Transcriptomic analysis reveals the potential crosstalk genes and immune relationship between IgA nephropathy and periodontitis

Gao, Xiaoli; Guo, Zhang; Wang, Pengcheng; Liu, Zhiqiang; Wang, Zuomin

doi:10.3389/fimmu.2023.1062590

Cited by 19 publications

(5 citation statements)

References 41 publications

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“…This may reveal that CD8 T cells and NK cells activated in the kidneys of IgAN patients may promote disease progression. Recent studies have suggested that T cells and their cytokines are involved in posttranslational modi cation of IgA1 hinge region [32,33]. Peng et al demonstrated that Th cell disorder is correlated with proteinuria in IgAN [34].…”

Section: Discussionmentioning

confidence: 99%

Identification of hub fatty acid metabolism-related genes and immune infiltration in IgA nephropathy

Qian,

Bian,

Guo

et al. 2023

Preprint

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Aims: To identify the potential mechanism of fatty acid metabolism (FAM)-related genes in IgA nephropathy (IgAN) and to explore its immune cell infiltration feature. Methods: IgAN datasets and FAM-related genes were respectively downloaded from GEO and MSigDB database. Differential expression analysis and WGCNA were used to identify overlapping genes. GO and KEGG analysis were conducted to explore the differences between IgAN and control. Furthermore, we utilized LASSO logistic regression to select a FAM-related gene predictive model. ROC was utilized to assess the efficacy of prognostic model. Immune cells and immune-related functions were analysed using CIBERSORT tool. Finally, the screened key genes were confirmed in blood derived IgAN and control patient, as well as in human mesangial cells (HMCs) after Gd-IgA stimulation by Real-time PCR. Results: A total of 12 hub genes associated with FAM were obtained in IgAN. A 4 gene predictive model was conducted via LASSO regression analysis and the AUC values showed that the model had a relatively good diagnostic performance. The immune infiltration results revealed that several immune cells are significantly associated with IgAN. Real-time PCR assay further confirmed that the expression of hub genes were significantly lower in IgAN patients and Gd-IgA treated HMCsthan those in control. Conclusion: This study utilized bioinformatics tools to unveiled immune cell infiltration that occurred in IgAN and investigate the potential genetic link between FAM and IgAN. It may predict the risk of IgAN and improve the diagnosis and prognosis of this condition.

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Section: Discussionmentioning

confidence: 99%

Identification of hub fatty acid metabolism-related genes and immune infiltration in IgA nephropathy

Qian,

Bian,

Guo

et al. 2023

Preprint

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“…We used R language for bidirectional clustering analysis of the union and samples of differential genes of all treatments [54]. Clustering was performed based on the expression levels of a given gene in different samples and the expression patterns of different genes in the same sample, distance was calculated by the Euclidean method, and clustering was performed by the hierarchical clustering maximum distance method (complete linkage) [55].…”

Section: Transcriptome Analysis Of T Camphoratus Myceliamentioning

confidence: 99%

Cymbopogon citratus Water Extract and Methyl Jasmonate Improve Polyunsaturated Fatty Acid Metabolism in Taiwanofungus camphoratus Mycelia

