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An update on the genetic architecture of hyperuricemia and gout
Arthritis Research & Therapy volume 17, Article number: 98 (2015)
Genome-wide association studies that scan the genome for common genetic variants associated with phenotype have greatly advanced medical knowledge. Hyperuricemia is no exception, with 28 loci identified. However, genetic control of pathways determining gout in the presence of hyperuricemia is still poorly understood. Two important pathways determining hyperuricemia have been confirmed (renal and gut excretion of uric acid with glycolysis now firmly implicated). Major urate loci are SLC2A9 and ABCG2. Recent studies show that SLC2A9 is involved in renal and gut excretion of uric acid and is implicated in antioxidant defense. Although etiological variants at SLC2A9 are yet to be identified, it is clear that considerable genetic complexity exists at the SLC2A9 locus, with multiple statistically independent genetic variants and local epistatic interactions. The positions of implicated genetic variants within or near chromatin regions involved in transcriptional control suggest that this mechanism (rather than structural changes in SLC2A9) is important in regulating the activity of SLC2A9. ABCG2 is involved primarily in extra-renal uric acid under-excretion with the etiological variant influencing expression. At the other 26 loci, probable causal genes can be identified at three (PDZK1, SLC22A11, and INHBB) with strong candidates at a further 10 loci. Confirmation of the causal gene will require a combination of re-sequencing, trans-ancestral mapping, and correlation of genetic association data with expression data. As expected, the urate loci associate with gout, although inconsistent effect sizes for gout require investigation. Finally, there has been no genome-wide association study using clinically ascertained cases to investigate the causes of gout in the presence of hyperuricemia. In such a study, use of asymptomatic hyperurcemic controls would be expected to increase the ability to detect genetic associations with gout.
Hyperuricemia is necessary but not sufficient for gout. Gout is typically characterized by recurrent self-resolving attacks of acute inflammatory arthritis and occurs in about a quarter of people with elevated serum urate levels (hyperuricemia) . The metatarsal-phalangeal joint of the big toe is most often affected, but gout commonly affects other joints. Two important physiological mechanisms determine hyperuricemia: (a) increased production of the urate in the liver from dietary and endogenous substrates that raise purine levels and (b) reduced renal and gut excretion of uric acid (Figure 1). In the presence of hyperuricemia, factors controlling the formation of monosodium urate (MSU) crystals in synovial fluid and the subsequent innate immune inflammatory response are relatively poorly understood. However, activation of Toll-like receptors and inflammasome-mediated release of the pro-inflammatory cytokine interleukin-1β is known to be a central pathway . Like any other complex phenotype, hyperuricemia and gout result from the interplay between inherited genetic risk variants and environmental exposures . The genetic component will be discussed in this review, and environmental exposures that interact with genetic risk variants will also be considered.
A genome-wide association study (GWAS) scans the genome, in an unbiased fashion using common genetic variants (typically single-nucleotide polymorphisms), for loci causally associated with a particular phenotype. Genes contained within the associated loci are candidates for involvement in causal pathogenic pathways. Köttgen and colleagues  reported, in a GWAS of more than 140,000 European individuals, statistically significant associations of 28 separate genetic loci with serum urate levels. This study confirmed the association with urate levels of 10 loci discovered in earlier and smaller GWASs [5-7]. Reviewed elsewhere [8-11], the 10 are dominated by loci containing genes that were either known (SLC22A11/OAT4, SLC22A12/URAT1, SLC17A1/NPT, and PDKZ1) or novel (SLC2A9/GLUT9 and ABCG2) renal and gut transporters of uric acid. The GCKR (glucokinase regulatory protein) locus implicates production of urate by glycolysis, but the functional relevance of the remaining loci (SLC16A9/MCT9, INHBC, and RREB1) is unclear, although MCT9 may be a renal sodium transporter and has been linked to urate via carnitine metabolism . Predictably most, but not all, of these 10 loci consistently associate with gout in multiple ancestral groups [4,12,13].
The lead associated genetic variants at SLC2A9 and ABCG2 collectively explain, depending on sex, 3% to 4% of the variance in urate levels. On average, the urate-raising allele at SLC2A9 increases serum urate by 0.373 mg/dL (0.022 mmol/L) and the urate-raising allele at ABCG2 by 0.217 mg/dL (0.013 mmol/L), both of which are clinically significant amounts . SLC2A9 and ABCG2 have equivalent effects in men; SLC2A9 has a stronger effect in women than men and vice versa for ABCG2 . Sex-specific effects aside, both loci (in particular, SLC2A9) exert very strong control on urate levels, when compared with the effect of the other 26 confirmed urate loci that collectively explain a similar proportion of variance. Thus, there is considerable research interest in understanding the molecular basis of urate control by SLC2A9 and ABCG2 and their clinical significance.
The emerging role of SLC2A9 in metabolism and cancer
A major site of expression of SLC2A9 is the kidney, where it is a voltage-dependent uric acid transporter [14,15]. Genotype-specific expression data are consistent with the possibility that the major causal serum urate-raising variant (that has not yet been genetically pinpointed) increases the expression levels of an SLC2A9 isoform (SLC2A9-S) that has a 28-residue portion missing from the N-terminus [16,17]. This isoform is expressed on the apical (urine) side of the collecting duct, where it presumably increases reuptake of secreted uric acid, whereas the full-length version (SLC2A9-L) is expressed on the basolateral side . Combined with its expression on the basolateral membrane of hepatocytes , where urate is generated, the membrane potential would ensure that the SLC2A9-L isoform is responsible for transport of uric acid into the bloodstream . With the caveat that results from SLC2A9-inactivation studies in the mouse can only be extrapolated to humans with much caution (given the presence of active urate oxidase (uricase) in mice but not humans), a recent study demonstrates that SLC2A9 is also an important basolateral uric acid efflux transporter into the gut enterocyte . Interestingly, mice with a gut-specific SLC2A9 knockout developed a metabolic syndrome-like condition in addition to hyperuricemia . In mice a hepatocyte-specific SLC2A9 knockout develops severe hyperuricemia, consistent with a role for SLC2A9 in hepatic uptake of uric acid . Because of the presence of uricase, the urate chemical gradient overcomes the membrane potential so that SLC2A9 can transport urate into liver cells. This contrasts with humans, in whom SLC2A9 transports urate out of the hepatocyte .
