Comparative genome-wide DNA methylation analysis in myocardial tissue from donors with and without Down syndrome

• Published in: Gene Vol. 764; p. 145099
• Main Authors: Cejas, Romina B., Wang, Jie, Hageman-Blair, Rachael, Liu, Song, Blanco, Javier G.
• Format: Journal Article
• Language: English
• Published: Netherlands Elsevier B.V 05.01.2021
• Subjects: Adult; age; Aged; Aged, 80 and over; architecture; Cardiac methylation; Child; Chromosomes, Human, Pair 21 - genetics; Core Binding Factor Alpha 2 Subunit - genetics; CpG Islands - genetics; DNA; DNA Methylation; Down syndrome; Down Syndrome - genetics; Epigenesis, Genetic; Epigenetics; Epigenomics; Female; gender; gene expression; genes; Genetic Loci - genetics; Heart; Humans; Infant; loci; Male; Middle Aged; Myocardium; Myocardium - metabolism; non-coding RNA; people; phenotype; proteins; Real-Time Polymerase Chain Reaction; regression analysis; Reverse Transcriptase Polymerase Chain Reaction; RNA, Messenger - metabolism; sampling; Sequence Analysis, DNA; trisomics; Trisomy 21; variability; Young Adult; Heart; RNA; DMR; GO; mRNA; non-DS; ACTB; DS; RUNX1; Trisomy 21; SNP; FDR; DNA; RRBS; Cardiac methylation; Epigenetics; Myocardium; RT-qPCR; PCR; DSCR
• DOI: 10.1016/j.gene.2020.145099
• ISSN: 0378-1119; 1879-0038

•Global DNA methylation is similar in DS and non-DS myocardium.•There is a small number of differentially methylated loci in DS myocardium.•58% of genes overlapping with DMR codify for proteins with known functions. Down syndrome (DS, trisomy 21) is the most common major chromosomal aneuploidy compatible with life. The additional whole or partial copy of chromosome 21 results in genome-wide imbalances that drive the complex pathobiology of DS. Differential DNA methylation in the context of trisomy 21 may contribute to the variable architecture of the DS phenotype. The goal of this study was to examine the genomic DNA methylation landscape in myocardial tissue from non-fetal individuals with DS. >480,000 unique CpG sites were interrogated in myocardial DNA samples from individuals with (n = 12) and without DS (n = 12) using DNA methylation arrays. A total of 93 highly differentially methylated CpG sites and 16 differentially methylated regions were identified in myocardial DNA from subjects with DS. There were 18 differentially methylated CpG sites in chromosome 21, including 5 highly differentially methylated sites. A CpG site in the RUNX1 locus was differentially methylated in DS myocardium, and linear regression suggests that donors’ age, gender, DS status, and RUNX1 methylation may contribute up to ~51% of the variability in RUNX1 mRNA expression. In DS myocardium, only 58% of the genes overlapping with differentially methylated regions codify for proteins with known functions and 24% are non-coding RNAs. This study provides an initial snapshot on the extent of genome-wide differential methylation in myocardial tissue from persons with DS.