An integrated analysis of lncRNA and mRNA expression profiles in the kidneys of mice with lupus nephritis

Abstract

Long noncoding RNAs (lncRNAs) are persistently expressed and have been described as potential biomarkers and therapeutic targets in various diseases. However, there is limited information regarding lncRNA expression in the tissue of kidney exhibiting lupus nephritis (LN)a serious complication of systemic lupus erythematosus (SLE). In this study, RNA sequencing (RNA-seq) was performed to characterize the lncRNA and mRNA expression in kidney tissues from LN (MRL/lpr) and control mice. We identified 12,979 novel lncRNAs in mouse. The expression profiles of both mRNAs and lncRNAs were differed significantly between LN and control mice. In particular, there were more upregulated lncRNAs and mRNAs than downregulated ones in the kidney tissues of LN mice. However, GO analysis showed that more downregulated genes were enriched in immune and inflammatory response-associated pathways. KEGG analysis showed that both downregulated and upregulated genes were enriched in a number of pathways, including the SLE pathway, and approximately half of these SLE-associated genes encoded inflammatory factors. Moreover, we observed that 2,181 DElncRNAs may have targeted and regulated the expression of 778 mRNAs in LN kidney tissues. The results of this study showed that 11 DElncRNAs targeted and were co-expressed with six immune and SLE-associated genes. qPCR analysis confirmed that lncRNA Gm20513 positively regulated the expression of the SLE-associated gene H2-Aa. In conclusion, the results of our study demonstrates that lncRNAs influence the progression of LN and provide some cues for further study of lncRNAs in LN. These results regarding the lncRNA-mRNAregulatory network may have important value in LN diagnosis and therapy.

Molecular Behavior of α-Synuclein Is Associated with Membrane Transport, Lipid Metabolism, and Ubiquitin–Proteasome Pathways in Lewy Body Disease

“…However, the primary objective of this investigation is to clarify the association between the molecular behavior of α-syn and transcriptomic changes in high and low seeders. While a large number of studies have previously explored differences between LBD and normal controls [ 10 , 11 , 12 , 13 , 14 , 15 , 16 , 17 , 18 , 19 , 20 ], the specific distinctions in transcriptomics related to seeding activity have not been reported.…”

“…Proteomic analysis further indicated notable enrichment in membrane structure and significant disruptions in mitochondria and lipid metabolism in α-syn high seeders compared with low seeders [ 8 ]. A multifactorial mechanism involving dysfunction with membrane and intracellular trafficking, mitochondria, ubiquitin–proteasome system (UPS), autophagy–lysosomal pathway (ALP), lipid and vitamin metabolism, cytosolic Ca 2+ , axonal transport, synaptic transmission, neuroinflammation, post-translational protein modification, chromatin remodeling and apoptosis, the Wnt signaling pathway, and the Notch signaling pathway has been proposed for the development of LBD [ 10 , 11 , 12 , 13 , 14 , 15 , 16 , 17 , 18 , 19 , 20 ]. However, the factors influencing, and pathways associated with α-syn seeding activity remain elusive.…”

Long non‐coding RNAs in systemic lupus erythematosus: New insights into disease pathogenesis and diagnosis

“…Further qPCR analysis validated that lncRNA Gm20513 was positively related to the expression of the SLE‐associated gene H2‐Aa in kidney tissues. However, no knockdown or overexpression experiments were performed to verify whether Gm20513 can regulate H2‐Aa expression, nor has their molecular mechanism in SLE been revealed 101 …”

“…However, no knockdown or overexpression experiments were performed to verify whether Gm20513 can regulate H2-Aa expression, nor has their molecular mechanism in SLE been revealed. 101…”

Progress in the application of body fluid and tissue level mRNAs-non-coding RNAs for the early diagnosis and prognostic evaluation of systemic lupus erythematosus

“…The levels of GAS5 and miR-21 are significantly increased in CD4+ T cells of SLE patients, and GAS5 is expressed at a higher level in SLE patients with ulcers ( 93 ). The lncRNA Gm20513 positively regulates the expression of H2-Aa in renal tissues of LN mice ( 94 ).…”