Association analysis of genetic variants in the ghrelin and tumor necrosis factor α genes and the risk for non-Hodgkin’s lymphoma in Kuwaitis
Abstract
BACKGROUND:
Non-Hodgkin’s lymphoma (NHL) is the most common hematological malignancy in the world. Many etiologic factors have been implicated in the risk of developing NHL, including genetic susceptibility and obesity. Single-nucleotide polymorphisms (SNPs) in Ghrelin (GHRL), an anti-inflammatory hormone, and tumor necrosis factor
OBJECTIVE:
To investigate the association between SNPs in GHRL and TNF-
METHODS:
We recruited 154 Kuwaiti NHL patients and 217 controls. Genotyping was performed for rs1629816 (GHRL promoter region), rs35684 (GHRL 3’ untranslated region), and rs1800629 (TNF-
RESULTS:
We show that rs1629816 GG was associated with an increased risk for NHL in our sample (
CONCLUSIONS:
Our study demonstrates an association between rs1629816, a SNP in the GHRL regulatory region, and NHL in Kuwaitis.
1.Introduction
Non-Hodgkin’s lymphoma (NHL) is the most common hematological malignancy in the world [14]. In Kuwait and the Gulf Council Countries (GCC), NHL is the fifth most common cancer in both males and females [14]. The NHL incidence rate in Kuwait has increased at least 1.5 times in the last 33 years [12].
Various etiologic factors contribute to the risk of NHL, the major ones being genetic susceptibility, chronic inflammation and lifestyle factors, such as obesity [2, 11, 13]. Genetic association studies have shown associations between NHL and specific polymorphisms, especially in genes that have been implicated in inflammatory processes [45].
Studies have reported conflicting results on the link between NHL and obesity, with some studies showing a positive association while others showing no association [22, 28, 47]. Kuwait has one of the highest obesity rates in the world. The prevalence of overweight and obesity in the Kuwaiti population are 80.4% and 47.5%, respectively, and are higher in females, 81.9% and 53%, compared to males, 78% and 39.2% [1]. Obesity is associated with chronic low-grade inflammation because adipocytes produce and secrete several proinflammatory cytokines, including tumor necrosis factor alpha (TNF-
TNF-
Recent studies have shown that GHRL stimulates cancer cell proliferation and metastasis and is highly expressed in several cancers, including NHL [26, 41]. However, meta-analysis studies have been inconclusive about whether SNPs in GHRL were associated with cancer, including NHL [9, 37]. One study showed that two GHRL SNPs, rs1629816 (GHRL-4427G
Since polymorphisms of the GHRL and TNF-
2.Materials and methods
2.1Study cohorts
We recruited a total of 217 controls and 154 NHL patients for this study. The controls were cancer-free individuals recruited from polyclinics and matching as well as possible the patient group for sex and age. The NHL patients were diagnosed and recruited at the Kuwait Cancer Care Center (KCCC). Upon arrival at the clinic, a blood sample was collected (5 ml) into a sterile EDTA vacutainer and stored at 4
Table 1
Characteristics of the study sample | Controls ( | NHL Patients ( |
|
---|---|---|---|
BMI | 28.8 | 27.8 | 0.19 |
Male, | 123 (56.7%) | 67 (48.2%) | 0.47 |
Age, | 50.7 | 53.9 | 0.79 |
Age of onset, | – | 51.5 | – |
Treatment regimen for NHL patients | |||
Chemotherapy | 95 (68.3%) | ||
Radiotherapy | 1 (0.7%) | ||
Chemotherapy | 21 (15.1%) | ||
Bone marrow transplant | 2 (1.4%) | ||
No treatment | 11 (7.9%) | ||
No information | 9 (6.5%) |
Values given are the mean
2.2Ethical approval and informed consent
Ethical approval for this study was obtained in 2012 from the Joint Committee for The Protection of Human Subjects in Research of the Health Sciences Center (HSC) and the Kuwait Institute of Medical Specialization (KIMS)-Ministry of Health-Kuwait, following the guidelines set by the The Code of Ethics of the World Medical Association (Declaration of Helsinki, 1964). All patients who participated in the study provided an informed consent.
2.3Genotyping
Total genomic DNA was extracted from blood samples using the Gentra
Table 2
rs number | Gene | Polymorphism | SNP location |
---|---|---|---|
rs1800629 | TNF- | -308G>A | Promoter |
rs35684 | GHRL | 5179A>G | 3’ UTR region |
rs1629816 | GHRL | -4427G>A | Promoter |
RefSNP (rs) numbers represent the SNP’s accession number in the SNP database (dbSNP). Untranslated region (UTR).
