Abstract
According to recent genome-wide association studies, a number of single nucleotide polymorphisms (SNPs) are reported to be associated with type 2 diabetes mellitus (T2DM). The aim of the present study was to investigate the association among the polymorphisms of SLC30A8, HHEX, CDKN2A/B, IGF2BP2,FTO, WFS1, CDKAL1 and KCNQ1 and the risk of T2DM in the Korean population. This study was based on a multicenter case-control study, including 908 patients with T2DM and 502 non-diabetic controls. We genotyped rs13266634, rs1111875, rs10811661, rs4402960, rs8050136, rs734312, rs7754840 and rs2237892 and measured the body weight, body mass index and fasting plasma glucose in all patients and controls. The strongest association was found in a variant of CDKAL1 [rs7754840, odds ratio (OR) = 1.77, 95% CI = 1.50–2.10, p = 5.0 × 10−11]. The G allele of rs1111875 (OR = 1.43, 95% CI = 1.18–1.72, p = 1.8 × 10−4) in HHEX), the T allele of rs10811661 (OR = 1.47, 95% CI = 1.23–1.75, p = 2.1 × 10−5) in CDKN2A/B) and the C allele of rs2237892 (OR = 1.31, 95% CI = 1.10–1.56, p = 0.003) in KCNQ1 showed significant associations with T2DM. Rs13266634 (OR = 1.19, 95% CI = 1.00–1.42, p = 0.045) in SLC30A8 showed a nominal association with the risk of T2DM, whereas SNPs in IGF2BP2,FTO and WFS1 were not associated. In conclusion, we have shown that SNPs in HHEX, CDKN2A/B, CDKAL1, KCNQ1 and SLC30A8 confer a risk of T2DM in the Korean population.
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Introduction
Type 2 diabetes mellitus (T2DM) is a chronic metabolic disorder characterized by hyperglycemia, variable degrees of insulin resistance, impaired insulin secretion and increased hepatic glucose production. The total global number of people with diabetes was estimated to be over 189 million in the year 2003 (Zimmet et al. 2003) and is expected to rise more rapidly in the future as obesity increases, the population becomes older and the physical activity levels of most people decrease.
In addition to the environmental factors mentioned above, genetic components are obviously associated with the development of T2DM. One of the earliest T2DM susceptibility genes published was Calpain 10 (CAPN10) (Hanis et al. 1996), followed by peroxisome proliferator-activated receptor gamma (PPARG) (Altshuler et al. 2000), potassium inwardly rectifying channel, subfamily J, member 11 (KCNJ11) (Gloyn et al. 2003) and transcription factor 7-like 2 (TCF7L2) (Grant et al. 2006), polymorphisms of which were discovered to be strongly associated with T2DM in 2006. Since 2007, new genetic loci have been identified as T2DM susceptibility genes by genome-wide association scanning, including: loci near hematopoietically expressed homeobox (HHEX)-insulin-degrading enzyme (IDE), cyclin-dependent kinase 5 (CDK5) regulatory subunit-associated protein 1-like 1 (CDKAL1), fat mass and obesity associated (FTO), cyclin-dependent kinase inhibitor 2A/B (CDKN2A/B), zinc transporter-8 (ZnT-8) solute carrier family 30 member 8 gene (SLC30A8), insulin-like growth factor 2 mRNA-binding protein 2 (IGF2BP2) and KCNQ1 (Saxena et al. 2007; Scott et al. 2007; Sladek et al. 2007; Steinthorsdottir et al. 2007; Zeggini et al. 2007; Yasuda et al. 2008).
However, it has recently been reported that there are significant differences in the contribution of known single nucleotide polymorphisms (SNPs) in susceptibility genes among various ethnic populations. Therefore, replication studies in other populations are important. We investigated the association between known SNPs in several T2DM candidate genes and the prevalence of T2DM in the Korean population.
