
Ubiquitin D promotes the progression of rheumatoid arthritis via activation of the p38 MAPK pathway
- Authors:
- Published online on: January 18, 2023 https://doi.org/10.3892/mmr.2023.12940
- Article Number: 53
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Copyright: © Chen et al. This is an open access article distributed under the terms of Creative Commons Attribution License.
Abstract
Introduction
Rheumatoid arthritis (RA) is a long-term, complex inflammatory relapsing autoimmune disorder in which the immune system mistakenly attacks the joints. RA has a prevalence of ~1% of the global population (1). RA is characterized by inflammation of the synovial joints, which eventually leads to cartilage damage and bone destruction (2). The pathogenesis of RA is not fully known due to the lack of knowledge regarding the etiology of this disease (3). The preliminary event in RA pathogenesis is believed to be the presence of immune complexes in the bloodstream, which is considered the pre-articular phase, during which the generation of autoantibodies against host tissue occurs (4). Notably, certain serological markers can be detected to diagnose disease initiation during this phase, such as citrulline antibodies (5). Subsequently, the transition phase occurs, during which a number of autoantibodies are produced and autoantigens are present in the articular joints. Autoantigens bind to the Fc receptor γ of IgG antibodies to activate the innate immune reaction via sentinel cells (6). Usually, dendritic cells (DCs) are activated as the first line of defense, which bind to autoantigens to induce the proliferation and differentiation of antigen-specific T cells (7,8). Activated DCs increase major histocompatibility complex II co-stimulatory surface molecules CD80/86 to activate the production of cytokines from naive T cells (9). Activated T-helper (Th) cells can activate B cells to produce autoantibodies, such as rheumatoid factor and anti-citrullinated protein antibodies, through plasma cells and can be carried over through different pathways for hyperplastic synovium, cartilage degradation and bone destruction (10–12). Certain molecules, such as microRNA (miR)-24, miR-125A-5p and miR-146a, have been identified as biomarkers for RA that could increase diagnostic accuracy (6,13). Unfortunately, there is currently no effective treatment that can be used to cure RA in the clinic. Medications that are currently used for the treatment of RA also induce prominent side effects alongside their clinical efficacy (14). For example, gastrointestinal adverse reactions such as abdominal pain, nausea, vomiting and diarrhea are common. Furthermore, drug resistance is another serious problem affecting RA treatment (15). Therefore, it is necessary to develop novel drugs or therapeutic strategies for RA.
Ubiquitin D (UBD), also known as FAT10, is a ubiquitin-like protein modifier that is mainly expressed in the tissues and organs of the immune system, including the thymus and lymph nodes (16). UBD expression has been shown to be positively regulated by interferon-γ and TNF-α (17,18). UBD may serve a significant role in immunomodulation, including antigen presentation, immune response and antiviral infection (19). Emerging evidence has confirmed that UBD is involved in a number of regulatory functions, including the cell cycle, apoptosis, autophagy, DNA repair and tumorigenesis (20). High UBD expression has been identified in a variety of tumor tissues, such as liver cancer (21), colorectal cancer (22) and breast cancer (23). Growing evidence has indicated that UBD has a pro-malignant role, due to its overexpression in a broad spectrum of tumor tissues. Notably, forced UBD expression has been reported to be associated with epirubicin resistance and the poor prognosis of triple-negative breast cancer (23). Furthermore, patients with UBD-positive colon cancer have a significantly higher recurrence rate and poorer disease-free survival than those with low UBD expression after radical surgery (24).
Notably, the role of UBD in RA remains to be elucidated. Therefore, the present study aimed to investigate the expression of UBD in RA samples from the Gene Expression Omnibus (GEO) database, and determine the enriched Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways related to the aberrantly expressed UBD. Furthermore, the present study aimed to explore the effects of UBD on the proliferation, apoptosis and inflammatory cytokine production of RA-fibroblast-like synoviocytes (FLS), which have been revealed to play a pathogenic role in RA (25,26), as well as to confirm the underlying mechanism of UBD in RA.