2.4Quality assurance of SNP detection
Quality assurance was performed as described previously [3]. In brief, SNP sites were sequenced to verify the accuracy of the real-time PCR allele calling using custom primers that were designed in the lab using NCBI Primer-Blast and Primer 3 software. For each locus, samples were randomly selected (10 samples per SNP), and the target regions (flanking sequences of the variant sites not exceeding 500 bp) were sequenced for confirmation by Sanger sequencing on the ABI Gene Analyzer 3130xl using the Big Dye Terminator Kit v3.1 with conditions according to the manufacturer’s instructions (Applied Biosystems, Life Technologies, CA, USA). Confirmed samples were then used as positive controls in RT-PCR reactions. Sequences for rs35684 and rs1800629 were submitted to GenBank under accession numbers KP339513 and KP339511, respectively.
2.5Statistical analysis
Hardy-Weinberg equilibrium for each SNP was tested using a web-based Pearson’s chi-square test calculator. Statistical analysis was performed to assess the relationship of each SNP with susceptibility to developing NHL using logistic regression. The results are reported as odds ratios (ORs) and 95% confidence intervals (CIs). In addition, linear regression analysis was performed to assess the relationship between the selected SNPs and BMI in each group separately. Age, sex and BMI were controlled for in the regression analysis. Data were analyzed using SPSS (Version 25; SPSS, Inc., an IBM Company, Chicago, Illinois). Demographic data and characteristics are represented as the mean
3.Results
3.1Demographics and clinical characteristics
Two hundred seventeen healthy controls (123 males, 94 females) and 139 NHL patients (67 males, 72 females) were recruited for this study. The mean age of the controls and the patients was 50.7
Table 3
SNP | Control | NHL patients |
|
---|---|---|---|
TNF- | |||
rs1800629 | |||
GG | 162 (74.5%) | 98 (70.5%) | 0.671 |
GA | 44 (20%) | 32 (23%) | |
AA | 11 (5.5%) | 9 (6.5%) | |
Ghrelin | |||
rs35684 | |||
AA | 106 (49%) | 76 (54.5%) | 0.562 |
AC | 95 (44%) | 54 (39%) | |
CC | 16 (7%) | 9 (6.5%) | |
rs1629816 | |||
GG | 62 (28.5%) | 56 (40.3%) | 0.002 |
GA | 97 (45%) | 66 (47.5%) | |
AA | 58 (26.5%) | 17 (12.2%) |
Values given are the number of individuals (N) (%).
Table 4
SNP | HWE | Non-HWE |
---|---|---|
RS 1629816 | ||
Control | ( | – |
Patient | ( | – |
RS 35684 | ||
Control | – | |
Patient | ( | – |
RS 1800629 | ||
Control | – | ( |
Patient | – | ( |
Hardy-Weinberg Equilibrium (HWE): if
3.2Genotype distributions and allele frequencies
The investigated SNPs and their locations in their respective genes are presented in Table 2. The allelic and genotypic frequencies of the three SNPs are summarized in Table 3. The allelic frequencies for the various genotypes (Table 4) were found to be in Hardy-Weinberg equilibrium (HWE), except for rs1800629 in patients, controls and the whole sample (
3.3Association of rs1629816 with NHL
Analysis by logistic regression showed a strong association of rs1629816 GG genotype with the risk of developing NHL in our sample (
Table 5
Variable | OR (95% CI) |
|
---|---|---|
Gender (female) | 1.15 (0.73–1.83) | 0.53 |
Age ( | 1.01 (0.99–1.02) | 0.166 |
BMI (kg/m | 0.97 (0.94–1) | 0.122 |
GHRL rs1629816 | 1.82 (1.31–2.54) | 0.0003 |
Table 6
Kuwait (%) | Asian (%) | Non Hispanic (%) | Persian (%) | Egypt (%) | |
---|---|---|---|---|---|
Control | |||||
GG 74.5 | GG 85.3 | GG 71 | GG 81.3 | GG 67 | |
GA 20.0 | GA 14 | GA 17.1 | GA 17.1 | GA 27 | |
AA 5.5 | AA 0.7 | AA 1.6 | AA 1.6 | AA 6 | |
NHL | |||||
GG 70.5 | GG 88.1 | GG 68 | GG 85.3 | GG 44.8 | |
GA 23 | GA 11.4 | GA 28 | GA 13.2 | GA 25 | |
AA 6.5 | AA 0.5 | AA 4 | AA 1.5 | AA 26.2 |
4.Discussion
In our study, we have investigated the association of SNPs in the GHRL and TNF-
We also looked into the TNF-
In our sample, none of the investigated SNPs were associated with an obese BMI (