Research design and methods
Subjects and measurements
The studied population included 502 non-diabetic control subjects and 908 unrelated Korean type 2 diabetic patients recruited from the outpatient clinics of Yonsei Medical University Hospital and Inha Medical University Hospital. Diabetes was diagnosed according to the criteria of the American Diabetes Association. Patients were excluded if they were positive for the glutamic acid decarboxylase antibody. The non-diabetic control subjects comprised the normoglycemic population from health check-up subjects with no history of severe metabolic or infectious disease and from regular follow-up patients from the outpatient clinics of the Diabetes Center of Yonsei University Severance Hospital and the Inha Medical University Hospital. Blood samples were collected after an overnight fast, and the FPG level was determined by an enzymatic colorimetric assay. The HbA1c values were determined by high-performance liquid chromatography (Variant II, GREENCROSS, Seoul, Korea). The protocol of this study was approved by the ethics committee of the Yonsei University College of Medicine. All patients and controls received adequate information about this study and gave written informed consent.
DNA extraction and genotyping
Genomic DNA was isolated from peripheral blood lymphocytes. We selected SLC30A8 rs13266634, HHEX rs1111875, CDKN2A/B rs10811661, IGF2BP2 rs4402960, FTO rs8050136, WFS1 rs734312, CDKAL1 rs7754840 and KCNQ1 rs2237892 because their minor allele frequencies (MAF) are relatively high (>10%) and are reported to be associated with T2DM in Asian populations (Kang et al. 2008a, b). Because rs7754840 and rs10946398 in CDKAL1 were in complete linkage (D’ = 1, r 2 = 1) in our 200 samples and in the study by Palmer et al. (2008), we only genotyped rs7754840. As regarding WFS1, we genotyped rs734312 among four SNPs (rs734312, rs752854, rs6446482 and rs10010131) according to our pilot data of 88 samples that MAF of rs752854, rs6446482 and rs10010131 were 0, 1.1 and 0%, respectively. Genotyping was performed according to the processes as previously described (Kang et al. 2008a, b). TaqMan PCR Assay ID was C2684958_10 for rs13266634 in SLC30A8, C11214581_10 for rs1111875 in HHEX, C31288917_10 for rs10811661 in CDKN2A/B, C2165199_10 for rs4402960 in IGF2BP2, C2031259_10 for rs8050136 in FTO, C2401729_1 for rs734312 in WFS1 and C29246232_10 for rs7754840 in CDKAL1. KCNQ1 rs2237892 genotype was assayed by single base primer extension assay using an ABI PRISM SNaPShot Multiplex kit (ABI, Foster City, CA), according to manufacturer’s instructions.
Forty-eight (3.4%) duplicate samples and negative controls were included to ensure the accuracy of genotyping, and 100% of the duplicates replicated the original genotype. The rates of successful genotyping were 100% (rs13266634), 96.2% (rs1111875 and rs10811661), 96.6% (rs4402960), 99.2% (rs8050136), 99.7% (rs734312), 99.1% (rs7754840) and 98.8% (rs2237892), respectively.
Statistical analyses
The genotype frequencies were tested for Hardy–Weinberg equilibrium using the χ 2 test. All continuous variables were expressed as the mean ± standard deviation (SD). Student’s t test was used to compare the continuous variables between the T2DM and non-diabetic control groups. Pearson’s χ 2 test was used to evaluate the difference in the prevalence of T2DM among genotypes. One-way ANOVA was used to compare continuous variables among the three genotypes. For these calculations, patients with the non-risk allele were denoted as 0, heterozygotes were denoted as 1, and patients homozygous for the risk allele were denoted as 2. In order to control for age, sex and BMI effects, multivariable logistic regression tests were used, and odds ratio (OR) and 95% confidence intervals (CI) were calculated. We analyzed the data using two-sided p values, and a p value less than 0.05 was considered statistically significant. Statistical analyses were performed using SPSS for Windows software (version 12.0; SPSS, Chicago, IL). Power calculations were performed using PASS software version 2005 (NCSS statistical Software, Kaysville, UT).
