Abstract
Long non-coding RNAs (lncRNAs) are prevalently transcribed in the genome and have been found to be of functional importance. However, the potential roles of lncRNAs in dermatomyositis (DM) remain unknown. In this study, a lncRNA + mRNA microarray analysis was performed to profile lncRNAs and mRNAs from 15 treatment-naive DM patients and 5 healthy controls. We revealed a total of 1198 lncRNAs (322 up-regulated and 876 down-regulated) and 1213 mRNAs (665 up-regulated and 548 down-regulated) were significantly differentially expressed in DM patients compared with the healthy controls (fold change>2, P < 0.05). Subgrouping DM patients according to the presence of interstitial lung disease and anti-Jo-1 antibody revealed different expression patterns of the lncRNAs. Pathway and gene ontology analysis for the differentially expressed mRNAs confirmed that type 1 interferon signaling was the most significantly dysregulated pathway in all DM subgroups. In addition, distinct pathways that uniquely associated with DM subgroup were also identified. Bioinformatics prediction suggested that linc-DGCR6-1 may be a lncRNA that regulates type 1 interferon-inducible gene USP18, which was found highly expressed in the perifascicular areas of the muscle fibers of DM patients. Our findings provide an overview of aberrantly expressed lncRNAs in DM muscle and further broaden the understanding of DM pathogenesis.
Highlights
IntroductionEisenberg et al firstly reported the altered expression of several microRNA molecules in the muscle tissue of myositis patients[11]
We examined the lncRNA and mRNA expression profiles in the muscle of 15 DM patients and 5 healthy controls
The microarray data revealed 1213 mRNAs and 1198 lncRNAs were differentially expressed in DM patients compared with the control group
Summary
Eisenberg et al firstly reported the altered expression of several microRNA molecules in the muscle tissue of myositis patients[11]. Further investigation demonstrated that microRNA-1, -133, -206, -126 contributed to the pathogenesis of myositis as important regulating factors of relevant gene expression[12,13]. Despite emerging data showing the regulatory role of microRNAs in myositis, there is a paucity of information concerning the expression and potential role of lncRNAs in myositis. High throughput genome screening can provide a panoramic view of gene expression in pathological conditions and may provide new insights for disease pathomechanism. In order to explore the expression pattern of lncRNAs in different DM clinical subtypes and to find potential regulatory lncRNAs in DM muscle, we profiled the lncRNAs and mRNAs in muscle tissue by using microarray analysis
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