1. Introduction
Cervical cancer remains one of the most common malignancies affecting women worldwide, ranking as the fourth leading cause of cancer-related death among females [
1,
2]. Despite advances in screening and vaccination programs, the incidence and mortality rates of cervical cancer remain high in developing countries [
3]. Although early-stage disease can be effectively managed with surgery or radiochemotherapy, patients with recurrent or metastatic lesions often exhibit poor therapeutic response and unfavorable prognosis [
4,
5]. The limited efficacy of current treatments underscores the urgent need to uncover the molecular mechanisms driving cervical cancer progression and to identify new therapeutic targets [
6,
7]. Epigenetic RNA modifications have emerged as critical regulators of tumor biology [
8,
9]. Among these, 5-methylcytosine (m
5C) methylation, catalyzed by the NSUN family of RNA methyltransferases, has been implicated in various aspects of RNA metabolism, including stability, translation, and export [
10,
11]. Dysregulated m
5C modification contributes to oncogenesis, yet its precise role in cervical cancer remains largely unexplored [
12]. NSUN4, originally characterized as a mitochondrial rRNA methyltransferase, has been increasingly recognized to methylate cytoplasmic mRNA targets, influencing tumor growth and drug resistance [
13,
14,
15]. However, its biological functions and regulatory networks in cervical cancer have not been systematically investigated. Ferroptosis, a recently defined iron-dependent form of regulated cell death driven by lipid peroxidation, has attracted growing attention as a novel vulnerability in cancer therapy [
16,
17]. Unlike apoptosis or necrosis, ferroptosis is determined by the balance between oxidative stress and antioxidant defense systems, primarily governed by the glutathione (GSH)–GPX4 axis [
18]. Mounting evidence indicates that tumor cells often acquire ferroptosis resistance to maintain survival under metabolic stress [
19]. Several oncogenic signaling pathways, including PI3K/Akt, have been shown to protect cells from ferroptosis by upregulating antioxidant capacity and lipid remodeling [
20]. However, how epitranscriptomic regulation via m
5C methylation affects ferroptosis in cervical cancer is still poorly understood. In this study, we identified NSUN4 as a novel ferroptosis suppressor and oncogenic driver in cervical cancer. Transcriptomic and functional analyses demonstrated that NSUN4 expression is markedly elevated in tumor tissues and correlates with poor prognosis. Mechanistically, NSUN4 directly binds to and stabilizes C-MYC mRNA through m
5C modification, thereby activating the PI3K/Akt signaling pathway and enhancing cellular antioxidant capacity to suppress ferroptosis. Our findings reveal a previously unrecognized NSUN4–C-MYC–PI3K/Akt axis that links RNA methylation to ferroptosis regulation and tumor progression, providing new insights into the molecular pathogenesis of cervical cancer and potential strategies for targeted therapy.
2. Materials and Methods
2.1. Data Collection and Bioinformatics Analysis
RNA-sequencing data and corresponding clinical information for cervical squamous cell carcinoma and endocervical adenocarcinoma (TCGA-CESC) were retrieved from The Cancer Genome Atlas (TCGA,
https://portal.gdc.cancer.gov/, accessed on 1 January 2025). A total of 305 tumor samples and 3 normal samples were included in the differential expression analysis. Differentially expressed genes were identified using the “limma” package in R (v4.2.2) with an adjusted
p < 0.05 and |log
2FC| > 1 as cutoff values. The prognostic value of NSUN4 was assessed via the GEPIA web server (
http://gepia.cancer-pku.cn/). Functional annotation, including Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), and Gene Set Enrichment Analysis (GSEA), was carried out using the “clusterProfiler” package. Enrichment terms were considered significant at an adjusted
p < 0.05.
2.2. Clinical Specimens
Paired cervical cancer and adjacent noncancerous tissues were collected from patients undergoing primary surgery at Peking Union Medical College Hospital (PUMCH) between April and December 2025. None of the enrolled patients had received chemotherapy or radiotherapy before operation. Adjacent noncancerous tissues were obtained at least 3 cm away from the tumor margin and were confirmed to be free of tumor cells by histopathological examination. All samples were confirmed by histopathology, snap-frozen in liquid nitrogen, and stored at −80 °C. Written informed consent was obtained from each participant, and the study protocol was approved by the PUMCH Ethics Committee.
