Exp Mol Med.
2013 Oct;45(10):e49.
Targeted resequencing of candidate genes reveals novel variants associated with severe Behcet's uveitis
- Affiliations
-
- 1Department of Ophthalmology, Seoul National University College of Medicine, Seoul, South Korea. hgonyu@snu.ac.kr
- 2Department of Ophthalmology, Samsung Medical Center, Sungkyunkwan University School of Medicine, Seoul, South Korea.
- 3Genomic Medicine Institute (GMI), Medical Research Center, Seoul National University, Seoul, South Korea. jongil@snu.ac.kr
- 4Department of Biomedical Sciences, Seoul National University Graduate School, Seoul, South Korea.
- 5Department of Biochemistry and Molecular Biology, Seoul National University College of Medicine, Seoul, South Korea.
- 6Macrogen, Seoul, South Korea.
- 7Psoma Therapeutics, Seoul, South Korea.
Abstract
- Behcet's disease (BD) is a chronic systemic inflammatory disorder characterized by four major manifestations: recurrent uveitis, oral and genital ulcers and skin lesions. To identify some pathogenic variants associated with severe Behcet's uveitis, we used targeted and massively parallel sequencing methods to explore the genetic diversity of target regions. A solution-based target enrichment kit was designed to capture whole-exonic regions of 132 candidate genes. Using a multiplexing strategy, 32 samples from patients with a severe type of Behcet's uveitis were sequenced with a Genome Analyzer IIx. We compared the frequency of each variant with that of 59 normal Korean controls, and selected five rare and eight common single-nucleotide variants as the candidates for a replication study. The selected variants were genotyped in 61 cases and 320 controls and, as a result, two rare and seven common variants showed significant associations with severe Behcet's uveitis (P<0.05). Some of these, including rs199955684 in KIR3DL3, rs1801133 in MTHFR, rs1051790 in MICA and rs1051456 in KIR2DL4, were predicted to be damaging by either the PolyPhen-2 or SIFT prediction program. Variants on FCGR3A (rs396991) and ICAM1 (rs5498) have been previously reported as susceptibility loci of this disease, and those on IFNAR1, MTFHR and MICA also replicated the previous reports at the gene level. The KIR3DL3 and KIR2DL4 genes are novel susceptibility genes that have not been reported in association with BD. In conclusion, this study showed that target enrichment and next-generation sequencing technologies can provide valuable information on the genetic predisposition for Behcet's uveitis.
MeSH Terms
-
Adult
Aged
Behcet Syndrome/*genetics
Case-Control Studies
Female
Histocompatibility Antigens Class I/genetics
Humans
Intercellular Adhesion Molecule-1/genetics
Interferon-alpha/genetics
Male
Middle Aged
*Polymorphism, Single Nucleotide
Receptors, IgG/genetics
Receptors, KIR/genetics
Receptors, KIR2DL4/genetics
Histocompatibility Antigens Class I
Interferon-alpha
Receptors, IgG
Receptors, KIR
Receptors, KIR2DL4
Intercellular Adhesion Molecule-1
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