Functional variants of antioxidant genes in smokers with COPD and in those with normal lung function
- R P Young1,
- R Hopkins2,
- P N Black1,
- C Eddy1,
- L Wu1,
- G D Gamble1,
- G D Mills4,
- J E Garrett3,
- T E Eaton2,
- M I Rees5
- 1Department of Medicine, University of Auckland, Auckland, New Zealand
- 2Respiratory Services, Green Lane Hospital, Auckland, New Zealand
- 3Department of Respiratory Medicine, Middlemore Hospital, South Auckland, New Zealand
- 4Department of Respiratory Medicine, Waikato Hospital, Hamilton, New Zealand
- 5School of Medicine, University of Wales Swansea Singleton Park, Swansea, UK
- Correspondence to:
Dr R Young
Department of Medicine, Auckland Hospital, Private Bag 92024, Auckland, New Zealand;
- Received 2 September 2005
- Accepted 6 February 2006
- Published Online First 7 February 2006
Background: Chronic obstructive pulmonary disease (COPD) is predominantly the consequence of chronic smoking exposure, but its development may be influenced by genetic variants that affect lung remodelling, inflammation, and defence from oxidant stress. A study was undertaken to determine whether genetic variants within genes encoding the antioxidant enzymes superoxide dismutase (SOD) and catalase may be associated with the development of impaired lung function.
Methods: In a case-control study, the allele and genotype frequencies of functional polymorphisms from SOD1 (CuZnSOD), SOD2 (MnSOD), SOD3 (extracellular SOD), and catalase (CAT) were compared in chronic smokers with normal lung function (resistant smokers) and in those with COPD.
Results: Significantly higher frequencies of the G allele and CG/GG genotype of the 213 SOD3 polymorphism were found in resistant smokers (odds ratios (ORs) 4.3 (95% CI 1.5 to 13.3) and 4.2, 95% CI 1.4 to 13.3), Bonferroni corrected p = 0.02 and p = 0.02, respectively) than in those with COPD. There were no differences between the COPD and resistant smokers for the SOD1, SOD2, or CAT polymorphisms tested.
Conclusions: The 213Gly variant of the SOD3 gene may, through antioxidant or anti-inflammatory effects, confer a degree of resistance in some smokers to the development of COPD.
- COPD, chronic obstructive pulmonary disease
- FEV1, forced expiratory volume in 1 second
- FVC, forced vital capacity
- SNP, single nucleotide polymorphism
- SOD, superoxide dismutase
It is estimated that over 90% of patients diagnosed with COPD have been chronic smokers, yet only 15–20% of smokers become symptomatically limited by COPD.1 In addition, it has been estimated that only 15% of the variation in lung function in smokers can be attributed to the degree of smoking exposure2 while a little over 40% is conferred by genetic factors.3 Epidemiological studies have consistently shown that some smokers maintain relatively normal lung function even after more than 40 pack years of smoking—that is, they are “resistant”4—and these individuals represent about 40–50% of chronic smokers.2,5 These data, together with family studies,6 suggest there is a substantial genetic component to the susceptibility to developing COPD, and suggest that COPD results from chronic smoking exposure in those genetically predisposed to developing impaired lung function.
Given the pathophysiological heterogeneity that exists in COPD, it is not surprising that a number of genetic variants have been implicated. This includes polymorphisms in genes encoding proteins involved in matrix remodelling (such as metalloproteases or their inhibitors), oxidative stress and inflammation (most often cytokines).6 We propose that these polymorphisms may confer susceptibility or resistance to chronic smoke exposure either directly or through linkage with functional genetic variants. Such genetic heterogeneity, together with differences in study design, case and/or control selection, small sample sizes and population admixture (or stratification), is likely to account for much of the conflicting findings reported in the COPD literature to date.
Although classical linkage studies have successfully identified genes implicated in Mendelian diseases, this approach has had limited success in complex disorders. This is because diseases of Mendelian inheritance generally involve genetic variants with high penetrance, low population frequency and little, if any, influence from other genetic or environmental factors. In contrast, complex disorders such as COPD have been shown to be strongly linked to the environment through factors such as smoking exposure, occupation, diet, or respiratory tract infections. Not surprisingly, recent linkage studies in pedigrees characterised by poor lung function7,8 suggest that there is a strong gene-environment interaction and linkage to several chromosomal regions have been reported.
