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Obes Facts. 2009 September; 2(4): 235–242.
Published online 2009 July 20. doi:  10.1159/000227288
PMCID: PMC2919429

Gene-Gene Interaction between APOA5 and USF1: Two Candidate Genes for the Metabolic Syndrome

Abstract

Summary

Objective

The metabolic syndrome, a major cluster of risk factors for cardiovascular diseases, shows increasing prevalence worldwide. Several studies have established associations of both apolipoprotein A5 (APOA5) gene variants and upstream stimulatory factor 1 (USF1) gene variants with blood lipid levels and metabolic syndrome. USF1 is a transcription factor for APOA5.

Methods

We investigated a possible interaction between these two genes on the risk for the metabolic syndrome, using data from the German population-based KORA survey 4 (1,622 men and women aged 55–74 years). Seven APOA5 single nucleotide polymorphisms (SNPs) were analyzed in combination with six USF1 SNPs, applying logistic regression in an additive model adjusting for age and sex and the definition for metabolic syndrome from the National Cholesterol Education Program's Adult Treatment Panel III (NCEP (AIII)) including medication.

Results

The overall prevalence for metabolic syndrome was 41%. Two SNP combinations showed a nominal gene-gene interaction (p values 0.024 and 0.047). The effect of one SNP was modified by the other SNP, with a lower risk for the metabolic syndrome with odds ratios (ORs) between 0.33 (95% CI = 0.13–0.83) and 0.40 (95% CI = 0.15–1.12) when the other SNP was homozygous for the minor allele. Nevertheless, none of the associations remained significant after correction for multiple testing.

Conclusion

Thus, there is an indication of an interaction between APOA5 and USF1 on the risk for metabolic syndrome.

Key Words: Metabolic syndrome, Cardiovascular risk, SNP, APOA5, USF1

Introduction

The prevalence of the metabolic syndrome has increased in epidemic proportions worldwide [1]. Apolipoprotein A5 (APOA5) and upstream stimulatory factor 1 (USF1) are genes both related to metabolic syndrome or its characteristic traits [2].

APOA5 is an apolipoprotein discovered independently by two separate research groups [3, 4] in 2001. The corresponding gene is located on chromosome 11 in the APOA1/C3/A4/ A5 gene cluster. The APOA5 locus is linked to familial combined hyperlipidemia (FCHL) and elevated triglyceride (TG) levels, a known risk factor for cardiovascular diseases (CVD) [5]. FCHL is the most common inherited dyslipidemia with a prevalence of 1–2% in western populations and of about 20% in patients with premature coronary heart disease (CHD) [6]. The key role of APOA5 in the regulation of TG levels has been supported by several epidemiologic and functional studies [7] and confirmed in different ethnic groups, e.g. in Caucasians, Japanese, and Chinese [8].

USF1 is localized on chromosome 1 in another locus linked to FCHL [9]. It encodes for a ubiquitously expressed transcription factor that regulates some 40 genes involved with or actually crucial to glucose and fat metabolism [10]. USF1 belongs to the family of basic helix-loop-helix leucine zipper transcription factors, dimerizes — most often with USF2 — and binds to palindromic E-box sequence in the promoter area of its target genes. Thus it activates transcription in response to different stimuli. APOA5 belongs to that group of genes regulated by USF; insulin stimuli reduce the association of USF1 transcription factor to APOA5 E-box [11]. Associations between USF1 variants and FCHL [9] and associations of USF1 SNPs with TG levels and low density lipoprotein (LDL) levels in blood [2] have been found. Associations with CVD and overall mortality in women also have been shown [12].

The changes in blood lipid levels for APOA5 and USF1 described above occur similarly in the metabolic syndrome, an important risk factor of CHD morbidity and mortality [2].

Main effects of APOA5 [7] and USF1 were already investigated in KORA S4 [13]. Grallert et al. [7] found significant effects of APOA5 SNPs on two features of the metabolic syndrome, namely elevated TG levels and lowered HDL levels, but no effects on metabolic syndrome itself. The effects of USF1 SNPs were investigated by Holzapfel et al. [13] who showed an association with lowered LDL levels.

Having both environmental and genetic risk factors [1], the syndrome's genetic background was our focus. We have examined a potential gene-gene interaction (i.e. deviation from the summation of single effects) between APOA5 and USF1 and the metabolic syndrome using data from a large population-based study sample from southern Germany.

Material and Methods

Study Population

Data were drawn from the KORA study (Cooperative Health Research in the Region of Augsburg, Germany). KORA was initiated in the Augsburg region in 1996 as a research platform for population-based studies [14, 15]. In detail, we used data of the S4 survey that was performed from 1999 to 2001 and in which information about the participants' cardiovascular risk factors was obtained. KORA S4 included 1,653 participants of the 55– to 74-year age group. Overall, 1,622 subjects (829 men and 793 women) were genotyped successfully and comprised the study population of our analyses. Among those, 1,353 subjects participated in an oral glucose tolerance test (OGTT); in the remaining 269 subjects only fasting glucose levels were measured.