Materials and methods
Identification of DEGs from GEO datasets of RA
To identify differentially expressed genes (DEGs) in RA, the GEO was used to assess RA data. The GSE55457 gene expression profiles were downloaded from the GEO database [https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE55457; GPL96 platform, Affymetrix Human Genome U133A Array] (27). The GSE55457 dataset contains data from 79 samples, including 20 healthy control individuals, 33 patients with RA and 26 patients with osteoarthritis. The LIMMA Bioconductor package (http://www.bioconductor.org/) was used to identify DEGs by comparing the expression values between RA and normal tissue samples. A classical unpaired Student's t-test was used to identify DEGs that were statistically significant (P <0 .05 and |log2FC|≥2). Subsequently, to present significant DEGs, volcano plots were plotted using R software (version 3.4.0; http://www.r-project.org/).
KEGG pathway and gene ontology (GO) analysis of DEGs
In the present study, the clusterProfiler Bioconductor package (https://bioconductor.org/packages/release/bioc/html/clusterProfiler.html) was used to perform the KEGG pathway analysis of the DEGs. The GO enrichment analysis (https://david.ncifcrf.gov/) was conducted via R software using the package ‘GO plot’ to explore the functions of the DEGs. P<0.05 was considered to indicate a statistically significant difference.
Cell culture
Normal human FLSs (cat. no. 408K-05a) were obtained from Cell Applications, Inc. and the MH7A human RA-FLS cell line (cat. no. C0878) was purchased from Shanghai Guandao Biological Engineering Co., Ltd. Normal FLSs and RA-FLSs were incubated in DMEM (cat. no. 12430054) supplemented with 10% fetal bovine serum (FBS; cat. no. 10100147) and 1% penicillin/streptomycin (cat. no. 15070063) (all from Gibco; Thermo Fisher Scientific, Inc.). Normal FLSs and RA-FLSs were grown in 75-cm2 flasks at 37°C in an incubator containing 5% CO2. MAPK inhibitor SB202190 (10 µM; cat. no. HY-10295; MedChemExpress) was used to treat RA-FLSs for 1 h at 37°C based on previous studies (28,29).
Vector construction and lentiviral infection
The UBD overexpression lentiviral vector (GV492) was purchased from Shanghai GeneChem Co., Ltd., and constructed based on the full-length coding protein sequences of human UBD (GenBank accession number NC_000006.12). A 3rd generation vector system was used. Lentiviral vector (5 µg) was transfected into 293T cells (cat. No. CRL-3216; American Type Culture Collection) cultured on six-well plates with Lipofectamine® 3000 (Invitrogen; Thermo Fisher Scientific, Inc.). A total of 30 µg of plasmids were used for lentivirus packaging, and the ratio of lentiviral plasmid: GV492: Lipofectamine® 3000 was 2:1:1. The UBD overexpression lentivirus (Lv-UBD) and blank GV492 plasmid vector (NC) lentivirus was obtained after 293T cells were cultured at 37°C for 4 days. RA-FLSs were then infected with the lentiviral vectors at an MOI of 20 for 6 h followed by replacement with fresh medium. RA-FLSs were grown for 48 h and subsequently treated with puromycin (PURO; 1 µg/ml; InvivoGen) for 72 h to select transfected clones. The infected cells were then collected 96 h after infection to determine the infection efficiency.
Small interfering RNA (siRNA) transfection
UBD siRNA and control siRNA (a non-targeting siRNA-scrambled sequence) were constructed by Guangzhou Anernor Biotechnology Co., Ltd. The siRNA sequences were as follows: UBD siRNA 1#, 5′-ACCCATATGACAGCGTGAAAA-3′; UBD siRNA 2#, 5′-CCCATATGACAGCGTGAAAAA-3′; UBD siRNA 3#, 5′-CAGCGTGAAAAAAATCAAAGA-3′ and control siRNA, 5′-UUCUCCGAACGUGUCACGUTT-3′. SiRNAs (10 µg) were transfected into 5×106 RA-FLSs using Lipofectamine 2000 (Invitrogen; Thermo Fisher Scientific, Inc.) for 24 h at 37°C according to the manufacturer's protocols. The Mrna and protein expression levels of UBD were measured at 48 h post-transfection by reverse transcription-quantitative PCR (RT-qPCR) and western blotting, respectively.