There is now growing interest in the use of case-control association studies in complex disorders such as COPD to identify genes of generally high frequency but low penetrance and overall small effects.9–11 This may be particularly relevant in COPD where genetic variants may confer either resistance or susceptibility to COPD. Here we report a case-control association study which examined the possible role of candidate polymorphisms in the genes encoding the antioxidant enzymes copper-zinc superoxide dismutase (SOD1), manganese superoxide dismutase (SOD2), extracellular superoxide dismutase (SOD3), and catalase (CAT). Specifically, we have targeted single nucleotide polymorphisms (SNPs) for their likely functional role: SOD1 +35 A/C which is located adjacent to a splice site, SOD2 Val16Ala which has been suggested to alter protein structure and function,12 SOD3 213 (+760) C/G which has been shown to alter proteolytic processing,13 and catalase −21 A/T which is located in the promoter region just proximal to the start site.14 The SOD3 candidate polymorphism is of particular interest since the C→G substitution (+760) leads to an absence of cleaved SOD3 in the serum of carriers in a bimodal distribution.15,16 Moreover, this genetic variant has been associated with altered antioxidant or anti-inflammatory activity.17,18 Other studies suggest that SOD3 may also influence matrix remodelling19–25 in the lung and this may be relevant to the development of COPD.26
Group 1: COPD (chronic smokers with impaired lung function consistent with COPD)
We recruited subjects of European descent (all four grandparents European) with COPD who had been previously diagnosed by a specialist physician and who met the following criteria: >40 years of age, smoking history of ⩾15 pack years, forced expiratory volume in 1 second/forced vital capacity (FEV1/FVC) ratio <70%, and FEV1 <80% predicted (ERS criteria, ECCS reference values). Pre-bronchodilator spirometric tests were performed according to ATS guidelines. COPD subjects were identified following admission to hospital with an infective exacerbation of COPD or following attendance at a hospital outpatient clinic. They were assessed while in a stable condition with spirometric measurements taken after withholding their usual COPD medications for the following periods: short acting bronchodilators for 6 hours, long acting bronchodilators and inhaled corticosteroids for 12 hours. No subjects had been on oral corticosteroids, inhaled long acting anticholinergic inhalers, or oral bronchodilating agents in the 6 week period prior to testing. Those with a history of any of the following were excluded: childhood or early adulthood asthma, prior evidence of a >20% reversibility in FEV1 in response to inhaled bronchodilator treatment, symptoms of breathlessness before 40 years of age, or past lung surgery. COPD subjects were also excluded if they answered yes to the question “Have you ever been diagnosed with bronchiectasis?” or were diagnosed as having bronchiectasis in their hospital records, or on clinical or radiological grounds.
Group 2: Resistant smokers (chronic smokers with near normal lung function)
We also recruited from the same community (from social clubs for the elderly living in the same city suburbs as the COPD cases) a cohort of resistant smokers of European descent (all four grandparents European) who volunteered to be studied and who met the following criteria: >40 years of age, smoking history of ⩾15 pack years, FEV1/FVC ratio of 70–90%, and FEV1 >80% predicted.
Using questions from the ATS Respiratory Questionnaire, occupational exposure to dusts and fumes was recorded from the COPD subjects and resistant smokers. Using a PCR based method,27 we genotyped the COPD subjects and the resistant smokers for the α1-antitrypsin mutations (S and Z variants) and excluded those with the ZZ or SZ genotype. Those with the MZ genotype were included and made up 5% of both the COPD and resistant smoker cohorts.
Group 3: Blood donors
We also recruited 190 blood donors of European descent (all four grandparents European) whose recruitment was unrelated to smoking status and who were healthy with no known respiratory illnesses.
The study was approved by the Auckland ethics committee and all subjects gave informed written consent.
