| Literature DB >> 31142478 |
Hilal Ince-Askan1, Pooja R Mandaviya2, Janine F Felix3,4,5, Liesbeth Duijts3,6,7, Joyce B van Meurs2, Johanna M W Hazes8, Radboud J E M Dolhain8.
Abstract
OBJECTIVES: The main objective of this study was to determine whether the DNA methylation profile of children born to mothers with rheumatoid arthritis (RA) is different from that of children born to mothers from the general population. In addition, we aimed to determine whether any differences in methylation are associated with maternal RA disease activity or medication use during pregnancy.Entities:
Keywords: dna methylation; epigenetics; pregnancy; rheumatoid arthritis
Mesh:
Substances:
Year: 2019 PMID: 31142478 PMCID: PMC6788924 DOI: 10.1136/annrheumdis-2018-214930
Source DB: PubMed Journal: Ann Rheum Dis ISSN: 0003-4967 Impact factor: 19.103
Figure 1Flow chart of the study population and exclusion of participants. FEPRA, FEtal Programming in Rheumatoid Arthritis; RA, rheumatoid arthritis.
Descriptive statistics of study population
| FEPRA study (n=80) | Generation R Study (n=354) | |
| Age child* (years), mean (SD) | 6.8 (1.3)† | 6.0 (0.4)† |
| BMI SDS child,* mean (SD) | −0.14 (0.87)† | 0.18 (0.74)† |
| Sex of the child | ||
| Male, n (%) | 46 (57.5) | 176 (49.7) |
| Female, n (%) | 34 (42.5) | 178 (50.3) |
| Maternal age at delivery (years), mean (SD) | 32.9 (3.9) | 32.5 (4.0) |
| Gestational age (weeks), mean (SD) | 39.5 (2.0)† | 40.2 (1.5)† |
| Gestational age <37 weeks, n (%) | 8 (10.0)† | 6 (1.7)† |
| Folic acid | ||
| Start before pregnancy, n (%) | 25 (31.3)† | 212 (59.9)† |
| Start in early pregnancy, n (%) | 19 (23.8)† | 116 (32.8)† |
| No use, n (%) | 36 (45.0)† | 26 (7.3)† |
| SES based on educational level | ||
| Low, n (%) | 9 (11.3)† | 4 (1.1)† |
| Middle, n (%) | 33 (41.3)† | 108 (30.5)† |
| High, n (%) | 38 (47.5)† | 242 (68.4)† |
| Maternal smoking,‡ n (%) | 1 (1.3)† | 86 (24.3)† |
| DAS28-CRP(3) third trimester, mean (SD) | 3.3 (1.1) | – |
| Use of medication ≥1 trimester | ||
| Only prednisone use, n (%) | 17 (21.3) | – |
| Only sulfasalazine use, n (%) | 14 (17.5) | – |
| Combination, n (%) | 13 (16.3) | – |
| Prednisone dose (mg), median (IQR) | ||
| First trimester | 7.5 (2.5–10.0) | – |
| Second trimester | 7.5 (5.0–10.0) | – |
| Third trimester | 6.3 (5.0–10.0) | – |
| No medication use, n (%) | 36 (45.0) | – |
| Fat percentage SDS, mean (SD) | 0.24 (0.97) | – |
*At time of the blood sampling.
†P<0.001.
‡During pregnancy.
BMI, body mass index; DAS28-CRP(3), Disease Activity Score in 28 joints using C reactive protein levels; FEPRA, FEtal Programming in Rheumatoid Arthritis; SDS, SD score; SES, socioeconomic status.
Figure 2Results of the analysis of DNA methylation in children born to mother with rheumatoid arthritis (FEPRA study) compared with children born to women from the general population (Generation R Study). The chromosomes are depicted on the x-axis, and the −log p value on the y-axis. The red line represents the Bonferroni threshold for a significance of p=1.10×10− 7. FEPRA, FEtal Programming in Rheumatoid Arthritis.
Figure 3QQ plot of observed versus expected p values from the analysis of DNA methylation in children born to mother with rheumatoid arthritis (FEPRA study) compared with children born to women from the general population (Generation R Study). FEPRA, FEtal Programming in Rheumatoid Arthritis.