One reason that humans and higher apes have higher urate levels is the postulated function of urate as an antioxidant , replacing ascorbic acid as a major endogenous antioxidant in human evolution . Consistent with this hypothesis, intracellular reactive oxygen species (ROS) in cell culture are reduced by physiological levels of urate . Interestingly, oxidative stress induces SLC2A9 transcription and expression in a manner dependent on transcriptional control by the p53 tumor suppressor . Inhibition of SLC2A9 activity by use of small interfering RNAs or the urate-lowering drugs probenecid and benzbromarone increases ROS levels in a urate-dependent manner and increases susceptibility of cancer cells to apoptotic cell death induced by the chemotherapeutic agent cisplatin . Notably, samples from four tumor types (prostate, renal, testis, and andrenal) showed reduced SLC2A9 expression, and survival is better in gastric cancers with higher SLC2A9 expression. Collectively, these data implicate a role for SLC2A9 in countering intracellular ROS by transport of urate (which reduces ROS) and provide support for the controversial hypothesis (based on observational data) linking uric acid to protection from cancer [22,25]. There could be therapeutic potential in inhibiting SLC2A9 in order to chemosensitize cancer cells by increasing ROS levels .
The hepatic metabolism of fructose generates urate through generation of ADP and catabolism through the purine degradation pathway and is one biochemical explanation for the association of sugar-sweetened beverage (SSB) consumption with urate levels and the risk of gout [26,27]. Given that SLC2A9 also transports fructose and glucose , it is reasonable to hypothesize that fructose could also directly interfere with renal uric acid transport. Therefore, a recent clinical study examined the SLC2A9 genotype-dependent acute hyperuricemic response to a fructose load . When a genetic variant (rs11942223) largely equivalent to the most strongly associated SLC2A9 variant in the GWAS by Köttgen and colleagues  (Table 1) was used, the urate-lowering allele was associated with an attenuated hyperuricemic response and increased fractional excretion of uric acid (FEUA) in people of European ancestry (Figure 2) . However, despite an appreciable prevalence in participants of New Zealand Polynesian (Maori and Pacific) ancestry (18% versus 32% in Europeans), there was no relationship between positivity for the urate-raising allele and the hyperuricemic and FEUA response to the fructose load, despite prior evidence for association of rs11942223 with gout in Polynesians . It is possible that there is a Polynesian-specific genetic variant in SLC2A9 that encodes a functional effect that overrides the genotype-specific FEUA effect seen in European Caucasians.
An epidemiological observational study also investigated the hypothesis that simple sugar (in the form of SSBs) interacts with the SLC2A9 genotype in influencing serum urate levels and the risk of gout . Upon exposure to SSB, the normally urate-lowering allele at the rs11942223 variant has a transmutation of effect and raises urate in response to SSB, an effect not seen with artificially sweetened beverages (Figure 2). A similar pattern was seen in the risk of gout . From the current state of knowledge and given the complexity of urate transport in the renal tubule, it is difficult to propose a plausible mechanism to explain this non-additive interaction. The epidemiological observations also are inconsistent with the increased FEUA in response to an acute fructose load associated with the urate-lowering allele, suggesting that distinct biological mechanisms underlie the observation by Dalbeth and colleagues  and the interaction data reported by Batt and colleagues . The effects of chronic exposure to fructose-containing SSB would more likely involve other mechanisms (for example, epigenetic) that influence the expression and activity of SLC2A9.
Genetic complexity at SLC2A9
The urate association signal at the SLC2A9 locus is extensive with hundreds of genetic variants extremely strongly associated, with the strongest association encompassing a very large region (500 kb) and two genes (SLC2A9 and WDR1) (Figure 3) . WDR1 encodes a protein involved in disassembly of actin fibers that has been implicated in carditis - not an obvious urate-influencing gene. It is thus difficult to determine whether the genetic effect at SLC2A9 is caused by a single genetic variant with very strong effect that drives the widespread association owing to extensive intermarker ‘linkage disequilibrium’. This can be studied by ‘conditional analysis’, whereby the association with phenotype of other variants at a locus is tested conditionally on the effect of the strongest associated variant at the locus. Köttgen and colleagues  attempted to address this important question and concluded that there was no evidence for multiple independent effects. However, their approach was dictated by a limitation inherent in meta-analyses from many separate studies (n = 48 in their case) in that summary level statistics from each of the studies are combined and it is not possible (for ethical and practical reasons) to combine data from individual participants.