Results
Genotyping of eight representative SNPs from T2DM susceptibility genes were replicated in 502 non-diabetic control subjects and 908 unrelated type 2 diabetic patients from the Korean population. The baseline clinical and biochemical characteristics of the subjects are shown in Table 1. The mean age, body mass index (BMI), weight and fasting plasma glucose (FPG) level were 55.0 ± 9.4 years, 22.1 ± 3.0 kg/m2, 58.7 ± 9.4 kg and 5.1 ± 1.0 mmol/l, respectively. A slightly higher proportion of females (51.6%) was observed in the case group than in the control groups (46.4%), which may be due to a participation bias. Diabetic patients were older than non-diabetic control subjects (58.2 ± 11.1 vs. 55.0 ± 9.4, p < 0.001). The mean body weight and BMI between the two groups were significantly different (63.6 ± 10.8 vs. 58.7 ± 9.4 kg, p < 0.001; 24.3 ± 3.2 vs. 22.1 ± 3.0 kg/m2, p < 0.001, respectively). The FPG level was also significantly higher in the diabetic group subjects compared to normal control subjects (7.5 ± 2.2 vs. 5.1 ± 1.0, p < 0.001).
The genotype and allele frequencies of T2DM susceptibility gene SNPs in type 2 diabetic patients and control subjects are shown in Table 2. Genotype distributions were in agreement with Hardy-Weinberg equilibrium. Among eight SNPs, rs1111875 in HHEX, rs10811661 in CDKN2A/B, rs7754840 in CDKAL1 and rs2237892 in KCNQ1 locus were significantly associated with T2DM. The observed associations between T2DM and two SNPs — rs1111875 and rs7754840 — were strengthened after adjusting for age, sex and BMI using multivariable logistic regression analysis. The strongest association was found in the variant in CDKAL1 rs7754840 (OR = 1.77, adjusted p = 4.6 × 10−10). However, rs13266634 in the SLC30A8 gene locus showed nominal association with T2DM (OR = 1.19, adjusted p = 0.045), and no significant associations with T2DM were observed in IGF2BP2 rs4402960, FTO rs8050136 and WFS1 rs734312 from our study population (adjusted p = 0.123, 0.347 and 0.362, respectively). The rs13266634, rs10811661 and rs2237892 risk alleles were major alleles, while the other risk alleles were minor alleles in our population, consistent with previous reports in European populations (Scott et al. 2007; Saxena et al. 2007; Zeggini et al. 2007). Interestingly, the G allele of rs1111875, which was reported to be a major allele in Caucasian ethnic groups, was revealed as a minor allele in our study; this is supported by similar results from Japanese populations (Furukawa et al. 2008; Horikoshi et al. 2007; Omori et al. 2008).
For each SNP proven to be a possible T2DM-susceptible variant according to our study, we further analyzed the effect of genotypes under three different genetic models (Table 3). The C/C and C/T genotypes of SLC30A8 conferred a significantly increased risk for T2DM compared to the T/T genotype in the additive or dominant model. The G allele of HHEX rs1111875, the T allele of CDKN2A/B rs10811661 and the C allele of CDKAL1 rs7754840 all were associated with an increased prevalence of T2DM in all three genetic models. Only individuals with the CC genotype of rs2237892 in the recessive model had a higher risk of T2DM. No association was observed in any genetic models for rs4402960, rs8050136 and rs734312. There was no significant association between the genotypes of eight SNPs and clinical characteristics (age, sex and BMI) in the type 2 diabetic patients (data not shown).
Discussion
The identification of a new gene for polygenic T2DM was recently achieved by genome-wide SNP assays. Among several SNPs associated with susceptibility to T2DM, polymorphisms in SLC30A8, HHEX,CDKN2A/B, IGF2BP2, FTO, WFS1, CDKAL1 and KCNQ1 were first reported by several studies performed in European and Asian populations (Scott et al. 2007; Sladek et al. 2007; Saxena et al. 2007; Zeggini et al. 2007; Sandhu et al. 2007; Yasuda et al. 2008). These genetic variants have been repetitively confirmed by multiple studies in various populations (Horikoshi et al. 2007; Steinthorsdottir et al. 2007; Omori et al. 2008; Ng et al. 2008). Nevertheless, the effects of genetic variants on the risk of T2DM are somewhat inconsistent among different ethnic groups. For example, Furukawa et al. (2008) reported a nominal association between rs13266634, a nonsynonymous SNP in SLC30A8, and T2DM in a Japanese population, while Horikoshi et al. (2007) reported that there was no significant association in another Japanese population.