Genotyping

Seven SNPs of the APOA5 gene and six SNPs of the USF1 gene, genotyped in KORA S4, were used to investigate the hypothesized genegene interaction with the risk of having the metabolic syndrome (table (table1).1). SNPs were selected both on functional (e.g. in or near exons, in promoter regions) and positional (distance <5 kb where possible) basis with simultaneous consideration of validation and frequency. SNPs containing the same information (r2 ≥ 0.8) were excluded. Further information like minor allele frequencies, LD plots, and SNP position in the genes had been published in [7] (also see online supplement) for APOA5 and in [13] for USF1 and are also partly available in table table11.

Table 1
Characteristics of the SNPs included in the analyses

Genotyping was performed with matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS) as described elsewhere [16]. Assessing the Hardy-Weinberg equilibrium (HWE) with an exact test using a permutation approach developed by Guo and Thompson [17] revealed that no SNP departed from HWE (table (table1).1). Genotyping succeeded with call rates greater than 94.0%, and discordance was less than 0.5% in 210 routine duplicates in KORA S4 [7, 13].

Definition of the Metabolic Syndrome

The metabolic syndrome was diagnosed using the definition provided by the National Cholesterol Education Program's Adult Treatment Panel III (NCEP (AIII)) including medication [adapted from 18] (table (table22).

Table 2
Definition of the metabolic syndrome from NCEP(AIII) including medicationa

Statistics

The risk for having the metabolic syndrome was estimated by logistic regression and the assumption of an additive genetic model. Risks were displayed as odds ratios (ORs) with 95% confidence intervals (95% CI). Adjustment for age and sex was performed. To assess the gene-gene interaction, i.e. whether the metabolic syndrome risk of one SNP was modified by another SNP, we included both SNPs and additionally an interaction term of both SNPs in each model. Therefore, we combined the seven APOA5 SNPs with the six USF1 SNPs and performed the respective logistic regression leading to 42 different models. Each SNP was coded as 0 for homozygous major allele, as 1 for heterozygous, and as 2 for homozygous minor allele. The OR of having a metabolic syndrome per copy of the minor allele for the first SNP (SNP 1) by the value of the other SNP (SNP 2) was drawn from this regression and calculated by exp[estimate(SNP 1) + estimate(SNP 1 × SNP 2) × value(SNP 2)]. The respective 95% CIs were drawn from the logistic regression using the regression coefficients and the covariance matrix.

Furthermore, we performed additional analyses with five quantitative traits of the metabolic syndrome (waist circumference, HDL cholesterol, TG levels, fasting blood glucose, and blood pressure) as end points using separate linear regression models. Again, we estimated 42 different models for each of the five quantitative traits with age and sex adjustment including the two SNPs and an interaction term of both SNPs. The increase of the mean quantitative trait per copy of the minor allele for the first SNP (SNP 1) by the value of the other SNP (SNP 2) was drawn from this regression and calculated by estimate(SNP 1) + estimate(SNP 1 × SNP 2) × value(SNP 2) and vice versa for SNP 2. The respective 95% CIs were drawn from the linear regression using the regression coefficient and the covariance matrix.

We assumed interaction effects with p values less than 0.05 as statistically significant. Bonferroni correction for multiple testing was done with a corrected significance level of 0.001 (alpha of 0.05/7 APOA5-SNPs × 6 USF1-SNPs). All calculations were conducted with the statistical software SAS (SAS V. 9.1 Cary, NC, USA).

Results

The prevalence of the metabolic syndrome according to NCEP (AIII) definition was 41.1% in the overall study population. Most frequently the participants achieved one or two of the five criteria for the metabolic syndrome (24.4 or 23.8%); only 11% of the study population revealed none of the syndrome's characteristics. The most often met criterion for the metabolic syndrome was ‘elevated blood pressure or antihypertensive drug treatment’ (1,197 persons (74.1% of all participants)) followed by large waist circumference (790 persons (48.8%)), lowered HDL cholesterol (655 participants (40.8%)), elevated TG levels (479 persons (29.6%)), and raised blood glucose levels (425 individuals (26.6%))). According to this observation, antihypertensive drugs were the most frequently taken drugs in the study population (37.2% of the participants compared with 2.1% receiving insulin treatment, 5.2% receiving oral antidiabetic drug treatment, and 12.2% receiving lipid lowering drug application) (table (table33).

