McVey, D. G. | Search bioRxiv

bioRxiv2023

Allele-specific epigenetic regulation of FURIN expression at a coronary artery disease susceptibility locus

BackgroundGenome-wide association studies have revealed an association between the genetic variant rs17514846 on chromosome 15q26.1 and coronary artery disease susceptibility. Studies have shown that rs17514846 influences the expression of the FES Upstream Region (FURIN) gene located at this locus in monocytes. We investigated the mechanism through which rs17514846 modulates FURIN expression. Methods and ResultsAn analysis of isogenic monocytic cell lines with either the rs17514846 C/C or A/A genotype showed that the cells of the A/A genotype expressed higher levels of FURIN than cells of the C/C genotype. A pyrosequencing methylation analysis showed that the cytosine (in a CpG motif) at the rs17514846 position on the C allele was methylated. Treatment with the DNA methylation inhibitor 5-aza-2-deoxycytidine increased FURIN expression. A bioinformatic analysis indicated that the rs17514846 site might interact with the transcription factor MeCP2 that often functions as a gene repressor by binding to methylated CpG sites. An electrophoretic mobility super-shift assay with a probe corresponding to the DNA sequence at and around the rs17514846 position of the C allele detected two DNA-protein complex bands, which were altered by the addition of an anti-MeCP2 antibody in the assay, whilst these DNA-protein complexes were barely detectable with a probe for the A allele. A chromatin immunoprecipitation assay showed an enrichment of the DNA sequence containing the rs17514846 site in chromatin precipitates pulled down by an anti-MeCP2 antibody. siRNA-mediated knockdown of MeCP2 caused an increase in FURIN expression. Furthermore, MeCP2 knockdown increased monocyte migration and proliferation, and this effect was diminished by a FURIN inhibitor. ConclusionsThe results of our study suggest that DNA methylation inhibits FURIN expression and that the coronary artery disease predisposing variant rs17514846 modulates FURIN expression and monocyte migration via an allele-specific effect on DNA methylation.

genetics↗

bioRxiv2023

Identification and Characterization of novel long non-coding RNAs in vascular smooth cells

A significant portion of the RNA produced from the human genome consists of long non-coding RNAs (lncRNAs). These molecules tend to have lower levels of expression, are more specific to certain tissues, and show greater variation in expression between individuals compared to protein-coding messenger RNAs (mRNAs). LncRNAs have been linked with regulatory roles in gene expression and genome architecture. There is growing evidence that lncRNAs play important roles in many biological processes and diseases, and a number of lncRNAs have been identified as potential therapeutic targets. Here, we report the identification and characterization of the lncRNA landscape of vascular smooth muscle cells (VSMC). We used an ensemble of bioinformatics tools to identify 329 novel lncRNAs from a large VSMC RNA-Seq dataset. We found that majority of the novel lncRNAs are natural antisense transcripts of protein-coding genes. In addition, we predicted cellular localization and potential miRNAs that targets the novel lncRNAs and found that most localize in the cytoplasm and that miRNA target site ranged from 2-889 sites on each novel lncRNA. Furthermore, we identified co-expressed lncRNAs that correlate with the proliferation, migration and apoptosis of vascular smooth muscle cells. These results suggest that we have identified a diverse set of previously unknown lncRNAs that may be involved in important regulatory pathways in vascular smooth muscle cells.

bioinformatics↗