| Literature DB >> 32411181 |
Donglei Wu1, Peng Zhou2, Fengdi Cao3, Zhengshen Lin1, Defeng Liang1, Xincai Zhou1.
Abstract
OBJECTIVE: Periodontitis is a chronic inflammatory disease with a downregulated immune response. The mechanisms of the immune response, especially regarding immune-related long non-coding RNAs (lncRNAs), in periodontitis remain unclear. This study aimed to analyze the immune cell landscapes and immune-related transcriptome expression in periodontitis.Entities:
Keywords: differential immune-related genes; gene set enrichment analysis; immune infiltration; long non-coding rna; periodontitis
Year: 2020 PMID: 32411181 PMCID: PMC7199422 DOI: 10.3389/fgene.2020.00382
Source DB: PubMed Journal: Front Genet ISSN: 1664-8021 Impact factor: 4.599
FIGURE 1Composition of infiltrated immune cell subpopulations in gingival tissues with or without periodontitis. (A) Fraction of 21 infiltrated immune cell subpopulations determined by CIBERSORT. (B) Heatmap of the gene expression of immune cell subpopulations. (C) Comparison of infiltrated immune cell subpopulations in gingival tissues with or without periodontitis. A high proportion of plasma cells infiltrated in periodontitis individuals. Plasma cells increased in gingival tissues with periodontitis lesion versus those of healthy tissues.
FIGURE 2Coherence analysis of immune cell subgroups in gingival tissues with periodontitis. (A) Correlation among immune cell subpopulations. A negative correlation was observed between plasma cells and CD4 memory T cells and between resting DC cells and memory B cells. (B) Principal component analysis between healthy and periodontitis tissues based on infiltrated immune cell types.
FIGURE 3Differentially expressed immune-related genes in immune cells. (A) Differentially expressed immune-related genes in the heatmap. (B) Six immune cell subpopulations significantly correlated with DEMGs, especially for plasma cells, memory B cells and resting DCs.
FIGURE 4Gene set enrichment analysis of immune-related pathways in periodontitis. (A) Cytokine network pathway; (B) B cell survival pathway; (C) Costimulatory signal during T-cell activation; (D) TACI and BCMA stimulation of the B cell immune response pathway; (E) Nerve growth factor pathway; (F) Insulin signaling pathway. (G) Bubble diagram of enriched immune-related pathways.
Differential expression of lncRNAs between periodontitis and healthy gingival tissues.
| FAM30A | 2.332728 | 2.30E-31 | 1.89E-28 | 60.48085 |
| GUSBP11 | 1.230011 | 2.06E-34 | 3.39E-31 | 67.38843 |
| CARMN | 1.229579 | 1.48E-28 | 8.13E-26 | 54.11162 |
| LINC00525 | 1.002184 | 8.63E-12 | 4.05E-10 | 16.22549 |
FIGURE 5Immune-related lncRNAs identified in immune cell types. (A) Network analysis between differentially expressed lncRNAs and immune-related genes in gingival tissues with or without periodontitis. The connection between immune cell types and immune-related lncRNAs means the correlation coefficient with | R| > 0.6 and P < 0.05. Three immune-related lncRNAs (FAM30A, GUSBP11, and LINC00525) were identified. (B) Correlation analysis between immune-related lncRNAs and immune cell subpopulations. (C) RT-PCR validation of immune-related lncRNAs (FAM30A, GUSBP11, and LINC00525); (D) FAM30A and GUSBP11 expression profiles in normal human immune cells. lncRNAs (FAM30A and GUSBP11) were highly expressed in B cells and their terminally differentiated offspring.
Correlation between lncRNAs and immune cell types.
| Memory B cells | GUSBP11 | 1.33E-45 | −0.69257437 |
| Memory B cells | FAM30A | 2.25E-48 | −0.707609487 |
| Plasma cells | GUSBP11 | 1.09E-88 | 0.852302683 |
| Plasma cells | FAM30A | 7.31E-92 | 0.859699542 |
| Resting Dendritic cells | GUSBP11 | 5.28E-47 | −0.700292083 |
| Resting Dendritic cells | FAM30A | 3.26E-37 | −0.640632168 |