| Literature DB >> 31301734 |
Ya-Feng Ji1, Xuesheng Jiang1, Wei Li2, Xingtao Ge3.
Abstract
AIMS: To investigate the association of four single-nucleotide polymorphisms (SNPs) of the IL-6 gene with osteoporosis (OST) susceptibility.Entities:
Keywords: IL- 6; Interaction; Obesity; Osteoporosis; Polymorphism
Mesh:
Substances:
Year: 2019 PMID: 31301734 PMCID: PMC6626630 DOI: 10.1186/s12199-019-0803-y
Source DB: PubMed Journal: Environ Health Prev Med ISSN: 1342-078X Impact factor: 3.674
Description of 4 SNPs within IL-6 gene and the primers designed
| SNPs | Chromosome | Functional consequence | Restriction endonuclease | Alleles | Primer (5′→3′) |
|---|---|---|---|---|---|
| rs1800795-174G/C | 7:22727026 | Intron variant, upstream variant 2KB |
| G/ C | F: 5′-TGACTTCAGCTTTACTCTTGT-3′ R: 5′-CTGATTGGAAACCTTATTAAG-3′ |
| rs1800796-572C/G | 7:22726627 | Intron variant, nc transcript variant, upstream variant 2KB |
| C/ G | F: 5′-AGATTCCAAGGGTCACTTG-3′ R: 5′-AGAAGCAGAACCACTCTTC-3′ |
| rs1554606 185C/A | 7:22729088 | Intron variant, upstream variant 2KB |
| C/ A | F: 5′-ACTCATACATCTGGCCGTTG-3′ R: 5′-CTGATGGAGTATGGTGGAGG-3′ |
| rs2069849 | 7:22731537 | Downstream variant 500B, missense, synonymous codon |
| C/ T | F: 5′-CGTGCATGACTTCAGCTTTACT-3′ R: 5′-CAGTGACCAGATTAACAGGCTAGA-3′ |
General characteristics of study participants in case and control group
| Variables | Osteoporosis cases ( | Controls ( | |
|---|---|---|---|
| Age (years) (means ± SD) | 65.5 ± 16.1 | 66.7 ± 17.0 | 0.157 |
| BMI (kg/m2) (means ± SD) | 24.4 ± 5.9 | 23.3 ± 5.6 | 0.0002 |
| WC (cm) (means ± SD) | 86.5 ± 16.1 | 84.2 ± 15.6 | 0.005 |
| Smoke, | 62 (8.2) | 39 (5.1) | 0.015 |
| Alcohol drinking, | 102 (13.5) | 60 (7.8) | 0.0004 |
| Calcium supplementation, | 244 (32.2) | 223 (29.1) | 0.192 |
| YSM (years) (means ± SD) | 9.52 ± 5.84 | 10.03 ± 5.65 | 0.083 |
| Femoral neck | − 2.73 ± 0.69 | 0.02 ± 0.30 | 0.000 |
| Total femoral | − 1.57 ± 1.01 | 0.03 ± 0.24 | 0.000 |
| Lumbar spine | − 0.75 ± 0.91 | 0.45 ± 0.82 | 0.000 |
| Lumbar BMD (g/cm2) (means ± SD) | 0.90 ± 0.14 | 1.05 ± 0.13 | 0.000 |
| Femoral BMD (g/cm2) (means ± SD) | 0.82 ± 0.10 | 0.95 ± 0.11 | 0.000 |
YSM years since menopause; BMI body mass index; WC waist circumference; BMD bone mineral density
The association of genotype and allele within four SNPs with OP risk
| SNPs | Genotypes and alleles | Frequencies |
|
| |
|---|---|---|---|---|---|
| OP patients ( | Controls ( | ||||
| rs1800796-572C/G | CC | 377 (49.7) | 469 (61.2) | 1.00 | 0.346 |
| CG | 300 (39.6) | 255 (33.3) | 1.39 (1.09–1.65) | ||