Wen,

Lin,

Lin

et al. 2024

Separations

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A rare medicinal fungus called Taiwanofungus camphoratus gives people resistance to illness. In order to effectively obtain high−quality T. camphoratus mycelia, we added Cymbopogon citratus (lemongrass) water extract (LWE), which was prepared using hot water and dry lemongrass leaves and methyl jasmonate (MJ) as an additive, in order to cultivate T. camphoratus mycelia. The components of LWE were identified by gas chromatography–mass spectrometry as glucose (61.66%) and galactose (17.10%). Compare to the basal medium, 0.5–2.5 g·L−1 LWE and 5–25 μmol·L−1 MJ can enhance the proliferation of mycelia and the metabolism of polyunsaturated fatty acids (PUFAs). Among them, the T. camphoratus mycelia growth rate increased to 1.292 ± 0.01 cm·d−1 and 1.285 ± 0.05 cm·d−1, improving by 2.5 g·L−1 LWE and 25 μmol·L−1 MJ, respectively. PUFAs are mainly composed of linoleic acid (LA) and oleic acid (OA). The contents of LA and OA were 0.28 ± 0.02 mg·g−1 and 0.23 ± 0.05 mg·g−1 after MJ treatment, while the contents of LA and OA were 0.08 ± 0.03 mg·g−1 and 0.05 ± 0.05 mg·g−1 after LWE treatment. Transcriptome analyses revealed that 367 and 232 genes within MJ and LWE treatment were significantly different from the basal medium. Out of 13 unigenes, FAD2−2, SCD, and FAD2−1 had the highest expression levels according to the quantitative RT−PCR result. The bioinformatics analysis showed that three genes are closely related to the M8 chromosome of T. camphoratus, and they are hydrophobic transmembrane proteins. The identification and investigation of fatty acid genes in T. camphoratus mycelia will be improved by our findings.

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“…Periodontitis is a common chronic infectious and inflammatory disease affecting people worldwide. Its etiology mainly includes the direct damage of the periodontal tissues by bacteria and the immune disorder of the host caused by bacteria [ 1 ]. Periodontitis is distinguished by enduring inflammation of the tissues that support the teeth, destruction of the periodontal ligaments, and progressive loss of alveolar bone around the teeth [ 2 ].…”

Section: Introductionmentioning

confidence: 99%

Exploration of potential shared gene signatures between periodontitis and multiple sclerosis

Wu,

Cheng,

Zhang

et al. 2024

BMC Oral Health

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Background Although periodontitis has previously been reported to be linked with multiple sclerosis (MS), but the molecular mechanisms and pathological interactions between the two remain unclear. This study aims to explore potential crosstalk genes and pathways between periodontitis and MS. Methods Periodontitis and MS data were obtained from the Gene Expression Omnibus (GEO) database. Shared genes were identified by differential expression analysis and weighted gene co-expression network analysis (WGCNA). Then, enrichment analysis for the shared genes was carried out by multiple methods. The least absolute shrinkage and selection operator (LASSO) regression was used to obtain potential shared diagnostic genes. Furthermore, the expression profile of 28 immune cells in periodontitis and MS was examined using single-sample GSEA (ssGSEA). Finally, real-time quantitative fluorescent PCR (qRT-PCR) and immune histochemical staining were employed to validate Hub gene expressions in periodontitis and MS samples. Results FAM46C, SLC7A7, LY96, CFI, DDIT4L, CD14, C5AR1, and IGJ genes were the shared genes between periodontitis, and MS. GO analysis revealed that the shared genes exhibited the greatest enrichment in response to molecules of bacterial origin. LASSO analysis indicated that CFI, DDIT4L, and FAM46C were the most effective shared diagnostic biomarkers for periodontitis and MS, which were further validated by qPCR and immunohistochemical staining. ssGSEA analysis revealed that T and B cells significantly influence the development of MS and periodontitis. Conclusions FAM46C, SLC7A7, LY96, CFI, DDIT4L, CD14, C5AR1, and IGJ were the most important crosstalk genes between periodontitis, and MS. Further studies found that CFI, DDIT4L, and FAM46C were potential biomarkers in periodontitis and MS.

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Transcriptomic analysis reveals the potential crosstalk genes and immune relationship between IgA nephropathy and periodontitis

Cited by 19 publications

References 41 publications

Identification of hub fatty acid metabolism-related genes and immune infiltration in IgA nephropathy

Identification of hub fatty acid metabolism-related genes and immune infiltration in IgA nephropathy

Cymbopogon citratus Water Extract and Methyl Jasmonate Improve Polyunsaturated Fatty Acid Metabolism in Taiwanofungus camphoratus Mycelia

Exploration of potential shared gene signatures between periodontitis and multiple sclerosis

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