RT-qPCR
RA-FLSs were collected, centrifuged at 1,000 × g for 5 min at 4°C, the supernatant was removed and 1 ml SuPerfecTRI™ Total RNA Isolation Reagent (cat. no. 3101-100; Shanghai Pufei Biotechnology Co., Ltd.) was added to the cell pellet to extract the total RNA. The concentration and quality of RNA were determined using an ND-2000 Spectrophotometer (NanoDrop; Thermo Fisher Scientific, Inc.). The extracted RNA was reverse transcribed into cDNA using the Promega M-MLV kit (cat. No. M1705; Promega Corporation). The samples were incubated for 60 min at 37°C. After heat inactivation of reverse transcriptase (95°C, 2 min), the first-strand cDNA was stored until use at −20°C. Subsequently, qPCR was performed with the KAPA SYBR FAST qPCR kit (Kapa Biosystems; Roche Diagnostics) using a SimpliAmp™ PCR System (Thermo Fisher Scientific, Inc.). The relative Mrna expression levels of each sample were calculated using the 2−ΔΔCq method (30). The primer sequences were as follows: UBD, forward 5′-ATGCTTCCTGCCTCTGTGTG-3′, reverse 5′-TGCCCTTTCTGATGCCGTAA-3′; and GAPDH, forward 5′-CTGACTTCAACAGCGACACC-3′ and reverse 5′-GTGGTCCAGGGGTCTTACTC-3′.
Western blotting
Proteins were extracted from RA-FLSs using ice-cold RIPA lysis buffer (cat. no. P0013B; Beyotime Institute of Biotechnology) and protein concentration was assessed using the BCA method (cat. no. 23225; Thermo Fisher Scientific, Inc.). Proteins (5 µg) were mixed with 2X SDS sample buffer, separated by SDS-PAGE on 12% gels and transferred onto PVDF membranes, which were incubated with 5% non-fat milk for 2 h at room temperature. The membranes were then incubated overnight at 4°C with mouse anti-UBD (1:1,000; cat. no. ab168680; Abcam), rabbit anti-phosphorylated (p)-p38 (1:1,000; cat. no. ab178867; Abcam), rabbit anti-p38 (1:1,000; cat. no. ab170099; Abcam) and mouse anti-GAPDH (1:5,000; cat. no. 60004-1-Ig; ProteinTech Group, Inc.). Horseradish peroxidase-conjugated goat anti-mouse IgG (1:5,000; cat. no. BA1051; Boster Biological Technology) and horseradish peroxidase-conjugated mouse anti-rabbit IgG (1:5,000; cat. no. BM2006; Boster Biological Technology) were used as secondary antibodies to incubate the membranes for 1.5 h at room temperature. Immunoreactive protein bands were detected using the ECL hypersensitive chemiluminescence kit (cat. no. P0018M; Beyotime Institute of Biotechnology) with the Odyssey Scanning System (version 3.0; LI-COR Biosciences). ImageJ (version 1.8.0; National Institutes of Health) was used for semi-quantification.
Cell counting kit 8 (CCK-8) assay
RA-FLSs were seeded at a density of 2,000 cells/well in 96-well plates and were cultured in an incubator at 37°C with 5% CO2 for 5 consecutive days. Subsequently, 10 µl CCK-8 solution (cat. no. 96992; MilliporeSigma) was added to each well and incubated for 3 h at 37°C. The optical density (OD) value at 450 nm was measured using a Spectrafluor microreader plate (Molecular Devices, LLC). These experiments were repeated three times.
ELISA
RA-FLSs were cultured in DMEM containing 10% FBS for 24 h. ELISA was performed in accordance with the instructions of the ELISA kits. In brief, the supernatant was collected after centrifugation at 1,500 g for 20 min at 4°C to detect the levels of IL-2, IL-6, IL-10 and TNF-α. IL-2 (cat. no. EH2IL22), IL-6 (cat. no. EH2IL6), IL-10 (cat. no. EHIL10) and TNF-α (cat. no. BMS223HS) ELISA kits were purchased from Thermo Fisher Scientific, Inc. The calibration curves were plotted and the OD values of samples were calculated from the standard curve for three assays.
