| Literature DB >> 30127996 |
Efthimios Dardiotis1, Vasileios Siokas1, Antonios Garas2, Evangelos Paraskevaidis3, Maria Kyrgiou4,5, Georgia Xiromerisiou1, Efthimios Deligeoroglou6, Georgios Galazios7, Emmanuel N Kontomanolis7, Demetrios A Spandidos8, Aristidis Tsatsakis9, Alexandros Daponte2.
Abstract
Human papillomavirus (HPV) infection alone is not sufficient to explain the development of cervical cancer. Genetic variants have been linked to the development of precancerous lesions and cervical cancer. In this study, we aimed to evaluate the association of 10 single nucleotide polymorphisms (SNPs) of the Fas cell surface death receptor (FAS), trinucleotide repeat containing 6C (TNRC6C), transmembrane channel like 8 (TMC8), DNA meiotic recombinase 1 (DMC1), deoxyuridine triphosphatase (DUT), sulfatase 1 (SULF1), 2'-5-oligoadenylate synthetase 3 (OAS3), general transcription factor IIH subunit 4 (GTF2H4) and interferon gamma (IFNG) genes with susceptibility to precancerous lesions and cervical cancer. In total, 608 female participants, consisting of 199 patients with persistent low-grade precancerous lesions (CIN1), 100 with high-grade precancerous lesions (CIN2/3), 17 patients with cervical cancer and 292 healthy controls, were enrolled in this study. SNPs were tested for associations with each of the above-mentioned cervical group lesions or when considering an overall patient group. A significant difference for rs4737999 was observed between the controls and the overall patient group considering the recessive mode of inheritance [odds ratio (OR), 0.48; 95% confidence interval (CI), 0.24-0.96; P=0.033]. This effect was even stronger on the risk of CIN1 lesions. Carriers of the rs4737999 AA genotype were almost 3-fold less likely of having low grade lesions compared to the other genotypes. On the whole, this study provides evidence of an influence of the SULF1 gene rs4737999 SNP in the development of precancerous lesions/cervical cancer.Entities:
Keywords: DNA repair; cell entry genes; cervical cancer; sulfatase 1; viral infection
Year: 2018 PMID: 30127996 PMCID: PMC6096185 DOI: 10.3892/ol.2018.9104
Source DB: PubMed Journal: Oncol Lett ISSN: 1792-1074 Impact factor: 2.967
Characteristics of SNPs genotyped in the current study.
| SNP | rs number | Gene | Chromosome | Chromosome position | Minor allele | MAF CEU | MAF in our control group |
|---|---|---|---|---|---|---|---|
| 1 | rs1800682 | 10 | 90739943 | C | 0.45 | 0.44 | |
| 2 | rs2290907 | 17 | 76093677 | C | 0.29 | 0.16 | |
| 3 | rs16970849 | 17 | 73645503 | A | 0.14 | 0.04 | |
| 4 | rs5757133 | 22 | 37277781 | T | 0.23 | 0.31 | |
| 5 | rs3784621 | 15 | 46420384 | C | 0.46 | 0.20 | |
| 6 | rs4737999 | 8 | 70680589 | A | 0.20 | 0.27 | |
| 7 | rs9893818 | 17 | 73653762 | A | 0.04 | 0.00 | |
| 8 | rs12302655 | 12 | 111858889 | A | 0.13 | 0.00 | |
| 9 | rs2894054 | 6 | 30980253 | T | 0.09 | 0.12 | |
| 10 | rs11177074 | 12 | 66830701 | C | 0.14 | 0.07 |
SNP, single nucleotide polymorphism; MAF, minor allele frequency; CEU, Utah residents with Northern and Western European ancestry; FAS, Fas cell surface death receptor; TNRC6C, trinucleotide repeat containing 6C; TMC8, transmembrane channel like 8; DMC1, DNA meiotic recombinase 1; DUT, deoxyuridine triphosphatase; SULF1, sulfatase 1; OAS3, 2–5-oligoadenylate synthetase 3; IFNG, interferon gamma.