Genomic DNA was extracted from peripheral blood leucocytes using standard phenol and chloroform methods. Cohorts of patient and control DNA were configured into 96-well polymerase chain reaction (PCR) format containing strategic negative controls. Details of each genotyping assay are shown in table 1. These were modified from previously published methods.14,28 PCR amplifications were performed in 25 μl reaction volumes containing 50–80 ng genomic DNA, 10 pmol of each primer, 0.2 mM dNTPs, 1 X Qiagen Taq polymerase buffer (containing 15 mM MgCl2) and 1 U Qiagen Taq polymerase. Reactions were enhanced with 1 X Qiagen Q solution when required as determined by the PCR optimisation process. The samples were denatured for 5 minutes at 94°C, subjected to 32–35 cycles each of 1 minute at 94°C, 1 minute at 60°C (55°C for the SOD1 gene polymorphism), and 1 minute at 72°C, and elongated for 7–10 minutes at 72°C (MJ Research). Aliquots of PCR amplification product were digested for two hours with 5–10 U of restriction enzymes (New England BioLabs) and separated on conventional and molecular screening grade agarose gels (Roche). Digested products were visualised by ultraviolet transillumination following ethidium bromide staining and migration compared against a 1 kb plus DNA ladder (Invitrogen) and a positive RFLP control sample.
The demographic characteristics of the COPD and resistant smokers were compared using Fisher’s exact test for sex and the Student’s t test for unrelated groups for the continuous normally distributed variables. Adjustment for pack years was provided using analysis of covariance. Genotype frequencies were compared with Hardy-Weinberg equilibrium within each cohort. Allele and genotype frequencies were compared between cohorts using the Mantel-Haenszel χ2 test to generate odds ratios with 95% confidence limits. Logistic regression was used to provide the odds of COPD/resistant smoking for each genotype after adjusting for age and pack years. Analyses were conducted using procedures of SAS Version 9.1 for Windows (SAS Institute Inc). All tests were two tailed and p values were corrected for number of polymorphisms examined with the Bonferroni method taking p<0.05 as significant. Evidence for population stratification was sought using Structure (v2.1).29 Using power calculations we were able to estimate that sample sizes in excess of 200 would be sufficient to detect modest effects with genotype frequencies for the minor allele (approximately 10% or more) for three of the four polymorphisms at alpha = 0.05 assuming 80% power.30
The characteristics of the COPD and resistant smoker groups are summarised in table 2. Consistent with our criteria for recruitment of resistant smokers, lung function in this group was near normal and significantly greater than the spirometric means of the COPD group. In the blood donor cohort 63% were men and their mean (SD) age was 50 (10) years. At the time of recruitment 63% had never smoked, 30% were ex-smokers, and 7% were current smokers. Information on lung function was not available in this group but none had a diagnosis of COPD.
The COPD and resistant smokers had the same mean daily cigarette consumption (24/day, p = 0.76), comparable age of smoking onset (17 and 16 years respectively, p = 0.55), comparable age when stopped smoking (58 and 51 years respectively, p = 0.12), although the resistant smokers were younger (59 v 65 years, p<0.001) with a lower pack year history (42 v 50 pack years, p = 0.002) than smokers with COPD. When the pack years were adjusted for age and the same daily cigarette consumption allowed for, the smoking exposures were not statistically different between the two groups. We found no evidence for population stratification between resistant smokers and those with COPD using 40 unlinked SNPs from different genes (mean χ2 = 3.1, p = 0.61).
We estimate that our analyses, which included a burn-in period of 10 000 iterations to collect data for 10 000 iterations, had a power of more than 97% to detect (p<0.05) population stratification (median p = 3.3×10−5). The SNPs were part of a panel derived for the purposes of a case association study for coronary artery disease and were not known to be associated with either of our smoking phenotypes.
Allele and genotype frequency comparisons
The completion rate for all four genotypes was over 97% and all were in Hardy-Weinberg equilibrium. The completion rate for α1-antitrypsin genotypes was 100%, and those with the MZ genotype were included making up 5% of both the COPD and resistant smoker cohorts. Any subject with the ZZ genotype was excluded and there were no SZ subjects. Statistical differences between allele or genotype frequencies were found for the SOD1 (intron 3), SOD2 (Val16Ala), and CAT promoter polymorphisms (table 3).
