A Landscape of lncRNA Expression Profile and the Predictive Value of a Candidate lncRNA for Silica-Induced Pulmonary Fibrosis

Lei, Xiaoguang; Qing, Ailing; Yuan, Xuemei; Qiu, Delu; Li, Haiyu

doi:10.1089/dna.2020.5531

Cited by 3 publications

(3 citation statements)

References 26 publications

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“…Lei et al [ 137 ] mined the microarray data in the GEO and discovered 1,140 differentially expressed mRNAs and 1,406 differentially expressed lncRNAs after BEAS-2B cells were exposed to unshaped nanosilica particles; among these findings, 20 differentially expressed mRNAs were upregulated, 1,120 differentially expressed mRNAs were downregulated, 213 differentially expressed lncRNAs were upregulated, and 1,193 differentially expressed lncRNAs were downregulated. The study also demonstrated through cell experiments that Ak131029 inhibition can inhibit the proliferation of human lung fibroblasts (HPFS and HS888LU) [ 137 ].…”

Section: Ncrnamentioning

confidence: 99%

Epigenetic Changes and Functions in Pneumoconiosis

Cheng

Fan

et al. 2022

Oxidative Medicine and Cellular Longevity

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Pneumoconiosis is one of the most common occupational diseases in the world, and specific treatment methods of pneumoconiosis are lacking at present, so it carries great social and economic burdens. Pneumoconiosis, coronavirus disease 2019, and idiopathic pulmonary fibrosis all have similar typical pathological changes—pulmonary fibrosis. Pulmonary fibrosis is a chronic lung disease characterized by excessive deposition of the extracellular matrix and remodeling of the lung tissue structure. Clarifying the pathogenesis of pneumoconiosis plays an important guiding role in its treatment. The occurrence and development of pneumoconiosis are accompanied by epigenetic factors (e.g., DNA methylation and noncoding RNA) changes, which in turn can promote or inhibit the process of pneumoconiosis. Here, we summarize epigenetic changes and functions in the several kinds of evidence classification (epidemiological investigation, in vivo, and in vitro experiments) and main types of cells (macrophages, fibroblasts, and alveolar epithelial cells) to provide some clues for finding specific therapeutic targets for pneumoconiosis and even for pulmonary fibrosis.

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Section: Ncrnamentioning

confidence: 99%

Epigenetic Changes and Functions in Pneumoconiosis

Cheng

Fan

et al. 2022

Oxidative Medicine and Cellular Longevity

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“…To identify the crucial lncRNA-mRNA networks for silica-induced pulmonary fibrosis, Lei et al selected a total of 1140 differently expressed mRNAs (DEmRNAs) and 1406 differently expressed lncRNAs (DElncRNAs), in which they demonstrated that lncRNA AK131029 was specifically overexpressed in silicosis [ 75 ]. Using high throughput mRNA sequencing, Chen et al reported that miR-455-3p and five lncRNAs (LOC105375913, NEAT1, LOC105375181, LOC100506098, and LOC105369370) related ceRNA network might be the toxicity mechanism of microcrystalline silica particles to human airway epithelial cells (AEC), which might provide a method for the studies of the pathogenesis of early silicosis [ 76 ].…”

Section: Ncrnamentioning

confidence: 99%

The emerging role of epigenetic regulation in the progression of silicosis

Yin

Xie

et al. 2022

Clin Epigenet

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Silicosis is one of the most severe occupational diseases worldwide and is characterized by silicon nodules and diffuse pulmonary fibrosis. However, specific treatments for silicosis are still lacking at present. Therefore, elucidating the pathogenesis of silicosis plays a significant guiding role for its treatment and prevention. The occurrence and development of silicosis are accompanied by many regulatory mechanisms, including epigenetic regulation. The main epigenetic regulatory mechanisms of silicosis include DNA methylation, non-coding RNA (ncRNA), and histone modifications. In recent years, the expression and regulation of genes related to silicosis have been explored at epigenetic level to reveal its pathogenesis further, and the identification of aberrant epigenetic markers provides new biomarkers for prediction and diagnosis of silicosis. Here, we summarize the studies on the role of epigenetic changes in the pathogenesis of silicosis to give some clues for finding specific therapeutic targets for silicosis.

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“…Sai et al showed that silica induced changes in the expression of numerous lncRNAs and that these altered lncRNAs affected the occurrence and development of pulmonary fibrosis by regulating the expression of genes in rat lungs [25]. Meanwhile, silencing of the lncRNA AK131029, which is overexpressed in patients with silicosis, could inhibit the proliferation and migration of human lung fibroblasts, thereby preventing the progression of pulmonary fibrosis [26]. Additionally, some lncRNAs, including lncRNAs MALAT1, ATB, and CHRF, are involved in a competitive endogenous RNA (ceRNA) regulatory network, which affects the progression of pulmonary fibrosis [27][28][29].…”

Section: Introductionmentioning

confidence: 99%

The single nucleotide polymorphism rs1814521 in long non-coding RNA <i>ADGRG3</i> associates with the susceptibility to silicosis: a multi-stage study

Wang

Chen

et al. 2022

Environ. Health Prev. Med.

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Background: This study aimed to evaluate the correlation between long non-coding RNA (lncRNA)-related single nucleotide polymorphisms (SNPs) and susceptibility to silicosis. Methods: First, RNA-sequencing (RNA-seq) data were comprehensively analyzed in the peripheral blood lymphocytes of eight participants (four silicosis cases and four healthy controls) exposed to silica dust to identify differentially expressed lncRNAs (DE-lncRNAs). The functional SNPs in the identified DE-lncRNAs were then identified using several databases. Finally, the association between functional SNPs and susceptibility to silicosis was evaluated by a two-stage case-control study. The SNPs of 155 silicosis cases and 141 healthy silica-exposed controls were screened by genome-wide association study (GWAS), and the candidate SNPs of 194 silicosis cases and 235 healthy silica-exposed controls were validated by genotyping using the improved Mutiligase Detection Reaction (iMLDR) system. Results: A total of 76 DE-lncRNAs were identified by RNA-seq data analysis (cut-offs: fold change > 2 or fold change < 0.5, P < 0.05), while 127 functional SNPs among those 76 DE-lncRNAs were identified through multiple public databases. Furthermore, five SNPs were found to be significantly correlated with the risk of silicosis by GWAS screening (P < 0.05), while the results of GWAS and iMLDR validation indicated that the variant A allele of rs1814521 was associated with a reduced risk of silicosis (OR = 0.76, 95% CI = 0.62-0.94, P = 0.011). Conclusion:The presence of the SNP rs1814521 in the lncRNA ADGRG3 is associated with susceptibility to silicosis. Moreover, ADGRG3 was found to be lowly expressed in silicosis cases. The underlying biological mechanisms by which lncRNA ADGRG3 and rs1814521 regulate the development of silicosis need further study.

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A Landscape of lncRNA Expression Profile and the Predictive Value of a Candidate lncRNA for Silica-Induced Pulmonary Fibrosis

Cited by 3 publications

References 26 publications

Epigenetic Changes and Functions in Pneumoconiosis

Epigenetic Changes and Functions in Pneumoconiosis

The emerging role of epigenetic regulation in the progression of silicosis

The single nucleotide polymorphism rs1814521 in long non-coding RNA <i>ADGRG3</i> associates with the susceptibility to silicosis: a multi-stage study

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