Table 3
Descriptive data of the study population

The logistic regression analysis revealed overall a lower risk for the metabolic syndrome for one SNP per each copy of the minor allele of the other SNP. We performed this analysis to assess the interaction between two SNPs on the risk of having a metabolic syndrome. Two SNP × SNP interactions changing the risk for the metabolic syndrome were nominal on a significance level of 0.05. These interactions were observed between polymorphisms rs2516839 and rs3135506 (p = 0.0473), and between rs2073658 and rs1729411 (p = 0.0243). The first SNP of a combination denotes the USF1 gene and the second SNP denotes the APOA5 gene, what is pursued in the text.

All of those combinations were associated inversely with the risk for the metabolic syndrome, with increasing numbers of the minor alleles of APOA5 and USF1. For the case with the lowest p value for interaction, rs2073658 × rs1729411, the OR of having a metabolic syndrome per copy of the minor allele for rs2073658 by rs1729411 was 0.81 (95% CI = 0.67−0.97) in homozygous state for the major allele (GG), 0.54 (95% CI = 0.34−0.86) in heterozygous state (GA); and 0.36 (95% CI = 0.16−0.81) in homozygous state for the minor allele (AA) (table (table4).4). Conversely, for rs1729411, the OR was 0.74 (95% CI = 0.55−0.99) with rs2073658 in homozygous state for the major allele (GG); 0.49 (95% CI = 0.27−0.89) in heterozygous state (GA); and 0.33 (CI = 0.13−0.83) in homozygous state for the minor allele (AA). All other ORs are presented in table table4.4. These results did not remain nominal after Bonferroni correction.

Table 4
Results from gene-gene interaction analysis for risk of the metabolic syndromea

Moreover, we performed a sex-stratified analysis and obtained different trends for associations of SNPs combinations compared to the overall analysis — in contrast to the overall analysis all of them associated with higher risk of metabolic syndrome presented with the minor alleles of APOA5 and USF1. Due to the stratification, the number of cases decreased accordingly (partially even no case with homozygous minor allele for both SNPs), and thus ORs were very high (data not shown). Consequently, these results were not processed further, because of their uncertainty.

Furthermore, the quantitative traits of the metabolic syndrome were applied for analysis. One of the two interactions, namely rs2073658 × rs1729411, was also nominally associated with waist circumference (table (table5).5). Significances were in a comparable dimension as the main analyses and similarly failed Bonferroni correction for multiple testing.

Table 5
Results from gene-gene interaction analysis with the quantitative traits of metabolic syndromea

We also applied the other model assumptions (dominant, recessive) which revealed very similar results (data not shown).

Discussion

Our results from KORA S4 indicate a possible gene-gene interaction between APOA5 and USF1 variants and the metabolic syndrome in two combinations. The results showed a trend for association, if we refrained from Bonferroni correction. Persons who were homozygous for minor alleles in both SNPs of one of the found interactions seemed to have a lower risk for the metabolic syndrome than those homozygous for the major alleles or heterozygous. This conclusion implies that individuals with the homozygous genotype for the minor alleles of both SNPs of a found interaction combination have the lowest risk for metabolic syndrome in this context (ORs ranged between 0.33 and 0.40; table table44).

To our knowledge, these associations have not been investigated before.

According to Moore and Williams [19] gene-gene interactions play a relevant role in the genetic architecture of common complex diseases and can be seen from statistical and from biological view. Stating a relationship between those views occurs as a great challenge thereby. As we focused on a statistical interaction on population level we merely consider some aspects subsequently about explanations of the statistical effect and about biological plausibility.

From biological view there is no physical interaction between USF1 and APOA5 proteins (but protein-DNA interplay), but a statistical interaction may also occur without physical interaction of biomolecules, if these have an impact on the same phenotype as APOA5 and USF1 do have on blood lipid levels.

None of the investigated APOA5 SNPs are located within the E-box, where USF dimers physically collaborate with the DNA [11]. Therefore the statistical interaction effects did not suggest biological plausibility simply by variations at the locus of physical interaction by a sequence alteration.

Two of the SNPs included in the interaction calculation cause a missense exchange. Namely, these are rs3135506 (Trp>Ser) and rs3135507 (Met>Val). The missense exchange rs3813609 (Val>Leu) is represented by another USF1-SNP (rs2516839, which participates in SNP combinations with interaction effect). None of the others change the amino acid sequence. SNP rs3135506 alters the cleavage site of signal sequence and, thus, lowers translocation and secretion of the APOA5 protein [20]. The interaction combination including rs3135506 showed the lowest significance of all found nominal combinations (p = 0.0473) (table (table4).4). Altogether, amino acid changes might contribute to a biological background of the statistical effects seen here.

There is seemingly none of the USF1 SNPs located in any of the protein domains responsible for dimerization or domains needed for transactivation. Dimerization then might not be affected by the variations, but an influence on the complex transcription machinery is conceivable.