In this case-control study, we demonstrated the association between the polymorphisms of the SLC30A8, HHEX, CDKN2A/B, CDKAL1 and KCNQ1 genes and the prevalence of T2DM in Korean subjects. According to our results, the overall risk allele frequencies of those SNPs were significantly different between the Korean and other non-Asian ethnic groups. The frequency of risk allele C in rs13266634 from our study (55.8%) was lower than those reported in European or African populations (69.9–97.1%) (Sladek et al. 2007; Steinthorsdottir et al. 2007). There were also differences in the frequencies of risk alleles in rs1111875, rs10811661, rs8050136 and rs734312. For rs1111875, the risk allele G was a minor allele in Asian subjects, including our group, while the allele G was revealed as a major allele in European populations (Saxena et al. 2007; Scott et al. 2007; Sladek et al. 2007; Palmer et al. 2008); for rs10811661, rs8050136 and rs734312, the Korean population showed much lower MAF compared to the non-Asian groups. These significant differences in risk allele frequencies across ethnic groups indicate that the genetic variations of T2DM susceptibility genes are diversely distributed among different populations.
In our study, each SNP in the HHEX, CDKN2A/B, CDKAL1 and KCNQ1 genes showed a significant association with T2DM. The adjusted allele-specific OR value of rs1111875 (1.43) was similar to that of Japanese groups (1.30–1.42) (Furukawa et al. 2008; Horikoshi et al. 2007; Omori et al. 2008), but higher than that reported from white populations (1.10–1.15) (Saxena et al. 2007; Scott et al. 2007; Sladek et al. 2007). The HHEX gene product is known to act as both a transcription activator and repressor required for the development of the pancreas, liver and blood vessels and is also a target of the Wnt/β-catenin signaling pathway (McLin et al. 2007; Foley and Mercola 2005). Since SNP rs1111875 is located near the outside of an HHEX exon, it does not change the amino acid sequence, indicating that further study of the biological function of this SNP is necessary.
Furthermore, we observed considerably higher ORs of rs10811661 in CDKN2A/B locus (1.47) and rs7754840 in CDKAL1 locus (1.77) than those found in other Asian or European populations (1.16–1.37) (Sladek et al. 2007; Saxena et al. 2007; Scott et al. 2007; Horikoshi et al. 2007; Ng et al. 2008). CDKN2A/B is a tumor suppressor gene that plays an important role in tumorigenesis and aging (Kim and Sharpless 2006). In addition to its function in cell proliferation and apoptosis, CDKN2A/B has recently been reported to be expressed in islets as well as vascular endothelial cells and is affected by hyperglycemia and oxidative stress (Chen et al. 2007; Scott et al. 2007). The function of CDKAL1 protein is elusive; however, there is a similarity between CDKAL1 and CDK5 regulatory subunit-associated protein 1 (CDK5RAP1), which inhibits CDK5 activity. Considering the findings that inhibition of CDK5 prevented the decrease of insulin gene expression by restoring PDX-1, CDKAL1 may play an important role in CDK5-mediated regulation of beta cell function (Wei et al. 2005; Ubeda et al. 2006).
As regarding KCNQ1, which was recently discovered by the Japanese group (Yasuda et al. 2008), we showed a lower value of OR of 1.31 (95% CI = 1.10–1.56) for rs2237892 than those reported in East Asian populations. KCNQ1 protein is a subunit of the voltage-gated K+ channel (KvLQT1) that is expressed in the pancreas as well as cardiac muscles. Modulation of membrane potentials in beta cells by KvLQT1 might be a possible mechanism to affect insulin-secretory functions.