The five most significant CpGs (white rows) and the five CpGs with the largest effect size (grey rows) from the linear mixed model: DNA methylation in blood samples from children born to mothers with RA (FEPRA study) compared with children born to mothers from the general population (Generation R Study)
| CpG | Beta* | SE | P value | Nearest gene (±bp) | Chr | bp | Location† |
| cg06642177 | 0.028 | 0.002 | 1.32×10−24 |
| 6 | 134 496 341 | – |
| cg08867893 | 0.018 | 0.002 | 7.66×10−24 |
| 10 | 64 134 160 | – |
| cg06778273 | 0.024 | 0.002 | 3.77×10−23 |
| 1 | 1 137 117 | – |
| cg07786668 | 0.026 | 0.002 | 7.11×10−23 |
| 16 | 73 092 391 | – |
| cg20116574 | 0.019 | 0.002 | 5.91×10−19 |
| 20 | 44 718 168 | Promoter |
| cg16930947 | −0.050 | 0.008 | 3.22×10−11 | – | 8 | 88 984 447 | – |
| cg01485645 | −0.044 | 0.006 | 1.64×10−13 |
| 17 | 36 862 199 | Promoter |
| cg12360123 | −0.043 | 0.008 | 1.61×10−08 | – | 10 | 79 984 532 | Enhancer |
| cg06656994 | 0.038 | 0.005 | 9.67×10−13 |
| 1 | 179 713 176 | Enhancer |
| cg17483482 | −0.037 | 0.006 | 4.62×10−10 | – | 1 | 117 152 162 | – |
*Beta represents the difference in DNA methylation at the given CpG site in children born to mothers with RA (FEPRA study) as compared with children born to mothers from the general population (Generation R Study).
†Location in promoter, enhancer or unknown (–).
bp, base pair; Chr, chromosome; CpG, cytosine-phosphate-guanine; FEPRA, FEtal Programming in Rheumatoid Arthritis; RA, rheumatoid arthritis.
CpGs that were differentially methylated in the same direction in both blood and in buccal epithelial cells
| CpG | Beta* | SE | P value | Nearest gene (±bp) | Chr | bp | Location† |
| cg22998206 | 0.1029 | 0.022 | 4.40×10−06 | – | 12 | 49 239 429 | – |
| cg03654106 | 0.0727 | 0.016 | 9.50×10−06 | – | 19 | 49 539 527 | – |
| cg02613964 | −0.058 | 0.014 | 7.57×10−05 | – | 3 | 44 690 321 | – |
| cg11336323 | −0.092 | 0.024 | 1.63×10−04 | – | 19 | 41 946 040 | Promoter |
*Beta represents the difference in DNA methylation at the given CpG site in buccal epithelial cells from children born to mothers with RA (FEPRA study) as compared with blood samples from children born to mothers from the general population (Generation R Study).
†Location in promoter, gene, enhancer or unknown (–).
bp, base pair; Chr, chromosome; CpG, cytosine-phosphate-guanine; FEPRA, FEtal Programming in Rheumatoid Arthritis; RA, rheumatoid arthritis.
Results from the eQTM analysis using the 147 CpGs significantly different in children born to mothers with RA (FEPRA study)
| CpG | Beta* | SE* | P value* | Nearest genes | Beta GN† | SE GN† | P value GN† | Genes GN† |
| cg21384971 | 0.029 | 0.004 | 3.86×10−13 |
| −0.073 | 0.039 | 1.79×10−06 | COPZ2 |
| cg11220663 | 0.023 | 0.003 | 1.68×10−11 |
| −0.121 | 0.039 | 3.32×10−06 | ADD2 |
The positive betas in column ‘Beta’ represent hypermethylation, while the negative betas in column ‘Beta GN’ represent decreased gene expression.
*The columns beta, SE, p value and nearest genes represent the results from the analysis of DNA methylation in children born to mothers with RA (FEPRA study) as compared with children born to mothers from the general population (Generation R Study).
†The columns beta GN, SE GN, p value GN and genes GN represent the results from the BIOS eQTM lookup browser.
CpG, cytosine-phosphate-guanine; eQTM, expression quantitative trait methylation; FEPRA, FEtal Programming in Rheumatoid Arthritis; GN, GeneNetwork; RA, rheumatoid arthritis.