The only significant difference between the groups was for the SOD3 Arg213Gly polymorphism (table 4). To ensure accuracy of the method, genotyping of this polymorphism was repeated in all three cohorts using the same RFLP method. We found a 2% error rate and assigned genotype based on the results of a third assay for those genotypes discordant from the first two assays. Resistant smokers had a significantly higher G allele frequency (5% and 1% respectively, OR 4.3, p<0.05) and a significantly higher CG/GG genotype frequency than subjects with COPD (9% and 2% respectively, OR 4.2, p<0.05). Combining the CG and GG genotypes can be justified on an a priori basis as both are associated with increased serum levels of SOD3.15 When an older subgroup (⩾55 years) of 137 resistant smokers was examined, they matched the COPD subjects more closely (mean (SD) age 67 (8) years and mean (SD) pack years 48 (22)). In this comparison, higher G allele and CG/GG genotype frequencies were still evident in the resistant smokers (OR 4.2 and 3.8 respectively, uncorrected p = 0.01 and 0.02 respectively). A comparison of younger COPD patients with the resistant smokers did not change the above findings (data not shown). No subject with the MZ genotype were carriers of the SOD3 G allele so, after excluding the former, there was still a significant excess of the SOD 213 G allele in the resistant smokers compared with those with COPD.
After adjustment for age, sex and smoking history, logistic regression of all COPD subjects and resistant smokers showed that the odds of being a resistant smoker compared with having COPD modelled for the CG/GG genotype versus the CC genotype was 6.1 (95% CI 1 to 38), p = 0.05. The blood donor controls, although younger, represent a relatively unselected and ethnically matched cohort. With the limited sample size, they provide a second group from which to establish the allele and genotype frequencies in our general population. These were comparable to those reported in other studies.14,16,31 The allele and genotype frequencies for the SOD3 variant in the blood donor group were similar to those of the COPD cohort (despite the age difference) and, again, less than that in the resistant smokers (p = 0.04 and p = 0.08 for genotype and allele frequencies, respectively). This supports our view that the G allele is found more frequently in resistant smokers rather than being less frequent in smokers with COPD—that is, the G allele may confer resistance to impaired lung function as suggested by its functional effects. Adjustment for occupational exposure to dust and fumes did not alter the findings of the logistic regression analysis.
Using a case-control study, we have examined whether there is an association between genetic variants of antioxidant polymorphisms and susceptibility or resistance to COPD from smoking. Our results suggest that the 213Gly SOD3 genetic variant is associated with conferring resistance to COPD in some smokers. We believe this observation was made possible, in part, by using a case-control study design which compared COPD patients and smokers with near normal lung function matched for sex, ethnicity, city suburb, and smoking exposure. This approach is based on three important epidemiological studies that collectively show that (1) some smokers maintain normal lung function despite decades of heavy smoking exposure; (2) non-smokers and light smokers (<20 pack years) have a normal distribution in lung function; and (3) when the smoking exposure dose exceeds about 30–40 pack years, the separation of smokers into those resistant to smoking (in terms of normal lung function) and those with impaired lung function (consistent with COPD) becomes quite distinct.2,4,5 We found no evidence of population stratification in our smoking cohorts and our genotype/allele frequencies were in Hardy-Weinberg equilibrium. Although a false positive result from sampling bias and/or confounding (such as survival effect) is still possible, we believe this is less likely given that the genetic frequencies were no different between blood donors and COPD subjects, in contrast to resistant smokers. We believe that, regardless of the size of the study cohort or appropriate correction for multiple comparisons, replication of our result in other populations best substantiates our findings. In this regard, a small case-control study in the United States and a larger population study in Denmark have recently reported similar findings.32,33 We conclude that the excess of the 213Gly SOD3 genetic variant in resistant smokers is of potential relevance.