Via presence of insulin, USF1/USF2 dimers would be phosphorylated and subsequently non-functional for APOA5 transcription initiation [11]. Maybe the SNP variants influence this regulation mechanism positively or negatively and, thus, contribute to the interaction effect.

The major fraction of USF1 functions as heterodimers with USF2 [2]. Thus, an influence of USF2 variations on the suggested interaction between APOA5 and USF1 should be considered. Actually, there are SNPs in the USF2 gene, and one of them, rs45614038, even causes a missense mutation (www.ncbi.nlm.nih.gov/SNP/snp_ref.cgi?locusId=7392 and chooseRs = all in Jan 2009).

These advisements make us consider that either there are yet unknown regulatory regions, where these SNPs are located, or the underlying cause is by far more complex than variations in any regulatory regions of these genes. So we also consider contributions in generating the statistical interaction effect by the very complex regulatory machinery of and between APOA5 and USF1 and by other affected genes or proteins that take part in the metabolic pathways regulated by APOA5 after USF1 stimulation. For example, Prieur et al. [21] described an activation of APOA5 synergistically accomplished by thyroid hormone receptor and USF1. Further examples of regulators of APOA5 are RORa, PPARa, and LXR [8]. Recently, Nowak et al. [22] could demonstrate the glucose dependency of APOA5 activation by USF dimers via a dephosphorylation mechanism.

The relevance of investigating the connection between USF1 and APOA5 was already underlined by a review of Naukkarinen et al. [23] in 2006 that summarizes genetic findings on the risk for FCHL. They found both genes with very interesting clues not only on the risk for FCHL but also on the metabolic syndrome based on the disorders' overlapping molecular pathogenesis.

Gene-gene interaction has already been identified for other genes. For example, Pessi et al. [24] found an interaction effect between FCGR2A and CRP on the intima media thickness in young Finnish men with a lack of independent effects of FCGR2A polymorphisms on IMT, and an investigation in French Canadians [25] showed significant interaction effect of gene variants in the VLDL catabolism.

Overall, we suppose that we have not found the causal or functional SNPs for the interaction effect, but possibly markers for it.

Our study is strengthened by the selection of the participants from a large homogeneous population-based sample with highuality phenotyping (e.g. anthropometric measures, OGTT). However, our findings could be only chance discoveries. It should be considered that there were very few participants with both USF1 and APOA5 SNPs in homozygous state for the minor allele in all found combinations with nominal interactions (no individual with GG in rs2516839 and concomitant CC in rs3135506; one individual with AA in rs2073658 and concomitant AA in rs1729411, and only a few persons in some heterozygous combinations out of about 1,600 individuals) (data not shown). Therefore, our results should be reproduced in larger study samples, especially to figure out the sex-stratified effects.

Moreover, our study population shows a high prevalence of the metabolic syndrome compared to numbers reported for different populations. This likely might be due to the older age and the high mean of the BMI in the group. Day et al. [26] also reported a prevalence of 40% with the NCEP (AIII) definition in a US group of probands aged 60 to 69 years; thus the age effect seems to explain the prevalence we found.

In conclusion, we found a suggestive gene-gene interaction between APOA5 and USF1 by statistical analysis of data from the KORA study. However, the underlying mechanisms are speculative.

Finally, we would appreciate that other research groups resume our work and either replicate our findings in a proper and well powered sample or focus on biological causes of the found statistical effect.

Fundings

The KORA Survey 4 was financed by the Helmholtz Zentrum München (formerly GSF), which is funded by the German Federal Ministry of Education, Science, Research and Technology and the State of Bavaria. The OGTT study was partly funded by the German Federal Ministry of Health and Social Security, the Ministry of Science and Research of the State North Rhine-Westphalia, and the Anna Wunderlich-Ernst Jühling Foundation (WR, GG). Parts of this work were supported by the German Ministry of Education and Research (BMBF) / National Genome Research Network (NGFN) and the Deutsche Forschungsgemeinschaft (Wi621/12-1). A subcontract of the 1 R01 DK 075787-01A1 by the NIH/ NIDDK to the Helmholtz Zentrum München exists as well as a subcontract of the 5 R01DK 075787 by the NIH/NIDDK to the GSF-National Research Center for Environment and Health (to J.N.H.). Part of this work was financed by the German National Genome Research Network (NGFN) and the UN Diabetes.

Disclosure

All authors declare that there is no conflict of interest that could be perceived as prejudicing the impartiality of the research reported.

Acknowledgement

The authors are indebted to K. Papke (formerly head of KORA Study Center) and B. Schwertner (survey organization) and their co-workers for organizing and conducting the data collection. We are grateful to the KORA Study Group (Head: Prof. H.E. Wichmann) for initiating the KORA Survey 4. We also thank Anika Luze and Arsin Sabunchi for laboratory support. Finally, we thank all participants of the OGTT study.

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