EdU incorporation assay
RA-FLS proliferation was evaluated by assessing DNA synthesis using an EdU incorporation assay (Click-iT™ EdU Cell Proliferation Kit for Imaging, Alexa Fluor™ 488 dye; cat. no. C10337; Invitrogen; Thermo Fisher Scientific, Inc.). UBD siRNA- and control siRNA-treated RA-FLSs were incubated with 10 nM EdU for 6 h at 37°C. Subsequently, RA-FLSs were harvested and fixed with fixation buffer for 15 min at room temperature. After washing twice with 2 ml permeabilization/washing buffer, the cells were incubated with Click-iT EdU reaction cocktail for 30 min at room temperature. After washing, the EdU-positive RA-FLSs were detected using a flow cytometer (BD LSR II; BD Biosciences) and the data acquired with BD FACSDiva 8.0.1 software (BD Biosciences).
Apoptosis analysis
The apoptotic RA-FLSs were measured using Annexin V and PI staining (cat. no. V13242; Thermo Fisher Scientific). RA-FLSs were washed twice with ice-cold PBS and centrifuged at 300 × g for 5 min at 4°C. Subsequently, RA-FLSs were resuspended in 195 µl Annexin V-FITC/PI binding buffer. Annexin V-FITC (5 µl) and PI (10 µl) were supplemented following incubation in the dark for 30 min at 4°C. Apoptosis was analyzed using a flow cytometer (BD LSR II). A total of 10,000 events were collected per sample, and data were acquired and processed using CXP analysis software (version 2.0; Beckman Coulter, Inc.). Total apoptosis was considered the sum of early- and late-stage apoptosis.
Statistical analysis
Statistical analysis was performed using GraphPad Prism software (8.0; GraphPad Software, Inc.). Each experiment was repeated three times. Data are presented as the mean ± standard deviation. Unpaired Student's t-test was used for two-group comparisons and one-way ANOVA followed by Tukey's post hoc test was used for multiple comparisons. P<0.05 was considered to indicate a statistically significant difference.
Results
UBD is significantly increased in RA
In the present study, microarray data for RA were retrieved from the GEO. The DEGs between patients with RA and healthy controls were identified from the GSE55457 dataset. A heatmap of the DEGs is shown in Fig. 1A. The results demonstrated that GSN, ZBTB7C, FKBP5, RPS4Y1 and FOSB were significantly decreased, whereas CXCL13, CXCL9, CXCL10 and UBD were significantly increased in patients with RA. UBD mRNA level was further confirmed to be markedly upregulated in patients with RA compared with in the healthy controls (Fig. 1B).
The DEGs were then subjected to KEGG pathway enrichment and GO analysis. The results revealed that the downregulated DEGs were enriched in pathways including ‘transcriptional misregulation in cancer’, ‘TNF signaling pathway’, ‘relaxin signaling pathway’, ‘regulation of lipolysis in adipocytes’, ‘osteoclast differentiation’ and ‘MAPK signaling pathway’, whereas the upregulated DEGs were enriched in pathways including ‘viral protein interaction with cytokine and cytokine receptor’, ‘Toll-like receptor signaling pathway’ and ‘Th17 cell differentiation’ (Fig. 2A). The aforementioned results demonstrated that UBD was overexpressed in RA tissues and might be associated with MAPK pathway. GO enrichment analysis revealed that the upregulated genes were enriched in terms including ‘regulation of leukocyte cell-cell adhesion’, ‘regulation of cell-cell adhesion’ and ‘regulation of T cell activation’, whereas the downregulated genes were enriched in terms including ‘rhythmic process’, ‘response to transforming growth factor beta’ and ‘response to peptide hormone’ (Fig. 2B).