All tested SNPs were in HWE except for rs1800629. This SNP is of particular importance since it has been shown to be associated with an increased risk for several chronic conditions, such as asthma, chronic obstructive pulmonary disease (in Asian but not Caucasian populations), and several cancers [4, 15, 24, 27, 52]. Several studies on rs1800629 and the risk for NHL in different populations found it to deviate from HWE: in controls in Seattle, in a combined sample of controls and patients in the UK, and in the control groups, the patient groups, and the whole samples in Spain and at the University of California–San Francisco [42]. Quality control testing showed no genotyping errors in these studies, and other SNPs tested in the same populations were consistently found to be in HWE. The same applies for our sample; stringent quality control measures, sequencing of SNPs and random replication of the genotyping test for already tested samples were applied to our samples and confirmed the accuracy of our genotyping. In addition, other SNPs tested in this study and a previous one were always in HWE [3]. This precludes the possibility of genotyping error and warrants further investigation into the pattern of this SNP’s distribution across different populations. We found that the allelic frequency of this SNP has differed among different populations (Table 5); the frequency of the A allele was found to be highest in Egyptians (0.2), followed by non-Hispanic whites and Kuwaitis (0.16), Persians (0.1) and finally Asians (0.08) [19, 21, 34, 42]. The association of the risk of NHL with rs1800629 was highest in Egypt, followed by non-Hispanic whites, while no risk was reported for Persians or Kuwaitis (this study), and a negative association was reported for Asians [19, 21, 34, 42]. Interestingly, we noticed that the degree of risk association might correlate with the frequency of the A allele in a population, although no conclusions can be drawn until additional studies investigate this observation.
Although larger than some previous case-control studies, a limitation of our study is the sample size. This is a common limitation in genetic studies due to the difficulties surrounding the availability of samples. Although NHL is the top hematological malignancy in Kuwait, collecting a sufficient number of samples remains a significant challenge since a very small number of samples are available for collection due to the small population size. Increasing the sample size might give us better insight into the relationship of the risk of NHL with the TNF-
In conclusion, our study shows that rs1629810, a SNP in GHRL promoter area, was highly associated with the risk of NHL in our study cohort. None of the SNPs investigated were associated with obesity, and obesity was also not associated with the risk of developing NHL. Future studies including a higher number of subjects and from different populations are necessary to validate this association. Studies are also needed to identify genes whose SNPs are associated with NHL to help predict individuals who are at risk and therefore offer the benefit of early detection or even to apply preventative measures where appropriate. Finally, relating our population to other populations in terms of SNP genotype and allele frequency will be helpful for taking advantage of future pharmacogenomic applications that are based on individual and population genotypes.
Acknowledgments
The authors would like to acknowledge the support of Kuwait University Research Sector (Grant SL02/11) and the General Facility Project (GS 01/02) for the use of the ABI 3130xl Gene Analyzer. The authors extend their deepest appreciation and gratitude to all of the participants in this study, as well as the staff at Shiekha Badriya Alsabah Medical Oncology and Stem Cell Transplant Centre, Kuwait Cancer Control Centre, Kuwait City, Kuwait, for their assistance with the blood collection. The PI would also like to thank Miss Rubina Fatima for her technical assistance in organizing the collected data.
Conflict of interest
The authors declare no conflicts of interest.
Author contributions
Conception: M.H. Alrashid, S.H. Alshemmari, S.A. Al-Bustan.
Interpretation or analysis of data: M.H. Alrashid, A. Al-Serri, J.A. Geo, S.A. Al-Bustan.
Preparation of the manuscript: M.H. Alrashid, A. Al-Serri, S.A. Al-Bustan.
Revision for important intellectual content: M.H. Alrashid, A. Al-Serri, S.H. Alshemmari, J.A. Geo, S.A. Al-Bustan.
Supervision: M.H. Alrashid, S.A. Al-Bustan.
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