NCAPG promotes the proliferation of hepatocellular carcinoma through the CKII-dependent regulation of PTEN

A total of 85 hepatocellular carcinoma tissue specimens were collected between 2019 and 2021 for this study. Each sample was taken after liver resection without treatment prior to surgery. The liver cancer tissues and adjacent tissues of the specimens were collected and immediately placed in liquid nitrogen for preservation or stored at − 80 ℃ for subsequent use. This study was approved by the Ethical Review Committee of the Second Affiliated Hospital of Nanchang University. The whole experimental process was carried out in strict accordance with the ethical standards of the committees responsible for human experiments (institutional and national) and the Helsinki Declaration from 1975. Written informed consent was obtained from each patient before enrollment.

For the in vivo proliferation test, 1 × 10⁷ cells in 100 µL of PBS were injected subcutaneously into female BALB/c-nu/nu mice (6–8 weeks old; n = 5 per group) (Hunan SJA Laboratory Animal Co., Ltd., Hunan, China). After 6 weeks, the mice were sacrificed under anesthesia, the tumor mass was removed, and the volume of the tumor mass was measured. In addition, HE was used to verify that the mass was liver cancer, and immunohistochemistry was used to compare the differences in NCAPG expression and proliferation-related protein expression among groups. All animal experiments were approved by the Animal Experiment Ethics Committee of the Laboratory Animal Science Center of Nanchang University and were carried out in accordance with the guidelines of the British Animal (Scientific Procedure) Act of 1986 and the European Union Directive 2010/63/EU.

In this study, two HCC cell lines (MHCC97H and HCCLM3) were used, both of which were purchased from Zhejiang Meisen Cell Technology Co., Ltd. (Pan'an, Zhejiang, China). Complete medium containing 10% FBS (Biological Industries, Beit-Haemek, Israel), 100 µg/mL streptomycin and 100 U/mL penicillin in high-sugar DMEM (Solarbio, Beijing, China) was prepared as a suitable medium for all cell lines in this study. The cells were cultured in a humidified incubator with 5% CO₂ at 37 °C.

RNA was extracted from HCCLM3 cells either overexpressing NCAPG or with NCAPG knockdown for RNA-Seq analysis. Strict quality control was performed on these RNA samples as follows: analysis of RNA integrity and DNA contamination (by agarose gel electrophoresis), detection of RNA purity (with a NanoPhotometer ^® spectrophotometer) and accurate detection of RNA integrity (with an Agilent 2100 bioanalyzer). After quality control, we obtained mRNA from the RNA, randomly interrupted the obtained mRNA with divalent cations in NEB fragmentation buffer, and built a library according to the NEB normal library building method or the chain-specific library building method. After the library was constructed, a Qubit ^®2.0 fluorometer (Life Technologies) was used for preliminary quantification. The library was diluted to 1.5 ng/ul and then an RNA Nano 6000 Assay Kit from the Bioanalyzer 2100 system (Agilent Technologies, CA, USA) was used to detect the insert size of the library. After the insert size met the expectations, qRT-PCR was performed to measure the effective concentration of the library. Accurate quantification (the effective concentration of the library was greater than 2 nM) was performed to ensure the quality of the library. After the library was qualified, the different libraries were pooled according to their effective concentrations and target off-machine data volume for Illumina ^® sequencing and subsequent data analysis.

Proteomics analysis generally consists of the following four steps: sample treatment, in-gel digestion, IP-MS analysis, and data analysis. First, the strips were cut into 0.5–1 mm³ cubes, and incubated with decolorizing solution (50% acetonitrile in 50 mM triethylammonium bicarbonate) until decolorization was complete. Acetonitrile was added for dehydration and the samples were allowed to air dry naturally. Second, the gel pieces were reswollen on ice following the dropwise addition of 10–20 µL of TEAB containing 10 ng/µL trypsin (Promega), and the proteins were digested overnight at 37 °C. After digestion, the residual liquid was collected, and the remaining peptides were extracted into 100 µL of 0.1% formic acid (FA). After combining the two portions, the peptides were desalted with a C18 cartridge and dried by vacuum centrifugation. Third, mobile phases A (water with 0.1% formic acid) and B (80% acetonitrile, 0.1% formic acid) were prepared. Then, 10 µL of mobile phase A was used to dissolve the lyophilized powder followed by centrifugation at 12,000 rpm at room temperature for 5 min. The supernatant (1 µg) was injected for liquid quality testing. A q-Exactive™ HFX mass spectrometer was used for primary mass spectrometry, and the top 40 parent ions from the full scan were selected for fragmented by the high-energy impact pyrolysis (HCD) method for secondary mass spectrometry measurements to generate the original mass spectrometry detection data. Finally, data analysis was performed.