In contrast to the findings of Köttgen and colleagues , the possibility of independent effects at SLC2A9 is supported by two studies. The first is a GWAS of serum urate levels in East Asians . As in Europeans, the strongest genome-wide association with urate was at SLC2A9, but with a different single-nucleotide polymorphism (SNP) variant (rs3775948). The most strongly associated variant in the study by Köttgen and colleagues  (rs12498742) was not associated in the East Asian GWAS and this was probably because of the rarity of the minor allele (prevalence of approximately 1%). This suggests that there are at least two causal variants controlling urate levels at SLC2A9. The second study was a GWAS testing for association of common copy number variation with serum urate in Europeans . This type of variation occurs when chromosomal segments over 1 kb in length deviate from the diploid state, and is a genetic and evolutionary mechanism that can generate significant changes in gene expression from a single mutation event. Examples are the immune CCL3L1 and FCGR3B genes that vary from zero to copy number of greater than four in the human genome. Copy number of these genes is a risk factor for autoimmune disease [32,33]. The only copy number variations associated with urate in the GWAS at a genome-wide level of significance were two separate segments at the SLC2A9 locus . These variants are 200 kb and 350 kb upstream of SLC2A9 (Figure 3) and deletion of 12-kb and 7.5-kb segments, respectively, at each copy number variant associates with, respectively, decreased and increased urate levels of approximately 5% in women and approximately 1% in men . Importantly, by conditional analysis, the association of these copy number variants was genetically independent of the previously reported effect at SLC2A9 . Thus, there is evidence for three independent variants in SLC2A9 that influence urate levels in Europeans and for a separate variant in East Asians. Although it is not known whether either of the copy number variants is causal or in strong linkage disequilibrium with an unidentified causal variant, at least one is a strong candidate for being causal. The 350-kb upstream variant abuts a DNAse hypersensitivity peak in fetal and adult kidney tissue, suggesting that deletion of the 7.5-kb segment could influence binding of proteins that regulate expression of SLC2A9 .
The study by Wei and colleagues  is consistent with the above studies in providing evidence for multiple independent genetic effects at the SLC2A9 locus; using conditional analysis, they found direct evidence for five independent genetic effects. Furthermore, additional complexity in genetic control of urate levels at SLC2A9 was revealed. In a genome-wide scan in 9,172 individuals of European ancestry for epistasis (non-additive interaction) between genetic variants in influencing urate levels, the only genome-wide significant effects were seen for five SNP pairs at the SLC2A9 locus, in a 30-kb region upstream of the WDR1 gene (Figure 3). At least one of these was statistically independent of the aforementioned five independent genetic effects. Collectively, the independent SNPs and the interacting SNP pairs explained 6.0% of the variance in urate levels in the European data set analyzed; this is an exceptionally large effect for a genetic locus regulating a complex phenotype. Evidence for an unusual enrichment of chromatin interactions (mediated by enhancers) was found in both the WDR1-ZNF518B and SLC2A9-WDR1 intergenic regions, which included the interacting SNP pairs. This generates the hypothesis that SLC2A9 and WDR1 may be co-transcribed or share transcriptional regulatory machinery. As a final comment, given that SLC2A9 is part of the renal uric acid ‘transportasome’ , which contains other genetically regulated uric acid transporters and accessory molecules, it was surprising that epistatic interactions between SLC2A9 and other loci throughout the genome were not discovered by Wei and colleagues . It will be important to repeat this genome-wide epistasis scan in larger data sets.
Association of the ABCG2 locus with serum urate was first reported in the GWAS by Dehghan and colleagues . The genetic basis is considerably simpler than that at SLC2A9, and the association signal is reported to be driven solely by the rs2231142 (Q141K) variant . This variant is highly likely to be causal . The ABCG2 protein (also known as breast cancer resistance protein) is a multidrug transport protein transporting a wide range of molecules, including chemotherapeutic agents. It is a secretory uric acid transporter in the proximal tubule and the gut [36,38]. Interestingly, the urate-increasing allele at rs2231142 (141 K) is associated with increased urinary uric acid output [38,39]. In mice, an Abcg2 knockout also showed increased renal but decreased gut uric acid excretion . This allele was also associated with a reduced increase in serum urate and glucose in response to a fructose load . Collectively, these results show that the urate-increasing allele at ABCG2 does not act directly via direct effects on renal uric acid transport but through increased gut excretion. Histone deacetylase inhibitors are able to correct the ABCG2 141 K urate-increasing ‘defect’ . ABCG2 Q141K may also interact with extra-renal metabolic pathways to regulate serum urate (for example, via an influence on hepatic conversion of fructose to glucose) . Ichida and colleagues  propose that ABCG2 defines one of three pathways contributing to hyperuricemia, namely extra-renal uric acid under-excretion, the other two being genuine urate over-production and renal uric acid under-excretion.
The study by Köttgen and colleagues
The large GWAS by Köttgen and colleagues  reported 18 new loci with a weaker effect on urate levels than the previously identified 10; the new 18 explained a further 1.8% of variance in urate levels compared with 5.2% for the 10 previously known loci. Notably, none of the new loci contained genes encoding known uric acid transporters, although an association with almost genome-wide significance was detected in the SLC2A7 locus (encoding the organic anion transporter 2) in a candidate gene secondary analysis. Summarized in Table 1, the study by Köttgen and colleagues contains a treasure trove of information on the control of urate levels.
Candidate genes at each locus were identified by Köttgen and colleagues by using Gene Relationships Across Implicated Loci (GRAIL) , a bioinformatic approach that looks for commonalities between associated SNPs, the literature, and published GWASs. The GRAIL genes were mapped into two broad pathways: glycolysis and inhibins/activins. The relevance of the glycolysis genes to urate likely reflects hepatic production of urate (from sugar and alcohol) via increased generation of glucose-6-phosphate that flows through the pentose-phosphate pathway generating ribose-5-phosphate, a precursor of purine synthesis. Generation of lactic acid from anaerobic glycolysis could also interfere with renal uric acid excretion. This possibility is consistent with the strong association of the GCKR locus with fractional excretion of uric acid (the GCKR protein inhibits glucokinase that produces glucose-6-phosphate) . Köttgen and colleagues noted that the associations with loci containing genes involved in glucose homeostasis fit with the observation that drugs that decrease insulin resistance (for example, metformin) also tend to decrease serum urate levels, indicating possible new approaches for management of urate levels. The relevance of the inhibins/activins is not clear; Köttgen and colleagues  suggested processes such as energy balance, insulin release, apoptosis, inflammation, and sex hormone regulation.