We confirmed that rs13266634 in SLC30A8 has nominal association with the risk of T2DM (adjusted p = 0.045), while there were no significant relationships among rs4402960 (IGF2BP2), rs8050136 (FTO), rs734312 (WFS1) and a predisposition for T2DM (adjusted p = 0.123, 0.347 and 0.362, respectively). Several reports have demonstrated that not only the rs1111875 (Pascoe et al. 2007) and rs10811661 (Horikoshi et al. 2007) SNPs, but also the risk allele of SLC30A8, rs13266634 are associated with reduced insulin-secretory function (Staiger et al. 2007; Steinthorsdottir et al. 2007; Boesgaard et al. 2008; Cauchi et al. 2008; Kang et al. 2008b). Since early beta cell secretory defects are more important predisposing factors to T2DM than insulin resistance in various Asian populations (Fukushima et al. 2004; Yoon et al. 2003), dysfunction of genes related to insulin secretion may play an essential role in the development of T2DM in Korean adults, supported by our findings that genetic variants in the SLC30A8 or CDKN2A/B, not obesity genes such as FTO, showed a statistical association with T2DM. The SLC30A8 gene encodes ZnT-8, a novel member of the cation diffusion facilitator family, exclusively expressed in pancreatic beta cells (Chimienti et al. 2006). ZnT-8 is thought to be a key protein for insulin secretion by regulating the homeostasis of zinc, which is known as an essential metal ion for insulin storage and secretion into intracellular vesicles (Chausmer 1998). Because the rs13266634 SNP causes an amino acid change (R325 W) in the intracellular C-terminus of the ZnT-8 protein, this single nucleotide substitution might act as a gain-of-function mutation that increases protein translation efficiency or modifies the posttranslational structure, thereby enhancing the beta cell secretory functions.
There were some limitations in this study. First, we did not analyze the association between the candidate SNPs and indices of beta cell secretory functions or insulin resistance due to a lack of data. Second, not all proven T2DM susceptibility genes were examined because of the low frequency of risk alleles (data not shown) in our population. For example, TCF7L2, one of the most promising T2DM susceptibility genes in other studies, showed an MAF of only 5.4% in our previous study (Kang et al. 2008a). The estimated powers of our study were 40.2, 76.1, 60.7, 35.7, 48.5, 24.7, 35.9 and 98.6% for rs13266634 (SLC30A8), rs1111875 (HHEX), rs10811661 (CDKN2A/B), rs4402960 (IGF2BP2), rs8050136 (FTO), rs734312 (WFS1), rs7754840 (CDKAL1) and rs2237892 (KCNQ1), respectively, based on the reference ORs and allele frequencies from an Asian population (for rs1111875 and rs2237892 only) (Omori et al. 2008; Yasuda et al. 2008) and European populations (for other SNPs) (Frayling 2007). Much larger numbers of subjects are required to replicate previous studies with high power.
In conclusion, we have confirmed that there are significant associations between SNPs within the HHEX, CDKN2A/B, CDKAL1 and KCNQ1 genes and T2DM in the Korean population. To further confirm this association, additional studies are needed to elucidate the functional mechanism of these SNPs and to analyze the association between these polymorphisms and T2DM in other populations.
Abbreviations
- SNP:
-
Single nucleotide polymorphisms
- T2DM:
-
Type 2 diabetes mellitus
- OR:
-
Odds ratio
- CI:
-
Confidence interval
- BMI:
-
Body mass index
- FPG:
-
Fasting plasma glucose
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Acknowledgments
This study was supported by the Global 5-5-10 Project, Yonsei University (6-2007-0087), and funds from the Department of Internal Medicine in Yonsei Medical University (2008) and the Memorial Foundation of Kim Myoung Sun (2008).
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Y. Lee and E. S. Kang contributed equally to this work.
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Lee, YH., Kang, E.S., Kim, S.H. et al. Association between polymorphisms in SLC30A8, HHEX, CDKN2A/B, IGF2BP2, FTO, WFS1, CDKAL1, KCNQ1 and type 2 diabetes in the Korean population. J Hum Genet 53, 991–998 (2008). https://doi.org/10.1007/s10038-008-0341-8
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DOI: https://doi.org/10.1007/s10038-008-0341-8
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