Fluorescence in situ hybridization (FISH) is a cytogenetic technique. In this technology, fluorescence probes are combined with chromosomes by an in situ hybridization method that replaces isotope markers with fluorescence markers. Qualitative or quantitative analysis of target genes by binding site and number can be carried out with FISH. The wax blocks were dewaxed, incubated with protease K solution at 37 ℃ for 20 min and then dehydrated with a gradient alcohol series. Each slice was incubated at 78 ℃ for 8 min in denaturation solution. Then, the cells were immediately incubated at − 20 ℃ for precooling in a gradient of alcohol solutions for 2 min. Next, the slices were placed across from each other in a large wet box. Ten microliters of probe was dropped onto each section which was then covered with cover glass. The wet box was covered and the sections were incubated at 37 ℃ for 12–16 h. After hybridization, the sections were washed with a water solution preheated at 43 ℃ for 15 min. Subsequently, each slice was incubated with 30–60 µl of FITC ovalbumin at room temperature for 20 min (repeated three times). Finally, each slice was incubated with 10–20 µl of DAPI at room temperature for 2–5 min. The cells were observed under a fluorescence microscope as soon as possible after staining.

Briefly, a paraffin-embedded sample was sliced on a glass slide into 4 µm sections. After the slices were deparaffinized, hydrated, and incubated with 0.3% hydrogen peroxide for 15 min to block endogenous peroxidase, they were put into sodium citrate buffer (10 mmol/L, pH 6.0) for microwave heating at 10 ℃ for 10 min for antigen retrieval. Next, goat serum was used for blocking. Then, the sections were placed into a prepared anti-NCAPG rabbit monoclonal antibody solution (1:200; 24,563-1-AP, Proteintech, Wuhan, Hubei, China) and incubated overnight at 4 ℃. The next day, the cells were washed with PBS 3 times for 5 min each time. Then, the sections were placed into a secondary biotinylated goat anti-mouse IgG solution and incubated at 37 ℃ for 30 min. The sections were stained with diaminobenzidine and hematoxylin and then sealed with neutral resin. The staining intensity and percent positive cells were scored blindly, randomly and semiquantitatively. The overall staining index was calculated by multiplying the grade and the score to reach a value between 0 and 9, which was finally designated as NCAPG non-overexpression (0–1) or NCAPG overexpression (2–9).

The NCAPG overexpression plasmid (pcDNA3.1( +)-NCAPG) and corresponding negative control vector (pcDNA3.1( +)-NC), NCAPG knockdown plasmid (shNCAPG) and control (shNC), and CKII overexpression (pcDNA3.1( +)-CKII) and knockdown plasmids (shCKII) were ordered from GeneChem (Shanghai, China). MK2206 and TBB were purchased from MedChemExpress (Monmouth Junction, NJ, USA). In general, the final concentrations of MK2206 and TBB were 25 µM and 10 µM respectively. The cells were treated with drugs for 24 h before proliferation-related tests or western blot analysis. The transfection reagent used for transient transfer was Lipofectamine 3000 (Invitrogen, Thermo Fisher Scientific, Inc., USA). For stable transfer, GeneChem (Shanghai, China) was used.

Western blotting is a standard method to detect the total protein content of a sample. Here, the tissues or cells to be tested were lysed with RIPA buffer to generate a protein sample. Protein samples were separated on 10% SDS and transferred to polyvinylidene fluoride (PVDF) membranes. After the membranes were incubated in 5% skim milk for 1 h, the primary antibody was added for incubation overnight at 4 °C. Finally, the membranes were incubated with the secondary antibody for 1 h at room temperature and washed 2–3 times with TBST. Subsequently, a ChemiDoc XRS System (Bio–Rad) was used to capture images, and Quantity One software (Bio–Rad) was used to quantify the band densities. Primary antibodies against NCAPG (ab226805), PCNA (ab29), and CKII (ab 70,774) were purchased from Abcam (Cambridge, UK); those for AKT (9272S), p-AKT (9271S), PTEN (9552S), and p-PTEN (9551S) were purchased from Cell Signaling Technology; and the GAPDH antibody (60,004-1-lg) was purchased from Proteintech (Wuhan, China).