2.3. Cell Culture and Transfection
Human cervical cancer cell lines (HeLa and SiHa) were purchased from the Cell Bank of the Chinese Academy of Sciences (Shanghai, China). Cells were cultured in DMEM (Gibco, Grand Island, NY, USA) supplemented with 10% fetal bovine serum and 1% penicillin–streptomycin under 37 °C and 5% CO2.
NSUN4 overexpression plasmids and small interfering RNAs (siRNAs) were synthesized by GenePharma (Shanghai, China). Transfections were performed using Lipofectamine 2000 (Invitrogen, Carlsbad, CA, USA) according to the manufacturer’s protocol. Transfection efficiency was verified 48 h later by qRT-PCR and Western blot. Pre-packaged lentiviral particles expressing shRNA targeting NSUN4 (sh-NSUN4) and a negative control (sh-NC) were purchased from GenePharma (Shanghai, China). HeLa cells were infected with the lentivirus at a multiplicity of infection (MOI) of 5 in the presence of 8 µg/mL polybrene. After 48 h of infection, cells were cultured in a medium containing 2 µg/mL puromycin for 2 weeks to obtain stable clones.
2.4. Quantitative Real-Time PCR (qRT-PCR)
Total RNA was isolated using TRIzol reagent (Thermo Fisher Scientific, Waltham, MA, USA). All RNA samples were further treated prior to reverse transcription with the gDNA Eraser reaction included in the PrimeScript™ RT Reagent Kit with gDNA Eraser (Perfect Real Time) (Takara, Kusatsu, Shiga, Japan) to eliminate residual genomic DNA contamination. According to the manufacturer’s instructions, genomic DNA elimination was first performed in a 10 μL reaction containing 2.0 μL 5× gDNA Eraser Buffer, 1.0 μL gDNA Eraser, 1000 ng total RNA, and RNase-free dH2O to the final volume. The reaction was incubated at 42 °C for 2 min and then placed on ice. Reverse transcription was subsequently performed in a total volume of 20 μL by adding 10.0 μL of the genomic DNA elimination reaction mixture to 4.0 μL 5× PrimeScript Buffer 2 (for Real Time), 1.0 μL PrimeScript RT Enzyme Mix I, 1.0 μL RT Primer Mix, and 4.0 μL RNase-free dH2O. The reverse transcription program consisted of 37 °C for 15 min, followed by 85 °C for 5 s, and then held at 4 °C. The reverse transcription program was 37 °C for 15 min, followed by 85 °C for 5 s, and then held at 4 °C. The resulting cDNA was diluted 5- to 10-fold before qRT-PCR. qRT-PCR was performed using Power SYBR Green Master Mix (Applied Biosystems, Foster City, CA, USA) on a QuantStudio 1 Real-Time PCR System. Each reaction was carried out in a total volume of 10 μL, containing 5.0 μL 2× Power SYBR Green Master Mix, 0.2–0.4 μL each of forward and reverse primers (10 μM), 1.0–2.0 μL diluted cDNA template, and nuclease-free water to the final volume. The amplification program consisted of an initial denaturation at 95 °C for 10 min, followed by 40 cycles of 95 °C for 15 s and 60 °C for 1 min. Melting curve analysis was performed after amplification to verify product specificity. ACTB was used as the endogenous control. Relative expression levels were calculated using the 2−ΔΔCt method. Each sample was analyzed in triplicate. No-template controls (NTC), no-reverse-transcription controls (No-RT), and positive controls were included in each run. Only reactions showing a single specific melting peak were considered valid for further analysis.
