Differential DNA methylation and mRNA transcription in gingival tissues in periodontal health and disease.
epigenetics
gingivitis
pathogenesis
periodontitis
transcriptomics
Journal
Journal of clinical periodontology
ISSN: 1600-051X
Titre abrégé: J Clin Periodontol
Pays: United States
ID NLM: 0425123
Informations de publication
Date de publication:
09 2021
09 2021
Historique:
revised:
13
04
2021
received:
07
02
2021
accepted:
14
05
2021
pubmed:
9
6
2021
medline:
3
9
2022
entrez:
8
6
2021
Statut:
ppublish
Résumé
We investigated differential DNA methylation in gingival tissues in periodontal health, gingivitis, and periodontitis, and its association with differential mRNA expression. Gingival tissues were harvested from individuals and sites with clinically healthy and intact periodontium, gingivitis, and periodontitis. Samples were processed for differential DNA methylation and mRNA expression using the IlluminaEPIC (850 K) and the IlluminaHiSeq2000 platforms, respectively. Across the three phenotypes, we identified differentially methylated CpG sites and regions, differentially expressed genes (DEGs), and genes with concomitant differential methylation at their promoters and expression were identified. The findings were validated using our earlier databases using HG-U133Plus2.0Affymetrix microarrays and Illumina (450 K) methylation arrays. We observed 43,631 differentially methylated positions (DMPs) between periodontitis and health, and 536 DMPs between gingivitis and health (FDR < 0.05). On the mRNA level, statistically significant DEGs were observed only between periodontitis and health (n = 126). Twelve DEGs between periodontitis and health (DCC, KCNA3, KCNA2, RIMS2, HOXB7, PNOC, IRX1, JSRP1, TBX1, OPCML, CECR1, SCN4B) were also differentially methylated between the two phenotypes. Spearman correlations between methylation and expression in the EPIC/mRNAseq dataset were largely replicated in the 450 K/Affymetrix datasets. Concomitant study of DNA methylation and gene expression patterns may identify genes whose expression is epigenetically regulated in periodontitis.
Identifiants
pubmed: 34101221
doi: 10.1111/jcpe.13504
pmc: PMC8376779
mid: NIHMS1707809
doi:
Substances chimiques
Cell Adhesion Molecules
0
GPI-Linked Proteins
0
HOXB7 protein, human
0
Homeodomain Proteins
0
IRX1 protein, human
0
OPCML protein, human
0
RNA, Messenger
0
Transcription Factors
0
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
1152-1164Subventions
Organisme : NIDCR NIH HHS
ID : R03 DE024735
Pays : United States
Organisme : NIDCR NIH HHS
ID : DE015649
Pays : United States
Organisme : NIH HHS
ID : NCATS: TR000040
Pays : United States
Organisme : NCATS NIH HHS
ID : UL1 TR000040
Pays : United States
Organisme : NIDCR NIH HHS
ID : R03 DE029546
Pays : United States
Organisme : NIDCR NIH HHS
ID : DE024735
Pays : United States
Organisme : NIDCR NIH HHS
ID : DE021820
Pays : United States
Organisme : NIDCR NIH HHS
ID : R01 DE015649
Pays : United States
Organisme : NIDCR NIH HHS
ID : R21 DE021820
Pays : United States
Informations de copyright
© 2021 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.
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