Quantitative real-time polymerase chain reaction was performed as described in a previous experiment [24]. The results of the analysis were the expression of each gene relative to the expression of a housekeeping gene. In in vitro studies, we used the 2^{−Δ Δ CT} method for calculations, and in tissues, we used 2^−ΔCT for the calculations. The primers used in the experiment were obtained from Shanghai Generay Biotech Co., Ltd. and are as follows: NCAPG, forward: 5ʹ-TCAAGGCTGGTTACGGTTCT-3ʹ, reverse: 5ʹ -GTCCCACCAGTTCACTGAGA-3ʹ; GAPDH, forward: 5ʹ-ACCCAGAAGACTGTGGATGG-3ʹ, reverse: 5ʹ-TCAGCTCAGGGATGACCTTG-3ʹ.

Co-IP was used to assess whether two proteins interacted. According to the manufacturer’s instructions, we used protein A/G PLUS-Agarose, purchased from Santa Cruz Biotechnology, to generate two sets of protein samples, the negative control group (IgG group) and the experimental group. The protein samples were separated by SDS–PAGE and tested by immunoblotting. The following antibodies were required: IgG (ab172730), purchased from Abcam (Cambridge, UK); and PTEN (22,034-1-AP), NCAPG (24,563-1-AP), and CKII (10,992-1-AP) from Proteintech (Wuhan, China).

The 5-ethynyl-2ʹ-deoxyuridine (EdU) proliferation test is suitable to measure cell proliferation. We followed the manufacturer’s instructions and prepared a 50 µM EdU (RiboBio Biotechnology, Guangzhou, China) solution. One hundred microliters of this prepared liquid was added to each well of a plate, and the plate was incubated at room temperature for 2 h. Then, the cells were fixed with 4% polyoxymethylene for 30 min at room temperature. Subsequently, the cells were incubated with Apollo staining solution and Hoechst 33,342 for 30 min and then washed 2–3 times with PBS for 5 min each time. Finally, an Olympus fluorescence microscope (Tokyo, Japan) was used to observe five randomly selected fields of view and analyze the proliferation rate. After staining, the nuclei appear blue due to Hoechst 33,342, proliferating cells appear red from Apollo staining with EdU; the blue and red stained cells were superimposed. ImageJ was used to count the total number of cells and the number of proliferating cells.

A Cell Counting Kit-8 (CCK-8) assay was also used to measure cell proliferation. HCC cells (5000 cells/well) were seeded into a 96-well plate and cultured at 37 °C with 5% CO₂. After culturing for 0, 24, 48, and 72 h, 10 µL of CCK-8 reagent (CCK-8; Dojindo Laboratories, Kumamoto, Japan) was added to each well followed by incubation at 37 °C with 5% CO₂ for 2 h. A microplate reader (Bio–Rad, Berkeley, CA, USA) was used to measure the absorbance at 450 nm.

Plate cloning experiments were also used to measure cell proliferation. Hepatoma cells were seeded into a six-well plate at a density of 500 cells/well and cultured at 37 °C with 5% CO2. After 14 days, when cell aggregation was clearly visible to the naked eye, the cells were washed 2–3 times with PBS. Then, 1 mL of crystal violet staining solution was added to each well and stained for 1 h at room temperature. The staining solution was rinsed away before observation.

Oncomine (http://​www.​oncomine.​com) is the world's largest cancer gene chip database and integrated data mining platform, which aims to mine cancer gene information [25]. Through Oncomine, differential expression analysis and coexpression analysis can be carried out to identify differentially expressed genes in certain cancers, identify target genes and determine the direction of research. We compared the mRNA expression of NCAPG in liver cancer tissue and normal liver tissue in the liver cancer dataset. Three datasets were included in our study: Wurmbach et al. [26] and Roessler et al. (including the Roessler Liver 1 and Roessler Liver 2 datasets) [27]. We used an unpaired T test to analyze the difference in NCAPG expression between HCC and normal liver tissues. We assessed the relationship between NCAPG expression and overall survival according to the Guichard Liver dataset [28] by the log-rank (Mantel–Cox) test.