Genotype call rate and exact test for HWE of each SNP in the current study.
| Exact test (P-value) for HWE | |||||
|---|---|---|---|---|---|
| SNP | rs number | Gene | Genotype call rate (%) | Controls | Cases |
| 1 | rs1800682 | 99.18 | 0.096 | 1 | |
| 2 | rs2290907 | 99.67 | 0.83 | 0.36 | |
| 3 | rs16970849 | 99.34 | 1 | 1 | |
| 4 | rs5757133 | 98.85 | 0.14 | 0.11 | |
| 5 | rs3784621 | 99.34 | 0.85 | 0.6 | |
| 6 | rs4737999 | 99.34 | 0.29 | 0.12 | |
| 7 | rs9893818 | 99.34 | NA | NA | |
| 8 | rs12302655 | 99.84 | 1 | 1 | |
| 9 | rs2894054 | 99.67 | 0.089 | 0.78 | |
| 10 | rs11177074 | 98.85 | 0.38 | 0.71 | |
SNP, single nucleotide polymorphism; HWE, Hardy-Weinberg Equilibrium; NA, non-available; FAS, Fas cell surface death receptor; TNRC6C, trinucleotide repeat containing 6C; TMC8, transmembrane channel like 8; DMC1, DNA meiotic recombinase 1; DUT, deoxyuridine triphosphatase; SULF1, sulfatase 1; OAS3, 2–5-oligoadenylate synthetase 3; IFNG, interferon gamma.
Allelic and genotype frequencies of SNPs in healthy controls and in cases (cervical cancer cases, cases with low grade and with high grade precancerous lesions).
| SNP | Genotypes/alleles | Controls n (%) | All cases n (%) | Cervical cancer n (%) | High-grade precancerous lesions, n (%) | Low-grade precancerous lesions, n (%) |
|---|---|---|---|---|---|---|
| rs1800682 | ||||||
| Genotype | C/C | 63 (22) | 49 (16) | 2 (12) | 13 (13) | 34 (17) |
| T/C | 129 (44) | 150 (48) | 8 (47) | 50 (51) | 92 (47) | |
| T/T | 98 (34) | 114 (36) | 7 (41) | 36 (36) | 71 (36) | |
| Missed | 2 | 3 | 0 | 1 | 2 | |
| Allele | T | 325 (56) | 378 (60) | 22 (65) | 122 (62) | 234 (59) |
| C | 255 (44) | 248 (40) | 12 (35) | 76 (38) | 160 (41) | |
| rs2290907 | ||||||
| Genotype | C/C | 8 (3) | 4 (1) | 1 (6) | 1 (1) | 2 (01) |
| T/C | 79 (27) | 81 (26) | 3 (0.18) | 19 (0.19) | 59 (0.30) | |
| T/T | 204 (70) | 230 (73) | 13 (0.76) | 80 (0.80) | 137 (0.69) | |
| Missed | 1 | 1 | 0 | 0 | 1 | |
| Allele | T | 487 (84) | 541 (86) | 29 (85) | 179 (90) | 333 (84) |
| C | 95 (16) | 89 (14) | 5 (15) | 21 (10) | 63 (16) | |
| rs16970849 | ||||||
| Genotype | G/A | 24 (8) | 30 (10) | 0 (0) | 10 (10) | 20 (10) |
| G/G | 265 (92) | 285 (90) | 17 (100) | 90 (90) | 178 (90) | |
| A/A | 0 (0) | 0 (0) | 0 (0) | 0 (0) | 0 (0) | |
| Missed | 3 | 1 | 0 | 0 | 1 | |
| Allele | G | 554 (96) | 600 (95) | 34 (100) | 190 (95) | 376 (95) |
| A | 24 (4) | 30 (5) | 0 (0) | 10 (5) | 20 (5) | |
| rs5757133 | ||||||
| Genotype | C/C | 142 (49) | 156 (50) | 11 (65) | 45 (45) | 100 (51) |
| C/T | 114 (39) | 120 (39) | 5 (29) | 43 (43) | 72 (37) | |
| T/T | 34 (12) | 35 (0.11) | 1 (6) | 11 (11) | 23 (12) | |