| GG | 81 (10.7) | 42 (5.5) | 1.90 (1.29–2.54) | ||
| CG + GG | 381 (50.3) | 297 (38.8) | 1.47 (1.13–1.78) | ||
| C | 1054 (69.5) | 1193 (77.9) | |||
| G | 462 (30.5) | 339 (22.1) | |||
| rs1800795-174G/C | GG | 399 (52.6) | 440 (57.4) | 1.00 | 0.106 |
| GC | 285 (37.6) | 270 (35.2) | 1.07 (0.94–1.39) | ||
| CC | 74 (9.8) | 56 (7.3) | 1.12 (0.85–1.60) | ||
| GC + CC | 359 (47.4) | 326 (42.6) | 1.09 (0.91–1.44) | ||
| G | 1083 (71.4) | 1150 (75.1) | |||
| C | 433 (28.6) | 382 (24.9) | |||
| rs2069849 | CC | 384 (50.7) | 481 (62.8) | 1.00 | 0.730 |
| CT | 306 (40.4) | 250 (32.6) | 1.65 (1.38–1.90) | ||
| TT | 68 (9.0) | 35 (4.6) | 2.03 (1.63–2.84) | ||
| CT + TT | 374 (49.3) | 285 (37.2) | 1.74 (1.46–2.05) | ||
| C | 1074 (70.8) | 1212 (79.1) | |||
| T | 442 (29.2) | 320 (20.9) | |||
| rs1554606 (185C/A) | CC | 405 (53.4) | 447 (58.4) | 1.00 | 0.272 |
| CA | 292 (38.5) | 269 (35.1) | 1.08 (0.91–1.36) | ||
| AA | 61 (8.1) | 50 (6.5) | 1.04 (0.82–1.53) | ||
| CA + AA | 353 (46.6) | 319 (41.6) | 1.07 (0.89–1.39) | ||
| C | 1102 (72.7) | 1163 (75.9) | |||
| A | 414 (27.3) | 369 (24.1) | |||
*Adjusted for age, smoke, obesity, and alcohol consumption status.
Best gene–environment interaction models as identified by GMDR
| Locus no. | Best combination | Cross-validation consistency | Testing accuracy | |
|---|---|---|---|---|
| Gene–alcohol drinking interaction* | ||||
| 2 | 1, 5 | 6/10 | 0.522 | 0.324 |
| 3 | 1, 3, 5 | 7/10 | 0.514 | 0.255 |
| 4 | 1, 2, 3, 5 | 6/10 | 0.597 | 0.212 |
| 5 | 1, 2, 3, 4, 5 | 7/10 | 0.523 | 0.240 |
| Gene–smoking interaction** | ||||
| 2 | 3, 6 | 7/10 | 0.488 | 0.536 |
| 3 | 3, 1, 6 | 6/10 | 0.523 | 0.706 |
| 4 | 1, 2, 3, 6 | 5/10 | 0.536 | 0.862 |
| 5 | 1, 2, 3, 4, 6 | 6/10 | 0.518 | 0.377 |
| Gene–obesity interaction*** | ||||
| |
|
|
|
|
| 3 | 1, 2,7 | 8/10 | 0.526 | 0.266 |
| 4 | 1, 2, 4, 7 | 9/10 | 0.514 | 0.545 |
| 5 | 1, 2, 3, 4, 7 | 5/10 | 0.634 | 0.372 |
*Adjusted for age, smoke, and obesity
**Adjusted for age, alcohol consumption status, and obesity
***Adjusted for age, smoke, and alcohol consumption status
Numbers 1–7 represent rs1800796, rs1800795, rs2069849, rs1554606, alcohol drinking, smoking, and obesity, respectively
Stratified analysis for interaction between rs1800796 and obesity using logistic regression
|
| Obesity | OR (95% CI) * | |
|---|---|---|---|
| CC | No | 1.00 | – |
| CG or GG | No | 1.21 (1.05–1.52) | 0.030 |
| CC | Yes | 1.43 (1.10–1.85) | 0.003 |
| CG or GG | Yes | 2.21 (1.52–3.49) | < 0.001 |
*Adjusted for age, smoke, and alcohol consumption status