Elevated UBD increases the expression of p-p38
The mRNA expression levels of UBD in normal FLSs and RA-FLSs were measured by qPCR. UBD expression levels were significantly increased in RA-FLSs compared with those in normal FLSs (Fig. 3A). RA-FLSs were subsequently transduced with NC lentivirus or UBD-expressing lentivirus for 96 h, and the overexpression of UBD was confirmed by qPCR and western blot. A significant increase was identified in the mRNA and protein expression levels of UBD in the Lv-UBD group compared with those in the uninfected cells or NC group (Fig. 3B and C). By contrast, the mRNA and protein expression levels of UBD were significantly decreased in the specific siRNA-transfected RA-FLSs compared with in those transfected with the scramble siRNA (Fig. 3D and E). Furthermore, UBD overexpression significantly promoted the protein expression levels of p-p38 (Fig. 3F), whereas siRNA-mediated UBD silencing significantly downregulated p-p38 expression (Fig. 3G). These results suggested that upregulated UBD may activate the p38 MAPK pathway in the progression of RA.
UBD regulates RA-FLS cellular processes via the p38 MAPK pathway
To further assess the relationship between UBD and MAPK pathways, the p38 MAPK inhibitor SB202190 was used to treat RA-FLSs. Overexpression of UBD significantly increased RA-FLSs viability, whereas SB202190 administration suppressed the promoting effect of UBD on RA-FLSs activity (Fig. 4A). In addition, UBD overexpression resulted in a significant increase in the secretion of IL-2, IL-6, IL-10 and TNF-α, whereas the administration of SB202190 blocked the elevated secretion of IL-2, IL-6, IL-10 and TNF-α caused by UBD overexpression (Fig. 4B). In addition, overexpression of UBD enhanced the proliferation of RA-FLSs, whereas SB202190 treatment suppressed the promoting effect of UBD on RA-FLSs proliferation, as confirmed by flow cytometry (Fig. 4C). By contrast, UBD silencing significantly suppressed RA-FLSs proliferation (Fig. 4D). Notably, cell apoptosis was significantly suppressed by UBD overexpression, whereas SB202190 administration alleviated the inhibitory effect of UBD overexpression on cell apoptosis (Fig. 4E). By contrast, UBD silencing significantly promoted RA-FLSs apoptosis (Fig. 4F). These results revealed that UBD increased the viability, the release of proinflammatory factors and the proliferation of RA-FLSs, whereas treatment with the p38 MAPK inhibitor SB202190 exerted the opposite effect on RA-FLSs, thus indicating that UBD regulated the cellular processes of RA-FLSs via the p38 MAPK pathway.
Discussion
Bioinformatics is an interdisciplinary field combining molecular biology and information technology, which is widely used to explore and reveal the molecular mechanism of diseases (31). In the present study, data from patients with RA, which is a type of inflammatory arthritis of unknown etiology, were obtained from the GEO (GSE55457) and were analyzed using bioinformatics tools. A series of DEGs were identified between RA and healthy control samples, among which chemokines related to Th1 cells (CXCL9, CXCL10), and T follicular helper and B cells (CXCL13), were significantly increased in RA tissues, indicating the important roles of these chemokines in the progression of RA, which is in accordance with previous reports (32–34). However, the role of another significantly upregulated gene, UBD, which may have a role in the development of RA remains to be elucidated.
UBD, an 18 kDa protein comprising 165 amino-acid residues, is an immune system protein that is strongly induced by proinflammatory cytokines (17). UBD is the only modifier of all ubiquitin-like modifiers that acts as an autonomous transferable signal for degradation by the 26S proteasome, which can occur independently of ubiquitin (35). While UBD is primarily stimulated by proinflammatory cytokines within the tumor microenvironment, a growing number of studies has confirmed that the pro-malignant ability of UBD itself largely underlies its upregulation in tumor tissues (16,36). Upregulation of UBD has been confirmed in various types of cancer where it promotes cell migration, invasion and metastasis formation (37–39). In addition, the expression of UBD has been reported to be markedly increased during the maturation of DCs and epithelial cells within the medulla of the thymus where it regulates T-cell selection (40). In the present study, UBD was confirmed as one of the most upregulated genes in RA samples from a GEO dataset, indicating that UBD may have an important role in the progression of RA. However, the expression of UBD in RA clinical samples was not pursued further due to the lack of clinical samples.