There is one very important caveat in interpreting the GWAS findings: the considerable majority of the GRAIL-identified genes cannot be assumed as causal. Extensive linkage disequilibrium (intermarker correlation) results in association signals extending for some distance across many loci. This means that multiple candidate genes can exist (see examples in Figure 4). To identify the causal gene at each locus will require further genetic research, beginning with resequencing of candidate genes in each locus with the causal gene predicted to have a larger burden of rare functional variants in extreme hyperuricemia. This approach can be complemented by trans-ancestral mapping with the most likely common causal variant (that is, the effect identified by Köttgen and colleagues) predicted to be most strongly associated with urate levels (and gout) between diverse ancestral groups. Alongside this approach, identification of ancient recombinant haplotypes that differ between ancestral groups can aid in fine-mapping. A third approach that was employed by Köttgen and colleagues  to identify likely candidate genes is underpinned by the hypothesis that the causal variant is an ‘eSNP’ (expression SNP) that influences the expression of the causal gene at the locus. This is a strong hypothesis given that approximately 70% of genetic variants for common phenotypes identified by GWASs map to regulatory regions of the genome . The authors correlated the significant urate-associated SNPs with expression of genes in various tissues from publically available databases. The tissues included various white blood cells, adipose, various neural cells, fibroblasts, osteoblasts, and liver, although no renal tissue or cell line was analyzed. Of the total 28 genome-wide significant loci, eight showed strong (P < 1 × 10−4) evidence for association with multiple expression probes. Notable in this analysis was clear evidence that the intergenic association signal at the INHBB locus (Figure 4) was associated with expression of INHBB in the liver. This provides evidence that INHBB is the causal gene at this locus. At ABCG2, the rs2231142 variant (Q141K), which is highly likely to be a causal variant at this locus , was associated with ABCG2 expression in the liver . This is consistent with functional evidence that the urate-increasing allele (141 K) reduces ABCG2 protein expression levels  and with the hypothesis that ABCG2 (known to transport uric acid ) operates in extra-renal pathways to influence urate levels . There was association with expression of both BAZ1B and MLXIPL in adipose tissue at the BAZ1B locus. This may reflect co-ordinated expression of closely linked genes but is consistent with the role of MLXIPL (which encodes the glucose-responsive transcription factor ChREBP) in transcriptional activation of glycolytic genes. Interpretation of results at the remaining five loci (TRIM46, GCKR, SFMBT1, SLC17A1, and ATXN2) is less obvious. For example, there was strong association with multiple expression probes in neural expression data sets with the CUX2 gene at the ATXN2 locus. The eSNP approach does need to be reapplied to the 28 urate loci by using a wider range of tissue expression data sets that include renal tissue and gut enterocytes from different developmental stages.
There are some loci where the causal gene appears obvious (HLF, HNF4G, IGF1R, and PRKAG2) where the associated signal is tightly restricted within a single gene (Table 1 and Figure 4). However, other approaches (genetic and functional) are required to confirm these as the causal genes. The FTO locus in weight control is a salutary example. Given the tight restriction of the association signal to the FTO gene, it has been widely assumed that the causal effect owes to the FTO protein. However, it has now been shown that the weight-associated variants in FTO interact with the promoter of the neighboring IRX3 gene , suggesting that IRX3 may mediate the effect of the association signal at FTO. Some signals are tightly restricted to an intergenic segment (INHBB, MAF, and VEGFA), indicating that urate control is probably enhancer-mediated by control of expression of the causal gene. These association signals illustrate that the considerable majority of common genetic variants associated with human phenotypes map to functionally important regions of the genome that regulate gene expression . As illustrated by INHBB , the eSNP approach will be particularly useful in these situations.
Genetic contribution in different ancestral groups
Population groups such as Taiwanese Aborigines and Polynesians (primarily Samoan, Tonga, Niuean, Tokelauan, and Cook Island and New Zealand Maori) have inherently higher serum urate levels, as evidenced by mid-20th century epidemiological studies and prehistoric evidence for gout . The contemporary populations have gout prevalences of more than double those of other population groups (Europeans, for example ). This suggests that an increased prevalence of urate-raising genetic variants, some of which may be unique, contributes to urate-raising and risk of gout. This hypothesis has generally been difficult to assess, with only urate-raising variants discovered in Europeans examined thus far. There is, however, some indication that prevalences of urate-raising alleles are higher and effect sizes are stronger in Taiwanese Aborigines and Polynesians [45,46]. To better evaluate the possible contribution of population-specific genetic variants, known and candidate urate loci need to be resequenced in Taiwanese Aborigines and Polynesians.
The urate-associated genetic variants as tools for Mendelian randomization studies
An important biomedical question is whether hyperuricemia and gout are causal of associated metabolic conditions such as hypertension and heart and kidney disease. Observational studies that account for measured confounders suggest that hyperuricemia is causal. However, these studies, no matter how well designed, cannot remove all sources of confounding. Because genetic variants associated with phenotype are biological exposures present since conception, the biological processes they influence can be regarded as causal of phenotype. This tenet provides the basis for the Mendelian randomization genetic technique that is increasingly being applied to understand biological cause-effect relationships and that removes confounding as a fundamental issue in disentangling cause-effect relationships. This technique can be likened to a randomized clinical trial, whereby individuals are randomly assigned by nature to separate exposure (allele that raises biological exposure of interest) and control (other allele) groups at gamete formation and conception and followed for disease outcome. Using urate-associated genetic variants, particularly those within the SLC2A9 locus, as surrogates for the exposure (urate) Mendelian randomization has provided evidence that urate is not causal for ischemic heart disease, metabolic syndrome, reduced renal function, or increased triglyceride levels [47-50].