All data were analyzed using SPSS 22.0. All experimental data are expressed as the mean ± standard deviation and were analyzed using Student’s t test and one-way analysis of variance. P < 0.05 indicates that there was a significant difference between groups.

To evaluate the relationship between NCAPG and HCC, we first analysed three microarray datasets from the Oncomine database. The results showed that NCAPG was significantly overexpressed in most liver cancer tissues compared with the adjacent nontumor control tissues (Fig. 1A). TTo determine whether NCAPG is overexpressed in HCC, we examined NCAPG expression in 85 pairs of primary liver cancer tissues and the corresponding normal adjacent tissues. The Western blot results showed that compared with the adjacent nontumor tissues, the primary liver cancer tissues exhibited significant overexpression of NCAPG (Fig. 1B). The results obtained by qRT–PCR were consistent with these findings (Fig. 1C). In addition, IHC analysis revealed the same results; that is, NCAPG is highly expressed in liver cancer tissues (Fig. 1E).

To evaluate the relationship between NCAPG expression and the overall survival rate in patients with liver cancer, we analysed a microarray dataset from the Oncomine database, and the results showed that NCAPG expression was associated with a low overall survival rate (Fig. 1D), which was in line with our previous findings [29].

In previous studies, the expression of NCAPG in various liver cancer cells was screened. Therefore, MHCC97H and HCCLM3 cells were selected for this experiment due to their moderate expression of NCAPG [30]. To explore the role of NCAPG in the proliferation of liver cancer cells, we first stably transfected an NCAPG overexpression plasmid (pcDNA3.1( +)-NCAPG) into MHCC97H and HCCLM3 cells. The Western blot results showed that the expression of PCNA, a proliferation-related protein, in MHCC97H and HCCLM3 cells overexpressing NCAPG was higher than that in the corresponding control cells (Fig. 2A). Furthermore, we verified that the cell proliferation ability was significantly enhanced in the NCAPG overexpression group through EdU incorporation and CCK-8 assays (Fig. 2B and C). In addition, in the plate colony formation assay, we observed that cells with stable upregulation of NCAPG formed more cell clusters than control cells (Fig. 2D). Second, a NCAPG knockdown plasmid (shNCAPG) was transfected into MHCC97H and HCCLM3 cells, and the opposite effects were observed. In cells with NCAPG downregulation, the expression of PCNA was lower (Fig. 2E), the proliferation ability was weaker (Fig. 2F and G), and the number of cell clusters formed due to cell growth was lower (Fig. 2H).

Then, we studied the effects of modulating the expression of NCAPG on cell proliferation in vivo. Twenty mice were randomly divided into 4 groups (NCAPG overexpression and control; NCAPG knockdown and control), with 5 mice in each group. The results showed that the average tumour volumes in mice injected with cells overexpressing NCAPG were significantly greater than those in control mice (Fig. 3A). To further confirm the effects of NCAPG on the proliferation of liver cancer cells in vivo, we removed the tumours for HE staining and IHC analysis. The results showed that the masses consisted of only tumour tissue and that the tumours that were removed from mice injected with NCAPG-overexpressing cells had higher expression levels of NCAPG, PCNA, and Ki-67 than those removed from mice in the control group (Fig. 3C). Comparing the group with NCAPG downregulation and its corresponding control, the results were reversed. In mice injected with NCAPG knockdown cells, the tumours weighed less (Fig. 3B) and the expression levels of NCAPG, PCNA, and Ki-67 were lower than those in the corresponding control mice (Fig. 3C, D and E). Moreover, the FISH assay produced the same results (Fig. 3F). In summary, the above data indicated that NCAPG can promote the proliferation of liver cancer cells in vivo.

We identified that NCAPG has an important role in the proliferation of HCC. However, its mechanism of action has not yet been elucidated. To determine the mechanisms involved, we performed proteomic analysis and transcriptome sequencing.

Enrichment analysis with DisGeNET showed that the role of NCAPG in liver cancer is more important than that in other diseases (Fig. 4B). This result was consistent with the experimental results mentioned above. The transcriptome sequencing results revealed that 3549 genes were upregulated and 3114 genes were downregulated when NCAPG was upregulated (Fig. 4D). When NCAPG was downregulated, 451 genes were upregulated, and 470 genes were downregulated (Fig. 4D). In summary, there were changes in the expression levels of 6663 genes when NCAPG was upregulated and of 921 genes when NCAPG was downregulated (Fig. 4A). Among the differentially expressed genes, the expression of 618 changed regardless of whether NCAPG was upregulated or downregulated (Fig. 4E). The results of the differential gene expression analysis of liver cancer cells with NCAPG downregulation indicated that the expression of PTEN was significantly increased compared with that in the control cells (P < 0.001). In addition, the KEGG pathway enrichment analysis results suggested that there was a significant correlation between NCAPG and the PI3K-AKT pathway (Fig. 4C).