| Missed | 2 | 5 | 0 | 1 | 4 | |
| Allele | C | 398 (69) | 432 (69) | 27 (79) | 133 (67) | 272 (70) |
| T | 182 (31) | 190 (31) | 7 (21) | 65 (33) | 118 (30) | |
| rs3784621 | ||||||
| Genotype | C/C | 12 (4) | 14 (4) | 2 (12) | 3 (3) | 9 (5) |
| T/C | 92 (32) | 97 (31) | 4 (25) | 30 (30) | 63 (32) | |
| T/T | 187 (64) | 202 (65) | 10 (62) | 66 (67) | 126 (64) | |
| Missed | 1 | 3 | 1 | 1 | 1 | |
| Allele | T | 466 (80) | 501(80) | 24 (75) | 162 (82) | 315 (80) |
| C | 116 (20) | 125 (20) | 8 (25) | 36 (18) | 81 (20) | |
| rs4737999 | ||||||
| Genotype | A/A | 24 (8) | 13 (4) | 1 (6) | 6 (6) | 6 (3) |
| G/A | 106 (37) | 125 (40) | 7 (41) | 37 (37) | 81 (41) | |
| G/G | 160 (55) | 176 (56) | 9 (53) | 57 (57) | 110 (56) | |
| Missed | 2 | 2 | 0 | 0 | 2 | |
| Allele | G | 426 (73) | 477 (76) | 25 (74) | 151 (76) | 301 (76) |
| A | 154 (27) | 151 (24) | 9 (26) | 49 (24) | 93 (24) | |
| rs9893818 | ||||||
| Genotype | C/C | 290 (100) | 316 (100) | 17 (100) | 100 (100) | 197 (100) |
| C/A | 0 (0) | 0 (0) | 0 (0) | 0 (0) | 0 (0) | |
| A/A | 0 (0) | 0 (0) | 0 (0) | 0 (0) | 0 (0) | |
| Missed | 2 | 2 | 0 | 0 | 2 | |
| Allele | C | 580 (100) | 628 (100) | 34 (100) | 200 (100) | 394 (100) |
| A | 0 (0) | 0 (0) | 0 (0) | 0 (0) | 0 (0) | |
| rs12302655 | ||||||
| Genotype | G/G | 292 (100) | 313 (99) | 17 (100) | 99 (99) | 197 (99) |
| G/A | 0 (0) | 2 (1) | 0 (0) | 1 (1) | 1 (1) | |
| A/A | 0 (0) | 0 (0) | 0 (0) | 0 (0) | 0 (0) | |
| Missed | 0 | 1 | 0 | 0 | 1 | |
| Allele | G | 584 (100) | 628 (99.7) | 34 (100) | 199 (100) | 395 (100) |
| A | 0 (0) | 2 (0.3) | 0 (0) | 1 (0) | 1 (0) | |
| rs2894054 | ||||||
| Genotype | C/C | 229 (79) | 246 (78) | 17 (100) | 78 (78) | 151 (76) |
| C/T | 54 (19) | 67 (21) | 0 (0) | 22 (22) | 45 (23) | |
| T/T | 7 (02) | 3 (1) | 0 (0) | 0 (0) | 3 (2) | |
| Missed | 2 | 0 | 0 | 0 | 0 | |
| Allele | C | 512 (88) | 559 (88) | 34 (100) | 178 (89) | 347 (87) |
| T | 68 (12) | 73 (12) | 0 (0) | 22 (11) | 51 (13) | |
| rs11177074 | ||||||
| Genotype | C/C | 0 (0) | 1 (0) | 0 (0) | 0 (0) | 1 (1) |
| T/C | 42 (15) | 52 (17) | 3 (18) | 18 (18) | 31 (16) | |
| T/T | 245 (85) | 261 (83) | 14 (82) | 81 (0.82) | 166 (84) | |
| Missed | 5 | 2 | 0 | 1 | 1 | |
| Allele | T | 532 (93) | 574 (91) | 31 (91) | 180 (0.91) | 363 (92) |
| C | 42 (7) | 54 (9) | 3 (9) | 18 (9) | 33 (8) |
SNPs, single nucleotide polymorphisms. The rows indicating the ‘missed’ numbers indicate the number of failed samples (DNA from some participants failed to be genotyped and consequently there were a few missed genotypes). Percentages (%) have been calculated according to the total number of patients in each group.