There are now considerable data to support the hypothesis that SOD3 functions as an important antioxidant or anti-inflammatory protein in smokers and that the functional genetic variant of the SOD3 gene may confer protection from the adverse affects of cigarette smoke on the lung. Firstly, SOD3 has been shown to be strongly localised in lung tissue18 where it is synthesised by type II pneumocytes tightly bound to extracellular lung matrix20 and functions to protect the lung.21 Secondly, in a transgenic mouse model, overexpression of SOD3 in the lungs resulted in markedly attenuated oxidant mediated lung damage primarily through reducing the recruitment of neutrophils.22 Lastly, the 213Gly variant of the SOD3 polymorphism has been shown to account almost exclusively for the high serum SOD3 activity (those with the CG or GG genotpye), which segregates as a bimodal distribution in the general population and confers a tenfold or greater antioxidant activity.15
The mechanism by which the 213Gly variant confers this protection comes from studies showing it alters the heparin binding site of the SOD3 protein reducing its affinity for the extracellular matrix and increasing its half life by reducing normal proteolytic cleavage.17 It has been proposed that the secretion of uncleaved SOD3 (generated by the 213Gly variant) may result in a greater availability of SOD3 to provide an antioxidant or anti-inflammatory response.17,22 However, it should be noted that a deleterious effect by reducing bound SOD3 to extracellular matrix has also been suggested.15 We believe that the significant excess of the 213Gly variant in resistant smokers compared with blood donors and smokers with COPD is consistent with the protective effects described above. Specifically, the 213Gly variant may confer a degree of protection from the oxidant or inflammatory challenge from smoking through one or more of the following: (1) resistance to cleavage, (2) prolonging tissue binding, and/or (3) reducing neutrophil influx. As only 9% of our resistant cohort carried a copy of this variant, other protective genes will be implicated as discussed below. The presence or absence of this genetic variant therefore contributes to determining how smoking affects lung function in some smokers. We propose that the protective effect of the 213Gly genetic variant is especially relevant to people with a smoking history where a gene-environment interaction exists. This is supported by the Danish study33 where the protective effect of the 213Gly variant was confined to smokers. Given these observations, it is perhaps not surprising that this genetic variant was not found to be associated with asthma where smoking is much less prevalent and different pathological processes are implicated.31 Of interest is the results of a genome wide scan of pulmonary function (specifically FEV1/FVC) that identified a locus on chromosome 4 (D4S403 and D4S1511), a region that includes the gene encoding extracellular SOD (chromosome 4p16.3).34
We have previously described, in a subset of the cohorts used in this study, a functional polymorphism in the gene encoding transforming growth factor-β1, another protein thought to modulate inflammatory processes in the lung that also appears to confer a protective effect in smokers.35 These two findings support our hypothesis that resistance or susceptibility to smoking induced decline in lung function is probably the result of many genetic variants that confer either a protective or pathological phenotype leading to resistance or COPD, respectively. Because of the modest sample size and limited genotyping, the role of SOD1, SOD2, and catalase on lung function in chronic smokers cannot be ruled out by this study, although it is interesting that they function primarily as intracellular rather than extracellular enzymes in the antioxidant pathway.
Although the 213Gly polymorphism is functional and it is plausible that it influences the development of COPD as discussed above,26,32–34 we cannot confirm a directly causal role. Similarly, we cannot rule out whether other genetic variants in linkage disequilibrium with this polymorphism are of functional importance. However, some support for a direct role for the SOD3 213 variant comes from transgenic mouse studies where overexpression of SOD3 attenuates the lung tissue damage from air pollutants,36 particularly from heavy metals found in cigarette smoke previously linked to smokers with emphysema.37
In conclusion, we report the novel association between a functional genetic variant of the SOD3 gene and resistance to COPD. There are substantive data to implicate this polymorphism in lung development, lung function, and response to oxidant load. In the current study we believe we have addressed many of the concerns surrounding case association studies.38 Specifically we have (1) achieved sample sizes sufficiently powered to detect large differences, (2) prioritised our SNP selection to functional variants in implicated candidate genes, (3) excluded population stratification by accepted methods, (4) corrected for multiple testing, (5) avoided sub-analysis to generate associations, and (6) compared cases with a control group well matched for confounding variables and derived from the same ethnic, socioeconomic, and geographical region. Despite this, we believe replication in other cohorts is required to validate associations such as this. To this end, we and others32,33 have preliminary results that support our findings that the SOD3 213 G allele appears to confer a protective effect from impaired lung function in smokers. To further confirm this we are undertaking a second larger community based study to test this association in greater detail. We conclude that, inherent in the complex nature of the genetics of COPD, genotyping a diverse range of genetic variants may be necessary in order to better understand the contributing effects of a number of genes which probably confer weak effects only.
The authors thank all participants, in particular those recruited through clubrooms for local Returned Services Associations, for their kind help in participating in this study, and Mr Zoran Ljubisavljevic for his help with computing and data storage.
Published Online First 7 February 2006
This study was supported by grants from the University of Auckland, Lottery Grants of New Zealand, Auckland Medical Research Foundation, Paykel Trust and Health Research Council of New Zealand.
Competing interests: none declared.