2.5. Western Blot Analysis
Cells and tissues were lysed in RIPA buffer containing protease and phosphatase inhibitors (Beyotime, Shanghai, China). An amount of 15 μg of total protein per sample was separated by SDS-PAGE and transferred onto PVDF membranes (Millipore, Burlington, MA, USA). After blocking with 5% non-fat milk, membranes were incubated overnight at 4 °C with primary antibodies against NSUN4 (Proteintech, Wuhan, China; 29786-1-AP), C-MYC (Proteintech, Wuhan, China; 10828-1-AP), PI3K p85 (Cell Signaling Technology, Danvers, MA, USA; 4257T), phospho-PI3K p85 (Tyr458)/p55 (Tyr199) (Cell Signaling Technology, Danvers, MA, USA; 4228T), Akt (pan) (Cell Signaling Technology, Danvers, MA, USA; 4685T), phospho-Akt (Ser473) (Cell Signaling Technology, Danvers, MA, USA; 4060T), SLC7A11 (Proteintech, Wuhan, China; 26864-1-AP), GPX4 (Proteintech, Wuhan, China; 30388-1-AP), FTH1 (Proteintech, Wuhan, China; 11682-1-AP), Cyclin D1 (Proteintech, Wuhan, China; 26939-1-AP), CDK2 (Proteintech, Wuhan, China; 10122-1-AP), and GAPDH (Proteintech, Wuhan, China; 81640-5-RR). After washing, membranes were probed with HRP-conjugated secondary antibodies (ZSGB-BIO, Beijing, China; ZB-2301) at a dilution of 1:20000. Signals were visualized using enhanced chemiluminescence (ECL; NCM Biotech, Suzhou, China). Densitometric analysis was performed using ImageJ 1.54s software.
2.6. Tissue Microarray (TMA) and Immunohistochemistry (IHC)
A tissue microarray (TMA) containing 30 cervical cancer tissues and 30 adjacent non-cancerous tissues was utilized for this study. For the IHC experiments, the TMA sections were dewaxed, rehydrated, and subjected to antigen retrieval. Subsequently, the sections were incubated with an anti-NSUN4 primary antibody (Proteintech, Wuhan, China; 29786-1-AP) overnight at 4 °C, followed by incubation with the appropriate secondary antibody. Immunoreactivity was visualized using DAB, followed by hematoxylin counterstaining.
The stained TMA sections were quantitatively analyzed using the AI-based Aipathwell® software (version 2.1.1, Servicebio, Wuhan, China). The software automatically identified tissue regions and evaluated staining intensity based on the Hue, Saturation, and Intensity (HSI) color model. Staining intensity was classified into four categories: negative (0), weak positive (1), moderate positive (2), and strong positive (3). The final protein expression of NSUN4 was represented by the Histochemistry score (H-score), ranging from 0 to 300, calculated as follows: H-score = (% of weak intensity cells × 1) + (% of moderate intensity cells × 2) + (% of strong intensity cells × 3).
2.7. Cell Proliferation and Colony Formation Assays
Cell proliferation was assessed using the CCK-8 kit (Dojindo, Mashiki, Kumamoto, Japan). Briefly, 2 × 103 cells per well were seeded in 96-well plates. At indicated time points, 10 µL of CCK-8 reagent was added to each well, and absorbance at 450 nm was measured after 2 h incubation. For colony formation, 500 cells were plated in 6-well plates and cultured for 14 days. Colonies were fixed with 4% paraformaldehyde, stained with 0.1% crystal violet, and counted under a microscope.
2.8. Migration and Invasion Assays
Cell migration and invasion were evaluated using Transwell chambers (Corning, Corning, NY, USA). For invasion assays, the upper chambers were pre-coated with Matrigel (BD Biosciences, San Jose, CA, USA). Cells (5 × 104) in serum-free medium were seeded into the upper chamber, and medium containing 10% FBS was added to the lower chamber as chemoattractant. After 24 h (migration) or 48 h (invasion), non-migrated cells were removed, and migrated cells were fixed, stained, and counted in five random fields per well under 200× magnification.
2.9. Generation and Treatment of Cervical Cancer Xenografts in Mice
Female BALB/c nude mice (6 weeks old) were randomly assigned to two groups (n = 6 per group). HeLa cells (5 × 106) stably expressing sh-NSUN4 or sh-NC were subcutaneously injected into the right flank. Tumor volume was monitored every 3 days using the following formula: Volume = 0.5 × Length × Width2 (mm3). Mice were sacrificed 22 days post-injection, and tumors were harvested for weighing. The animal study protocol was reviewed and approved by the Animal Ethical and Welfare Committee (AEWC) of Beijing Keweite Animal Technology Co., Ltd. (Approval No. KWT-2025-10-12-01).