From the transcriptome sequencing results described above, it can be inferred that NCAPG has an impact on PTEN transcription. To reveal the in-depth relationship between NCAPG and PTEN, we conducted proteomic analysis on proteins that could interact with NCAPG. We identified hundreds of proteins that can interact with NCAPG. Among these proteins, CKII was most closely related to the PI3K-AKT signalling pathway and PTEN (Fig. 4F). Therefore, we hypothesized that NCAPG may affect the transcription and expression of PTEN through CKII.

Our transcriptome sequencing results indicated that the PI3K-AKT pathway plays an important role in the mechanism by which NCAPG enhances the proliferation of hepatocellular carcinoma (Fig. 4C). The transcriptome sequencing results showed that NCAPG expression was negatively correlated with PTEN expression and that NCAPG promoted the phosphorylation of proteins in the PI3K-AKT pathway. To clarify the analysis results, Western blotting was used to measure the levels of AKT, p-AKT, PTEN and p-PTEN in cells with NCAPG upregulation. The results showed that in cells overexpressing NCAPG, the levels of p-AKT and p-PTEN were incereased, while PTEN and AKT were expressed at low levels (Fig. 5A). In contrast, in NCAPG-silenced cells, the levels of p-AKT and p-PTEN were decreased, while those of PTEN and AKT were increased (Fig. 5B).

To reveal whether NCAPG affects the proliferation of HCC through PTEN and the PI3K-AKT pathway, we investigated whether the PI3K-AKT pathway inhibitor MK2206 could attenuate the proliferation of liver cancer. Cells transfected with pcDNA3.1( +)-NCAPG and treated with 25 μM MK2206 for 24 h were subjected to Western blot analysis. Interestingly, the Western blot results showed that MK2206 reduced the levels of p-AKT and p-PTEN in NCAPG-overexpressing cells (Fig. 5C). In addition, the EdU incorporation and CCK-8 assays showed that MK2206 attenuated cell proliferation induced by NCAPG overexpression (Fig. 5D and E). In summary, these data indicated that the effects of NCAPG on the proliferation of liver cancer cells are achieved through the PI3K-AKT signalling pathway and are closely related to PTEN.

We first found through Co-IP analysis that NCAPG and PTEN do not bind directly (Fig. 6A); that is, NCAPG cannot directly affect the transcription or phosphorylation of PTEN. Subsequently, we identified the key protein CKII from the proteomic analysis results and speculated that CKII is involved in the effects of NCAPG on PTEN (Fig. 4F).

Then, we confirmed the interaction between the NCAPG and CKII proteins by Co-IP (Fig. 6B and C). Cells overexpressing NCAPG and cells with silenced NCAPG were analysed by Western blotting. The results showed that the levels of CKII and p-PTEN were high in cells overexpressing NCAPG (Fig. 6D). Conversely, the levels of CKII and p-PTEN in cells with silenced NCAPG were reduced (Fig. 6D). To further confirm the key role of CKII, we used the CKII inhibitor TBB and cells overexpressing CKII to determine whether CKII plays an important role in the effects of NCAPG on PTEN. Proliferation assays and Western blot analysis were carried out in NCAPG-overexpressing cells after TBB treatment. In addition, the CKII overexpression plasmid was transfected into NCAPG-silenced cells for subsequent proliferation assays and Western blot analysis. The Western blot results showed that when the expression of CKII was inhibited by TBB, the effect of NCAPG overexpression to promote PTEN phosphorylation was reversed (Fig. 6E), while CKII overexpression had the opposite effect in NCAPG-silenced cells (Fig. 6F). In addition, inhibition of CKII expression weakened the increase in the proliferation ability of HCC cells induced by NCAPG overexpression (Fig. 6G–J). In contrast, CKII overexpression reversed the decrease in cell proliferation caused by NCAPG silencing (Figs. 6K–N). These experimental data showed that CKII is indeed the key component linking NCAPG and PTEN (Fig. 7).