects.
| Block 1: | ||||
| GCA | 57.7 | 67.3 | 0.07 | 0.66 (0.42, 1.05) |
| ACG | 12.3 | 17.5 | 0.20 | 0.66 (0.35, 1.23) |
| ACA | 8.1 | 8.0 | 0.98 | 1.02 (0.45, 2.28) |
| GCG | 5.8 | 5.9 | 0.97 | 0.98 (0.38, 2.50) |
| ATA | 5.5 | 1.2 | 0.03 | 4.41 (0.94, 20.8) |
| ATG | 4.0 | 0.0 | 0.01 | 13.9 (0.78, 247) |
| Block 2: | ||||
| GC | 60.3 | 64.2 | 0.47 | 0.85 (0.54, 1.33) |
| GA | 20.8 | 17.6 | 0.47 | 1.23 (0.70, 2.16) |
| AA | 17.0 | 9.6 | 0.05 | 1.91 (0.98, 3.73) |
| AC | 1.9 | 8.6 | 0.008 | 0.20 (0.06, 0.72) |
| Block 3: | ||||
| ACCAG | 48.3 | 63.8 | 0.007 | 0.53 (0.34, 0.83) |
| GCCAG | 15.9 | 13.4 | 0.55 | 1.19 (0.64, 2.22) |
| ACCTG | 12.5 | 13.1 | 0.87 | 0.96 (0.50, 1.85) |
| AGCAG | 6.7 | 0.6 | 0.006 | 11.0 (1.40, 86.3) |
| GCCTG | 1.7 | 6.0 | 0.05 | 0.30 (0.08, 1.13) |
| GCTAG | 5.5 | 1.2 | 0.04 | 4.41 (0.94, 20.8) |
| ACCTC | 4.6 | 0.6 | 0.03 | 7.33 (0.90, 59.8) |
| ACTAG | 1.7 | 1.2 | 0.70 | 1.42 (0.23, 8.59) |
| AGCAC | 3.0 | 0.2 | 0.07 | 10.7 (0.58, 194) |
Only haplotypes with overall frequency above 1% were shown. Haplotype GTA was significantly associated with HTG (p=0.002, Bonferroni corrected p=0.013; OR=22.5). The other haplotypes were not significant after Bonferroni correction (Bonferroni corrected p>0.05).