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Bioinformatics analysis of synovial fluid-derived mesenchymal stem cells in the temporomandibular joint stimulated with IL-1β

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Abstract

The stimulation of interleukin-1β (IL-1β) is the risk factor for temporomandibular joint osteoarthritis (TMJOA). We aim to investigate IL-1β stimulation-related gene and signal pathways in synovial fluid-derived mesenchymal stem cells (SF-MSCs) inflammatory activation to predict the occurrence of TMJOA. The microarray dataset GSE150057 was downloaded from the gene expression omnibus (GEO) database, and principal component analysis (PCA) was performed on the involved genes to obtain differential genes (DEGs). Gene ontology (GO) and Kyoto encyclopedia of genes and genomes (KEGG) pathway were performed based on the DAVID database. The protein–protein interaction (PPI) network was constructed by the STRING database to identify hub genes. Based on the correlation between differential expression levels of lncRNAs and mRNAs, the co-expression network of lncRNA-mRNA was established. A total of 200 DEGs were obtained. Among 168 differential mRNAs, 126 were up-regulated and 42 were down-regulated; among 32 differential lncRNAs, 23 were up-regulated and 9 were down-regulated. Then, GO analysis showed that DEGs were mainly involved in signal transduction, inflammation, and apoptosis processes. KEGG pathway mainly involved the TNF signaling pathway, NF-κB signaling pathway, NOD-like receptor signaling pathway, and cytokine-cytokine-receptor interaction. Ten hub genes were recognized by PPI analysis, including CXCL8, CCL2, CXCL2, NFKBIA, CSF2, IL1A, IRF1, VCAM1, NFKB1, and TNFAIP3. In conclusion, our study has indicated the role of IL-1β stimulation in the progression of SF-MSCs inflammation and predicted DEGs and downstream pathways.

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Data availability

The raw data of this study are derived from the GEO data portal (https://www.ncbi.nlm.nih.gov/geo/), which is a publicly available database.

Code availability

The code could be obtained from the corresponding author upon reasonable request.

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Acknowledgements

All authors would like to thank the GEO database, which made the data available.

Funding

This study was financed in part by the National Natural Science Foundation of China, Grant number: 81873720, the Medical Science and Technology Planning Project of Ningbo City, Zhejiang Province, Grant number: 2020Y05, and the Open project of Zhejiang Provincial Key Laboratory of Dental Biomedicine Research, Grant number: 2021M010, 2021M004.

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Author notes

  1. Yiting Lou, Ran Tao and Xiaoyan Weng Co-first authors.

Authors and Affiliations

  1. Department of Stomatology, The First Affiliated Hospital of Ningbo University, 59 Liuting Street, Ningbo, 315000, Zhejiang, China

    Yiting Lou, Xiaoyan Weng, Suzhen Sun, Yong Yang & Binbin Ying

  2. Stomatology Hospital, School of Stomatology, Zhejiang University School of Medicine, Zhejiang Provincial Clinical Research Center for Oral Diseases, Key Laboratory of Oral Biomedical Research of Zhejiang Province, Cancer Center of Zhejiang University, 395 Yan’an Road, Hangzhou, 310000, Zhejiang, China

    Yiting Lou

  3. Laboratory of Clinical Applied Anatomy, Department of Human Anatomy, School of Basic Medical Science, Fujian Medical University, 1 Xuefu North Road, Fuzhou, 350122, China

    Ran Tao

  4. Department of Stomatology, The Third Affiliated Hospital of Wenzhou Medical University (Ruian People’s Hospital), 168 Ruifeng Avenue, Wenzhou, 325016, Zhejiang, China

    Xiaoyan Weng

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  1. Yiting Lou
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Contributions

All authors contributed to the preparation of this manuscript. YL, RT, and XW: drafted the manuscript. YL and SS: performed data analysis. BY and YY: conceived the study. YY and BY: reviewed the manuscript.

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Correspondence to Yong Yang or Binbin Ying.

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Lou, Y., Tao, R., Weng, X. et al. Bioinformatics analysis of synovial fluid-derived mesenchymal stem cells in the temporomandibular joint stimulated with IL-1β. Cytotechnology 75, 325–334 (2023). https://doi.org/10.1007/s10616-023-00579-x

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