2.10. Inhibitor Treatment and Ferroptosis-Related Experiments
To assess the involvement of ferroptosis and the PI3K/AKT signaling pathway, cells were treated for 24 h with the apoptosis inhibitor Z-VAD-FMK (MedChemExpress, Monmouth Junction, NJ, USA), the necroptosis inhibitor Nec-1 (MedChemExpress, Monmouth Junction, NJ, USA), the ferroptosis inhibitors Ferrostatin-1 (MedChemExpress, Monmouth Junction, NJ, USA) and Liproxstatin-1 (MedChemExpress, Monmouth Junction, NJ, USA), or 3-Methyladenine (MedChemExpress, Monmouth Junction, NJ, USA), which was used in this study as an inhibitor of the PI3K pathway. Intracellular glutathione (GSH) levels were measured using a commercial assay kit (Beyotime, Shanghai, China) according to the manufacturer’s instructions. The expression levels of ferroptosis-related proteins, including SLC7A11, GPX4, and FTH1, were analyzed by Western blot as described above.
2.11. RNA Immunoprecipitation (RIP) and m5C-RIP Assays
RIP and m5C-RIP assays were performed using the Magna RIP RNA-Binding Protein Immunoprecipitation Kit (Millipore, Burlington, MA, USA). Briefly, cell lysates were incubated with magnetic beads conjugated with anti-NSUN4 (Proteintech, Wuhan, China) or anti-m5C antibodies overnight at 4 °C. After RNA purification, enrichment of C-MYC mRNA was detected by qRT-PCR. Normal IgG (Cell Signaling Technology, Danvers, MA, USA) served as the negative control.
2.12. RNA Stability and Dual-Luciferase Reporter Assays
For RNA stability analysis, transcription was blocked with actinomycin D (5 µg/mL), and cells were collected at 0, 2, 4, 6, and 8 h after treatment for RNA extraction. C-MYC mRNA half-life was determined by qRT-PCR. For luciferase reporter assays, wild-type or m5C-site-mutated fragments of the C-MYC 3′-UTR were cloned into the pGL4.10 vector (Promega, Madison, WI, USA). HEK-293T cells were co-transfected with the reporter construct and NSUN4 overexpression or control plasmids. After 48 h, luciferase activity was measured using the Dual-Luciferase Reporter Assay System (Promega, Madison, WI, USA).
2.13. Statistical Analysis
All experiments were repeated at least three times, and data are presented as the mean ± SD. Statistical analyses were performed using GraphPad Prism 9.0 and R software (version 4.2.2). Student’s t-test was used for comparisons between two groups, while one-way ANOVA was used for comparisons among multiple groups. Paired tissue comparisons were analyzed using paired Student’s t-test. Progression-free survival was analyzed using the Kaplan–Meier method and compared using the log-rank test. Tumor growth curves were analyzed using two-way ANOVA. A p value < 0.05 was considered statistically significant.
4. Discussion
In this study, we identified NSUN4 as a novel oncogenic regulator that promotes cervical cancer progression by suppressing ferroptosis through the C-MYC/PI3K/Akt signaling axis. Our results demonstrate that NSUN4 is significantly upregulated in cervical cancer tissues, correlates with unfavorable prognosis, and enhances tumor cell proliferation, migration, and invasion. Mechanistically, NSUN4 stabilizes C-MYC mRNA via m5C methylation, thereby activating the PI3K/Akt pathway and increasing antioxidant capacity, which in turn inhibits ferroptosis and supports malignant growth. These findings provide new insights into the interplay between RNA methylation, oncogenic signaling, and regulated cell death in cervical cancer.