The missing heritability in urate control: common variants and gene-environment interaction
Heritability is defined as the proportion of phenotypic variability that is explained by inherited genetic variants. In humans, it is usually calculated from twin studies that compare phenotypic concordance between mono- and di-zygotic twin pairs. It includes all genetic effects, including epistasis (non-additive genetic interactions) and non-additive interactions with environmental exposures (GxE). Heritability of urate levels is estimated to be approximately 60% . Typical of the situation for other complex phenotypes, the proportion of variance in urate levels explained by common genetic variants detected by GWAS is low (7.0%) , accounting for only a small proportion of the genetic component. This problem has been termed the ‘missing heritability’ , with the explanation(s) for this phenomenon unresolved.
In GWAS data sets, calculations to estimate the contributions of SNPs to heritability use cross-sectional case–control data. These yield the ‘narrow-sense’ heritability (h 2), in which only the heritability from the average effect of genetic variants acting independently (additively) is estimated and contributions from epistasis and non-additive gene-environment (GxE) interactions are ignored. There are various theories to explain the missing heritability: (a) that common causal variants of weak effect go undetected in GWASs, (b) that undetected rare variants with larger effect sizes contribute, (c) that the heritability estimates of known genetic variants that are derived from the narrow-sense models are under-estimated owing to the unaccounted contribution of epistasis between loci, and (d) similarly that narrow-sense heritability estimates are under-estimated because of the unaccounted for contribution of non-additive GxE effects. In control of urate, there is evidence to support possibility (a); 27% to 41% (depending on the data set) of heritability is explained when all common SNPs and not just the statistically significant SNPs are considered . It will be possible to address possibility (b) when all genetic variation can be evaluated from large whole-genome sequence data sets. Improvement in analytical approaches and computational power will allow testing of (c) from current GWAS data. Regarding (d), there is evidence that non-additive GxE interactions will explain an under-appreciated proportion of the missing heritability in urate. In addition to the SLC2A9-SSB interaction discussed previously , there is non-additive interaction between alcohol exposure and the lipoprotein receptor-related protein 2 gene (LRP2) (rs2544390) in the risk of gout in Polynesian populations, where the protective effect of the T-positive genotype is negated by exposure to alcohol . Finally, a non-additive interaction between diuretic use and genotype at each of SLC2A9 and SLC22A11 in the risk of gout in hypertensive people has been reported in the Atherosclerosis Risk in Communities study . These findings, subject to wider replication and support from interventional studies, also raise the possibility of personalized approaches to the management of hyperuricemia.
Association of the urate loci with gout
As expected, most of the urate loci are also risk factors for gout [4,12,13], with only four loci (INHBB, HNF4G, UBE2Q2, and BCAS3) yet to be formally associated with gout at a nominal level of significance. Use of larger gout case sample sets should enable this to be done. The urate-raising allele in Europeans is associated with increased risk of gout in the considerable majority of circumstances, including in Polynesians . Exceptions to this are PRKAG2 and HLF where the European urate-raising allele protects from gout in Polynesians . This observation could be useful in fine-mapping the causal variant at each locus under the hypothesis that the associated SNPs (rs10480300 and rs7224610) are not causal and that there is a recombinant haplotype differentiating gout risk at these loci. The causal variant can be expected to map to surrounding DNA where the same allele of genetic variants would consistently associate with risk of gout in both ancestral groups.
While correlation between increased effect size on urate and effect size on gout is seen , it is logical to expect that genetic variants with a similar effect on serum urate should have a similar effect on the risk of gout. However, this is not necessarily the case. The risk alleles of GCKR, SLC16A9, SLC22A11, and INHBC are associated with an average increase in serum urate of 0.004 mmol/L . Of these loci, GCKR has an effect size that is consistently higher in gout; GCKR is associated with gout in European, Chinese, Japanese, and Polynesian sample sets (odds ratio (OR) = 1.3 to 1.5 in sample sets where gout is clinically ascertained) [4,12,13,55]. INHBC is also consistently associated in European and Polynesian though with a lower OR of approximately 1.15 [4,12]. In contrast, SLC22A11 is not consistently associated with gout, and the evidence for association reported by Köttgen and colleagues  in Europeans (OR = 1.14) has not been replicated elsewhere (OR = 0.98) . The even weaker evidence for association of SLC16A9 with gout in Köttgen and colleagues  (OR = 1.10, P = 0.017) was also not replicated elsewhere (OR = 1.01) . So there are clearly inconsistent effects on association with gout among the four loci with very similar effects on serum urate. These observations may result from a lack of independence between molecular pathways of serum urate control and clinical presentation of gout in the presence of hyperuricemia (that is, pleiotropic effects of the urate-associated loci) or from confounding of serum urate and risk of gout effect sizes by unmeasured or unaccounted for environmental exposures (for example, as seen at SLC2A9) or from both. In future clinical and epidemiological studies, it will be important to investigate why loci such as SLC16A9 and SLC22A11 inconsistently associate with gout.