Single locus analysis.
| All cases (n=316) vs. controls (n=292) | Low-grade (n=199) vs. controls (n=292) | High-grade (n=100) vs. controls (n=292) | Cancer (n=17) vs. controls (n=292) | ||||||
|---|---|---|---|---|---|---|---|---|---|
| SNP | Genotype | OR (95% CI) | P-value | OR (95% CI) | P-value | OR (95% CI) | P-value | OR (95% CI) | P-value |
| rs1800682 | |||||||||
| Codominant | T/T | 1.00 | 0.16 | 1.00 | 0.47 | 1.00 | 0.15 | 1.00 | 0.54 |
| T/C | 1.00 (0.70–1.43) | 0.98 (0.66–1.48) | 1.06 (0.64–1.74) | 0.87 (0.30–2.48) | |||||
| C/C | 0.67 (0.42–1.06) | 0.74 (0.44–1.25) | 0.56 (0.28–1.14) | 0.44 (0.09–2.21) | |||||
| Recessive | T/T-T/C | 1.00 | 0.056 | 1.00 | 0.22 | 1.00 | 0.054 | 1.00 | 0.84 |
| C/C | 0.67 (0.44–1.01) | 0.75 (0.47–1.19) | 0.54 (0.29–1.04) | 0.48 (0.11–2.16) | |||||
| rs2290907 | |||||||||
| Codominant | T/T | 1.00 | 0.37 | 1.00 | 0.33 | 1.00 | 0.12 | 1.00 | 0.57 |
| T/C | 0.91 (0.63–1.31) | 1.11 (0.74–1.66) | 0.61 (0.35–1.08) | 0.60 (0.17–2.15) | |||||
| C/C | 0.44 (0.13–1.49) | 0.37 (0.08–1.78) | 0.32 (0.04–2.59) | 1.96 (0.23–16.89) | |||||
| Recessive | T/T-T/C | 1.00 | 0.19 | 1.00 | 0.16 | 1.00 | 0.27 | 1.00 | 0.51 |
| C/C | 0.45 (0.14–1.53) | 0.36 (0.08–1.72) | 0.36 (0.04–2.89) | 2.21 (0.26–18.77) | |||||
| rs16970849 | |||||||||
| G/G | 1.00 | 0.6 | 1.00 | 0.5 | 1.00 | 0.61 | 1.00 | 0.091 | |
| G/A | 1.16 (0.66–2.04) | 1.24 (0.67–2.31) | 1.23 (0.56–2.66) | 0.00 (0.00-NA) | |||||
| rs5757133 | |||||||||
| Codominant | C/C | 1.00 | 0.95 | 1.00 | 0.86 | 1.00 | 0.77 | 1.00 | 0.42 |
| T/C | 0.96 (0.68–1.35) | 0.90 (0.61–1.33) | 1.19 (0.73–1.93) | 0.57 (0.19–1.68) | |||||
| T/T | 0.94 (0.55–1.58) | 0.96 (0.53–1.73) | 1.02 (0.48–2.18) | 0.38 (0.05–3.04) | |||||
| Recessive | C/C-T/C | 1.00 | 0.86 | 1.00 | 0.98 | 1.00 | 0.87 | 1.00 | 0.42 |
| T/T | 0.95 (0.58–1.58) | 1.01 (0.57–1.77) | 0.94 (0.46–1.94) | 0.47 (0.06–3.66) | |||||
| rs3784621 | |||||||||
| Codominant | T/T | 1.00 | 0.97 | 1.00 | 0.97 | 1.00 | 0.84 | 1.00 | 0.4 |
| T/C | 0.98 (0.69–1.38) | 1.02 (0.69–1.50) | 0.92 (0.56–1.52) | 0.81 (0.25–2.66) | |||||