UBD has been reported to accelerate cell viability and proliferation, and to suppress cell apoptosis (39,41–43). In the present study, the biological function of UBD in RA was further investigated. UBD overexpression significantly increased the viability and proliferation of RA-FLSs, and inhibited their apoptosis. A causal link between inflammation and the development of RA is generally accepted (44). IL-2, IL-6, IL-10 and TNF-α serve important roles in RA pathogenesis, participating in Th1-mediated processes, and causing cartilage and bone destruction (45–48). The present study confirmed that overexpression of UBD significantly induced the secretion of IL-2, IL-6, IL-10 and TNF-α in RA-FLSs. These results suggested that UBD may be related to the progression of RA by regulating proliferation, apoptosis and the secretion of inflammatory factors. Autoantibodies serve essential biological roles in the progression of RA (49). However, the present study mainly demonstrated the function of UBD in RA-FLSs at the cellular level, which is often poorly reflective of the in vivo situation; thus, autoantibody testing was not performed in the current study.
UBD modulates various signaling pathways involved in tumor development, such as NF-κB and Wnt/β-catenin signaling pathways (16,50). Notably, UBD accelerates the progression of oral squamous cell carcinoma via NF-κB signaling (50). Elevated UBD expression has been shown to drive the invasion and metastasis of hepatocellular carcinoma cells by binding to β-catenin to prevent its ubiquitylation and degradation (51). In addition, UBD can directly bind to target genes, including MAD and p53, to promote cell proliferation, metastasis and migration via their regulation (38,39). In the present study, KEGG pathway analysis identified that the DEGs in RA samples were enriched in pathways including ‘TNF signaling pathway’, ‘relaxin signaling pathway’, ‘osteoclast differentiation’ and ‘MAPK signaling pathway’. Furthermore, UBD overexpression significantly promoted the protein expression levels of p-p38, whereas silencing of UBD markedly inhibited p-p38 expression, indicating that UBD may activate the p38 MAPK pathway in the progression of RA. To the best of our knowledge, the relationship between UBD and p38 MAPK has not been previously reported. To further investigate the targeting regulatory relationship between UBD and p38 MAPK, the p38 MAPK inhibitor SB202190 was used to treat RA-FLSs. Notably, the application of SB202190 partially relieved the UBD-dependent enhancing effects on cell viability and proliferation, as well as the inhibitory effect on cell apoptosis. In addition, treatment with SB202190 significantly blocked the enhancing effects of UBD overexpression on the secretion of inflammatory factors. Taken together, these results suggested that UBD may be a crucial pathogenic factor for RA by activating the p38 MAPK pathway, which provides additional opportunities for the intervention of RA.
In conclusion, the expression levels of UBD were significantly increased in RA. Notably, the results revealed the important role of UBD in RA, and also identified the novel mechanism that UBD may regulate the biological and inflammatory processes in RA by targeting p38 MAPK. Collectively, the present study provided novel insights into the pathogenesis of RA and the potential of UBD as a therapeutic target against RA.
Acknowledgements
Not applicable.
Funding
This work was supported by the Scientific Research Project of Guangxi Zhuang Autonomous Region Administration of Traditional Chinese Medicine (grant no. gzzc2019145), and the Scientific Research Project of Guangxi Zhuang Autonomous Region Health Committee (grant no. z20200163).
Availability of data and materials
The datasets used and/or analyzed during the present study are available from the corresponding author on reasonable request.
Authors' contributions
HC and HW designed the study. HC and LT performed all of the experiments, interpreted the data and prepared the manuscript. JL and CP analyzed the data. All authors read and approved the final manuscript. HC and HW confirm the authenticity of all the raw data.
Ethics approval and consent to participate
Approved by the Medical Ethics committee of the Affiliated Hospital of Youjiang Medical University for Nationalities, Baise, Guangxi, approval number YYFY-LL-2022-96.
Patient consent for publication
Not applicable.
Competing interests
The authors declare that they have no competing interests.
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