Genetics of gout in the presence of hyperuricemia
The heritability of gout is unclear, and the only twin study reported a wide 95% confidence interval (0% to 58.1%) . Despite this uncertainty, it is reasonable to expect that genetic variants control the development of gout in the presence of hyperuricemia; although hyperuricemia is necessary for gout, it is not sufficient as not all hyperuricemic people develop gout. The strongest candidate genes are those influencing the innate immune recognition of and response to MSU crystals, although genes involved in MSU crystal formation are possible. However, there is only one replicated association of an immune gene with gout: an SNP within the candidate TLR4 innate immune gene is associated with gout in Chinese (OR = 1.42, P < 1 × 10−4) . This association was not evident in Europeans when unstratified controls are used (OR = 1.26, P = 0.10). Importantly, however, the effect size increases considerably and the association is statistically significant when asymptomatic hyperuricemic controls are used (OR = 1.63, P = 0.009) .
The largest gout GWAS published to date used 3,000 European cases nested within the cohorts used in the urate GWAS by Köttgen and colleagues . The gout GWAS yielded disappointing results; only SLC2A9 and ABCG2 were associated at a genome-wide level of significance. A major reason for this is the phenotyping where cases were ascertained by self-report or the use of allopurinol (which is also used in asymptomatic hyperuricemia) or both, resulting in ‘case’ sample sets that will include participants without gout. The SLC17A1 locus has the third strongest effect on serum urate  and has been associated with gout in candidate gene studies in Japanese, European, and Polynesian sample sets ascertained by clinical assessment, where the OR was consistently approximately 1.5 [58,59]. Notably, the effect size for SLC17A1 in the aforementioned gout GWAS was considerably weaker at an OR of 1.16 . Although there was significant association when the locus was specifically tested (P = 0.01), the weaker effect meant that the signal was hidden in the statistical noise inherent in a GWAS. Thus, there is a need for a gout GWAS in clinically ascertained sample sets in order to identify non-serum urate genetic risk factors for gout (for example, TLR4) which are likely to have weak effects (OR <1.4). Ideally, such a GWAS would use people with asymptomatic hyperuricemia as controls, who would be expected to have inherited genetic variants protecting from development of gout in the presence of hyperuricemia.
Expression single-nucleotide polymorphism
Fractional excretion of uric acid
Gene Relationships Across Implicated Loci
Genome-wide association study
Reactive oxygen species
Campion EW, Glynn RJ, DeLabry LO. Asymptomatic hyperuricemia. Risks and consequences in the Normative Aging Study. Am J Med. 1987;82:421–6.
Busso N, So A. Mechanisms of inflammation in gout. Arthritis Res Ther. 2010;12:206.
Robinson P, Horsburgh S. Gout: joints and beyond, epidemiology, clinical features, treatment and co-morbidities. Maturitas. 2014;78:245–51.
Köttgen A, Albrecht E, Teumer A, Vitart V, Krumsiek J, Hundertmark C, et al. Genome-wide association analyses identify 18 new loci associated with serum urate concentrations. Nat Genet. 2013;45:145–54.
Dehghan A, Köttgen A, Yang Q, Hwang SJ, Kao WL, Rivadeneira F. Association of three genetic loci with uric acid concentration and risk of gout: a genome-wide association study. Lancet. 2008;372:1953–61.
Kolz M, Johnson T, Sanna S, Teumer A, Vitart V, Perola M, et al. Meta-analysis of 28,141 individuals identifies common variants within five new loci that influence uric acid concentrations. PLoS Genet. 2009;5:e1000504.
Yang Q, Köttgen A, Dehghan A, Smith AV, Glazer NL, Chen MH, et al. Multiple genetic loci influence serum urate levels and their relationship with gout and cardiovascular disease risk factors. Circ Cardiovasc Genet. 2010;3:523–30.
Merriman TR, Choi HK, Dalbeth N. The genetic basis of gout. Rheum Dis Clin North Am. 2014;40:279–90.
Merriman TR, Dalbeth N. The genetic basis of hyperuricaemia and gout. Joint Bone Spine. 2011;78:35–40.
Reginato AM, Mount DB, Yang I, Choi HK. The genetics of hyperuricaemia and gout. Nat Rev Rheumatol. 2012;8:610–21.
Riches PL, Wright AF, Ralston SH. Recent insights into the pathogenesis of hyperuricaemia and gout. Hum Mol Genet. 2009;18:R177–84.
Phipps-Green AJ, Merriman ME, Topless R, Altaf S, Montgomery GW, Franklin C, et al. Twenty-eight loci that influence serum urate levels: analysis of association with gout. Ann Rheum Dis. 2014;Sep 3. pii: annrheumdis-2014-205877. doi:10.1136/annrheumdis-2014-205877. [Epub ahead of print].
Urano W, Taniguchi A, Inoue E, Sekita C, Ichikawa N, Koseki Y, et al. Effect of genetic polymorphisms on development of gout. J Rheumatol. 2013;40:1374–8.
Kimura T, Takahashi M, Yan K, Sakurai H. Expression of SLC2A9 isoforms in the kidney and their localization in polarized epithelial cells. PLoS One. 2014;9:e84996.
Caulfield MJ, Munroe PB, O’Neill D, Witkowska K, Charchar FJ, Doblado M, et al. SLC2A9 is a high-capacity urate transporter in humans. PLoS Med. 2008;7:e197.
Doring A, Gieger C, Mehta D, Gohlke H, Prokisch H, Coassin S, et al. SLC2A9 influences uric acid concentrations with pronounced sex-specific effects. Nat Genet. 2008;40:430–6.
Vitart V, Rudan I, Hayward C, Gray NK, Floyd J, Palmer CN, et al. SLC2A9 is a newly identified urate transporter influencing serum urate concentration, urate excretion and gout. Nat Genet. 2008;40:437–42.
