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Hum Mol Genet. 2018 Jan 1;27(1):135-146. doi: 10.1093/hmg/ddx391.

Mining DNA methylation alterations towards a classification of placental pathologies.

Author information

1
BC Children's Hospital Research Institute, Vancouver, BC V5Z 4H4, Canada.
2
Department of Medical Genetics, University of British Columbia, Vancouver, BC V6H 3N1, Canada.
3
Department of Physiology, University of Toronto, Toronto, ON M5S 1A8, Canada.
4
Department of Obstetrics and Gynecology, University of Toronto, Toronto, ON M5G 1E2, Canada.

Abstract

Placental health is a key component to a successful pregnancy. Placental insufficiency (PI), inadequate nutrient delivery to the fetus, is associated with preeclampsia (PE), a maternal hypertensive disorder, and intrauterine growth restriction (IUGR), pathologically poor fetal growth. PI is more common in early-onset PE (EOPE) than late-onset PE (LOPE). However, the relationship between these disorders remains unclear. While DNA methylation (DNAm) alterations have been identified in PE and IUGR, these entities can overlap and few studies have analysed them separately. This study aims to utilize DNAm profiling to better understand the underlying placental variation associated with PE and IUGR. Placental samples from a discovery (43 controls, 22 EOPE, 18 LOPE, 11 IUGR) and validation cohort (15 controls, 22 EOPE, 11 LOPE) were evaluated using the Illumina HumanMethylation450 array. To account for gestational age (GA) effects, EOPE samples were compared with pre-term births of varying etiologies (GA <37 weeks). LOPE and IUGR were compared with term controls (GA >37 weeks). While 1703 sites were differentially methylated (DM) (FDR < 0.05, Δβ > 0.1) in EOPE, few changes were associated with LOPE (N = 5), or IUGR (N = 0). Of the 1703 EOPE sites, 599 validated in the second cohort. Using these 599 sites, both cohorts clustered into three distinct groups. Interestingly, LOPE samples diagnosed between 34 and 36 weeks with co-occurring IUGR clustered with the EOPE. DNAm profiling may provide an independent tool to refine clinical/pathological diagnoses into subgroups with more uniform pathology. Despite large changes observed in EOPE, there were challenges in reproducing genome-wide DNAm hits that are discussed.

PMID:
29092053
PMCID:
PMC5886226
DOI:
10.1093/hmg/ddx391
[Indexed for MEDLINE]
Free PMC Article

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