Ferroptosis represents a distinct form of iron-dependent cell death characterized by lipid peroxidation and disruption of redox homeostasis [
18]. Mounting evidence suggests that evasion of ferroptosis is a critical feature of tumor aggressiveness and therapeutic resistance [
21]. Our study extends this concept by identifying NSUN4 as a ferroptosis suppressor in cervical cancer. NSUN4 overexpression elevated intracellular GSH levels and increased expression of ferroptosis defense proteins (GPX4, SLC7A11, and FTH1), while its depletion led to ferroptotic vulnerability that was rescued by classical ferroptosis inhibitors. These observations indicate that NSUN4 protects tumor cells from oxidative stress-induced death, conferring a survival advantage under metabolic stress.
The mechanistic link between NSUN4 and ferroptosis appears to be mediated by PI3K/Akt signaling, a well-known pathway involved in cell survival and redox regulation [
22]. Activation of PI3K/Akt has been reported to inhibit ferroptosis by maintaining GSH biosynthesis and reducing lipid peroxidation [
23,
24]. Consistent with these reports, our data show that NSUN4 overexpression enhances PI3K/Akt activation, whereas pharmacologic blockade of PI3K/Akt signaling abolishes the anti-ferroptotic and pro-proliferative effects of NSUN4. This suggests that PI3K/Akt serves as an essential downstream effector of NSUN4, linking RNA methylation to metabolic adaptation and cell fate control.
Importantly, we uncovered C-MYC as a direct downstream target of NSUN4. C-MYC is a master transcriptional regulator of cellular growth, metabolism, and survival, and its dysregulation is a hallmark of numerous cancers [
25]. Our RIP and m
5C-RIP assays revealed that NSUN4 directly binds to C-MYC transcripts and modifies them via m
5C methylation, leading to enhanced mRNA stability. This modification prolongs the half-life of C-MYC mRNA and sustains its expression, which subsequently activates PI3K/Akt signaling and suppresses ferroptosis. This mechanism establishes a novel epitranscriptomic–oncogenic axis wherein NSUN4-mediated m
5C methylation of C-MYC reinforces a feedback loop promoting tumor survival. Similar regulatory paradigms have been observed in other m
5C writers, such as NSUN2, which stabilize oncogenic transcripts to promote tumor progression [
26,
27,
28]. Our findings extend this concept to NSUN4, highlighting its pivotal role in linking RNA methylation to ferroptosis resistance.
From a translational standpoint, the identification of the NSUN4–C-MYC–PI3K/Akt axis opens new avenues for therapeutic intervention. Targeting ferroptosis resistance has recently emerged as a promising strategy in cancer therapy [
19], and our study suggests that inhibiting NSUN4 or disrupting its downstream signaling could restore ferroptotic sensitivity in cervical cancer cells. Furthermore, because NSUN4 expression correlates with poor prognosis, it may serve as a prognostic biomarker or predictive indicator of ferroptosis-targeted therapeutic response. Combining NSUN4 inhibition with ferroptosis inducers or PI3K/Akt pathway inhibitors may therefore provide synergistic benefits in overcoming resistance to conventional treatments.
Nevertheless, several limitations of this study should be acknowledged. First, while our in vitro data demonstrate that NSUN4 regulates ferroptosis and tumor growth, in vivo validation using xenograft or orthotopic models is required to confirm its role in tumor progression and treatment response. Second, the precise structural basis of NSUN4 recognition and methylation of C-MYC transcripts remains to be elucidated. Future studies integrating CLIP-seq and m
5C-seq analyses, methodologies that have successfully mapped the target networks of other epitranscriptomic regulators [
29], could provide genome-wide mapping of NSUN4 binding sites and help identify additional downstream targets. Lastly, given that NSUN4 is also localized in mitochondria, it would be of interest to explore whether its mitochondrial functions contribute to metabolic reprogramming and ferroptosis regulation in cancer cells, as mitochondrial metabolism is increasingly recognized as a crucial driver of ferroptotic cell death [
30].
In summary, our study reveals that NSUN4 acts as an m5C methyltransferase that stabilizes C-MYC mRNA, activates PI3K/Akt signaling, and suppresses ferroptosis, thereby promoting cervical cancer progression. These findings define a previously unrecognized NSUN4–C-MYC–PI3K/Akt–ferroptosis signaling axis, advancing our understanding of RNA methylation-mediated ferroptosis resistance and offering new therapeutic strategies for cervical cancer.