| C/C | 1.08 (0.49–2.39) | 1.11 (0.46–2.72) | 0.71 (0.19–2.59) | 3.12 (0.61–15.85) | |||||
| Recessive | T/T-T/C | 1.00 | 0.83 | 1.00 | 0.82 | 1.00 | 0.62 | 1.00 | 0.19 |
| C/C | 1.09 (0.49–2.39) | 1.11 (0.46–2.68) | 0.73 (0.20–2.63) | 3.32 (0.68–16.29) | |||||
| rs4737999 | |||||||||
| Codominant | G/G | 1.00 | 0.096 | 1.00 | 1.00 | 0.75 | 1.00 | 0.89 | |
| G/A | 1.07 (0.77–1.50) | 1.11 (0.76–1.62) | 0.98 (0.61–1.59) | 1.17 (0.42–3.25) | |||||
| A/A | 0.49 (0.24–1.00) | 0.70 (0.27–1.80) | 0.74 (0.09–6.11) | ||||||
| Recessive | G/G-G/A | 1.00 | 1.00 | 1.00 | 0.45 | 1.00 | 0.71 | ||
| A/A | 0.71 (0.28–1.78) | 0.69 (0.09–5.45) | |||||||
| rs9893818 | NA | NA | NA | NA | |||||
| rs12302655 | |||||||||
| G/G | 1.00 | 0.1 | 1.00 | 0.18 | 1.00 | 0.098 | NA | NA | |
| G/A | NA (0.00-NA) | NA (0.00-NA) | NA (0.00-NA) | NA | |||||
| rs2894054 | |||||||||
| Codominant | C/C | 1.00 | 0.28 | 1.00 | 0.46 | 1.00 | 0.1 | 1.00 | 0.02 |
| T/C | 1.15 (0.77–1.72) | 1.26 (0.81–1.97) | 1.20 (0.68–2.09) | 0.00 (0.00-NA) | |||||
| T/T | 0.40 (0.10–1.56) | 0.65 (0.17–2.55) | 0.00 (0.00-NA) | 0.00 (0.00-NA) | |||||
| Recessive | C/C-T/C | 1.00 | 0.15 | 1.00 | 0.48 | 1.00 | 0.041 | 1.00 | 0.37 |
| T/T | 0.39 (0.10–1.51) | 0.62 (0.16–2.42) | 0.00 (0.00-NA) | 0.00 (0.00-NA) | |||||
| rs11177074 | |||||||||
| Codominant | T/T | 1.00 | 0.42 | 1.00 | 0.39 | 1.00 | 0.41 | 1.00 | 0.74 |
| T/C | 1.16 (0.75–1.81) | 1.09 (0.66–1.80) | 1.30 (0.71–2.38) | 1.25 (0.34–4.54) | |||||
| C/C | NA (0.00-NA) | NA (0.00-NA) | NA | NA | |||||
| Recessive | T/T-T/C | 1.00 | 0.25 | 1.00 | 0.18 | NA | NA | NA | NA |
| C/C | NA (0.00-NA) | NA (0.00-NA) | NA | NA | |||||
SNP, single nucleotide polymorphism; CI, confidence interval; OR, odds ratio. Statistically significant values are shown in bold; NA, not available.
Figure 1.SULF1 desulfates HSPGs (A) and blocks the binding of growth factors and their receptors (B). As a result it inhibits the activation of growth factor and the signaling pathways (C).