Preitner F, Bonny O, Laverrière A, Rotman S, Firsov D, Da Costa A, et al. Glut9 is a major regulator of urate homeostasis and its genetic inactivation induces hyperuricosuria and urate nephropathy. Proc Natl Acad Sci U S A. 2009;106:15501–6.
Witkowska KSK, Yao SY, Ng AM, O’Neill D, Karpinski E, Young JD, et al. Human SLC2A9a and SLC2A9b isoforms mediate electrogenic transport of urate with different characteristics in the presence of hexoses. Am J Physiol Renal Physiol. 2012;15:F527–39.
DeBosch B, Kluth O, Fujiwara H, Schϋrmann A, Moley KH. Early-onset metabolic syndrome in mice lacking the intestinal uric acid transporter Slc2a9. Nat Commun. 2014;5:4642.
Cheeseman C. Solute carrier family 2, member 9 and uric acid homeostasis. Curr Op Nephrol Hypertens. 2009;18:428–32.
Ames BN, Cathcart R, Schwiers E, Hochstein P. Uric acid provides an antioxidant defense in humans against oxidant- and radical-caused aging and cancer: a hypothesis. Proc Natl Acad Sci U S A. 1981;78:6858–62.
Johnson RJ, Andrews P, Benner SA, Oliver W, Theodore E. Woodward award. The evolution of obesity: insights from the mid-miocene. Trans Am Clin Climatol Assoc. 2010;121:295–305.
Itahana Y, Han R, Barbier S, Lei Z, Rozen S, Itahana K. The uric acid transporter SLC2A9 is a direct target gene of the tumor suppressor p53 contributing to antioxidant defense. Oncogene. 2014 May 26 [Epub ahead of print].
Boffetta P, Nordenvall C, Nyrén O, Ye W. A prospective study of gout and cancer. Eur J Cancer Prev. 2009;18:127–32.
Batt C, Phipps-Green A, Black MA, Cadzow M, Merriman ME, Topless R, et al. Sugar-sweetened beverage consumption: a risk factor for prevalent gout with SLC2A9 genotype-specific effects on serum urate and risk of gout. Ann Rheum Dis. 2014;73:2101–6.
Choi JW, Ford ES, Gao X, Choi HK. Sugar-sweetened soft drinks, diet soft drinks, and serum uric acid level: The Third National Health and Nutrition Examination Survey. Arthritis Rheum. 2008;59:109–16.
Dalbeth N, House ME, Gamble GD, Horne A, Pool B, Purvis L, et al. Population-specific influence of SLC2A9 genotype on the acute hyperuricaemic response to a fructose load. Ann Rheum Dis. 2013;72:1868–73.
Hollis-Moffatt JE, Xu X, Dalbeth N, Merriman ME, Topless R, Waddell C, et al. Role of the urate transporter SLC2A9 gene in susceptibility to gout in New Zealand Maori, Pacific Island and Caucasian case–control sample sets. Arthritis Rheum. 2009;60:3485–92.
Okada Y, Sim X, Go MJ, Wu JY, Gu D, Takeuchi F, et al. Meta-analysis identifies multiple loci associated with kidney function-related traits in east asian populations. Nat Genet. 2012;44:904–9.
Scharpf RB, Mireles L, Yang Q, Köttgen A, Ruczinski I, Susztak K, et al. Copy number polymorphisms near slc2a9 are associated with serum uric acid concentrations. BMC Genet. 2014;15:81.
McKinney C, Merriman ME, Chapman PT, Gow PJ, Harrison AA, Highton J, et al. Evidence for an influence of chemokine ligand 3-like 1 (CCL3L1) gene copy number on susceptibility to rheumatoid arthritis. Ann Rheum Dis. 2008;67:409–13.
McKinney C, Merriman TR. Meta-analysis confirms a role for deletion in FCGR3B in autoimmune phenotypes. Hum Mol Genet. 2012;21:2370–6.
Wei W-H, Guo Y, Kindt AS, Merriman TR, Semple CA, Wang K, et al. Abundant local interactions in the 4p16. 1 region suggest functional mechanisms underlying SLC2A9 associations with human serum uric acid. Hum Mol Genet. 2014;23:5061–8.
Dalbeth N, Merriman T. Crystal ball gazing: new therapeutic targets for hyperuricaemia and gout. Rheumatol. 2009;48:222–6.
Woodward OM, Köttgen A, Coresh J, Boerwinkle E, Guggino WB, Köttgen M. Identification of a urate transporter, ABCG2, with a common functional polymorphism causing gout. Proc Natl Acad Sci U S A. 2009;106:10338–42.
Woodward OM, Tukaye DN, Cui J, Greenwell P, Constantoulakis LM, Parker BS, et al. Gout-causing Q141K mutation in ABCG2 leads to instability of the nucleotide-binding domain and can be corrected with small molecules. Proc Natl Acad Sci U S A. 2013;110:5223–8.
Ichida K, Matsuo H, Takada T, Nakayama A, Murakami K, Shimizu T, et al. Decreased extra-renal urate excretion is a common cause of hyperuricemia. Nat Commun. 2012;3:764.
Dalbeth N, House ME, Gamble GD, Pool B, Horne A, Purvis L, et al. Influence of the ABCG2 gout risk 141 K allele on urate metabolism during a fructose challenge. Arthritis Res Ther. 2014;16:R34.
Raychaudhuri S, Plenge RM, Rossin EJ, Ng AC, Purcell SM, Sklar P, et al. Identifying relationships among genomic disease regions: Predicting genes at pathogenic SNP associations and rare deletions. PLoS Genet. 2009;5:e1000534.
Maurano MT, Humbert R, Rynes E, Thurman RE, Haugen E, Wang H, et al. Systematic localization of common disease-associated variation in regulatory DNA. Science. 2012;337:1190–5.
