Comparing DNA methylation profiles in saliva and intestinal mucosa

BMC Genomics
Nerissa L HearnJoanne M Lind

Abstract

Altered epigenetic profiles are a feature of intestinal diseases, including ulcerative colitis and Crohn's disease. DNA methylation studies in these diseases have utilised intestinal mucosal tissue or blood which can be difficult to collect, particularly for large-scale research studies. Saliva is an attractive alternative for epigenetic studies as it is easy to collect and provides high quality methylation profiles. The aim of the study was to determine the utility of saliva as an alternative for DNA methylation studies of intestinal disorders. DNA methylation in saliva and intestinal mucosa samples were compared in individuals (n = 10) undergoing endoscopies using the Illumina Infinium Methylation 450 K Beadchip array. We found that DNA methylation was correlated between tissue types within an individual (Pearson correlation co-efficient r = 0.92 to 0.95, p < 0.001). Of the 48,541 probes (approximately 11% of CpG sites) that were differentially methylated between saliva and intestinal mucosa (adjusted p < 0.001, |Δβ| ≥ 20%), these mapped to genes involved in tissue-specific pathways, including the apelin signalling and oxytocin pathways which are important in gastrointestinal cytoprotection and motility. This study suggests t...Continue Reading

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Citations

Feb 17, 2021·Epigenetics : Official Journal of the DNA Methylation Society·Lauren Y M MiddletonKelly M Bakulski
Jul 3, 2021·Journal of Personalized Medicine·Óscar Rapado-GonzálezMaría Mercedes Suárez-Cunqueiro

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Methods Mentioned

BETA
methylation profiling
blood collection
MDS
biopsy
sedation

Software Mentioned

Illumina GenomeStudio
Bioconductor package
sva
methylumi
missMethyl package
RStudio
DMRcate
R
limma
minfi

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