Smemo S, Tena JJ, Kim KH, Gamazon ER, Sakabe NJ, Gómez-Marín C, et al. Obesity-associated variants within FTO form long-range functional connections with IRX3. Nature. 2014;507:371–5.
Gosling A, Matisoo-Smith E, Merriman TR. Hyperuricaemia in the Pacific: why the elevated serum urate levels? Rheumatol Int. 2014;34:743–57.
Winnard D, Wright C, Taylor WJ, Jackson G, Te Karu L, Gow PJ, et al. National prevalence of gout derived from administrative data in New Zealand. Rheumatology. 2012;51:901–9.
Flynn T, Phipps-Green A, Hollis-Moffatt JE, Merriman ME, Topless R, Montgomery GW, et al. Association analysis of the SLC22A11 (OAT4) and SLC22A11 (URAT1) urate transporter locus with gout in New Zealand case–control sample sets reveals multiple ancestral-specific effects. Arthritis Res Ther. 2013;15:R220.
Merriman TR. Population heterogeneity in the genetic control of serum urate. Semin Nephrol. 2011;31:420–5.
Hughes K, Flynn T, de Zoysa J, Dalbeth N, Merriman TR. Mendelian randomization analysis associates increased serum urate, due to genetic variation in uric acid transporters, with improved renal function. Kidney Int. 2014;85:344–51.
McKeigue PMCH, Wild S, Vitart V, Hayward C, Rudan I, Wright AF, et al. Bayesian methods for instrumental variable analysis with genetic instruments (‘mendelian randomization’): example with urate transporter slc2a9 as an instrumental variable for effect of urate levels on metabolic syndrome. Int J Epidemiol. 2010;39:907–18.
Palmer TM, Nordestgaard BG, Benn M, Tybjærg-Hansen A, Smith GD, Lawlor DA, et al. Association of plasma uric acid with ischaemic heart disease and blood pressure: Mendelian randomization analysis of two large cohorts. BMJ. 2013;347:f4262.
Rasheed H, Hughes K, Flynn TJ, Merriman TR. Mendelian randomization provides no evidence for a causal role of serum urate in increasing serum triglyceride levels. Circ Cardiovasc Genet. 2014;7:830–7.
Krishnan E, Lessov-Schlaggar CN, Krasnow RE, Swan GE. Nature versus nurture in gout: a twin study. Am J Med. 2012;125:499–504.
Manolio TA, Collins FS, Cox NJ, Goldstein DB, Hindorff LA, Hunter DJ, et al. Finding the missing heritability of complex diseases. Nature. 2009;461:747–53.
Rasheed H, Phipps-Green A, Topless R, Hollis-Moffatt JE, Hindmarsh JH, Franklin C, et al. Association of the lipoprotein receptor-related protein 2 gene with gout and non-additive interaction with alcohol consumption. Arthritis Res Ther. 2013;15:R177.
McAdams-DeMarco MA, Maynard JW, Baer AN, Kao LW, Köttgen A, Coresh J. A urate gene-by-diuretic interaction and gout risk in participants with hypertension: results from the ARIC study. Ann Rheum Dis. 2013;72:701–6.
Wang J, Liu S, Wang B, Miao Z, Han L, Chu N, et al. Association between gout and polymorphisms in GCKR in male Han Chinese. Hum Genet. 2012;131:1261–5.
Qing YF, Zhou JG, Zhang QB, Wang DS, Li M, Yang QB, et al. Association of TLR4 gene rs2149356 polymorphism with primary gouty arthritis in a case–control study. PLoS One. 2013;8:e64845.
Merriman T, Topless R, Day R, Kannangara D, Williams K, Bradbury L, et al. Association of the toll-like receptor 4 (TLR4) gene with gout. Ann Rheum Dis. 2014;73, THU0493.
Hollis-Moffatt JE, Phipps-Green AJ, Chapman B, Jones GT, van Rij A, Gow PJ, et al. The renal urate transporter SLC17A1 locus: confirmation of association with gout. Arthritis Res Ther. 2012;14:R92.
Urano W, Taniguchi A, Anzai N, Inoue E, Kanai Y, Yamanaka M, et al. Sodium-dependent phosphate cotransporter type 1 sequence polymorphisms in male patients with gout. Ann Rheum Dis. 2010;6:1232–4.
Bonomo JA, Guan M, Ng MC, Palmer ND, Hicks PJ, Keaton JM, et al. The ras responsive transcription factor RREB1 is a novel candidate gene for type 2 diabetes associated end-stage kidney disease. Hum Mol Genet. 2014;23:6441–7.
Tragante V, Barnes MR, Ganesh SK, Lanktree MB, Guo W, Franceschini N, et al. Gene-centric meta-analysis in 87,736 individuals of european ancestry identifies multiple blood-pressure-related loci. Am J Hum Genet. 2014;94:349–60.
Berndt SI, Gustafsson S, Mägi R, Ganna A, Wheeler E, Feitosa MF, et al. Genome-wide meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture. Nat Genet. 2013;45:501–12.
Kraja AT, Chasman DI, North KE, Reiner AP, Yanek LR, Kilpeläinen TO, et al. Pleiotropic genes for metabolic syndrome and inflammation. Mol Genet Metab. 2014;112:317–38.
The author would like to thank Philip Tan for sharing his expertise on SLC2A9.
The author declares that he has no competing interests.
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Merriman, T.R. An update on the genetic architecture of hyperuricemia and gout. Arthritis Res Ther 17, 98 (2015). https://doi.org/10.1186/s13075-015-0609-2
- Uric Acid
- Serum Urate
- Mendelian Randomization