Data and resources
The Cancer Genome Atlas (TCGA) data repository (https://gdc-portal.nci.nih.gov/) was utilized to access level-three transcriptome RNA sequencing data of patients with PC. In addition, RNA-sequence information from both normal and PC samples was obtained from Datasets GSE62165 and GSE15471 retrieved from the Gene Expression Omnibus (GEO) database (https://www.ncbi.nlm.nih.gov/geo/). The potential prognostic significance of PPP2R2B in PC was investigated using the Gene Expression Profiling Interactive Analysis (GEPIA2) tool (http://gepia.cancer-pku.cn/), a web-based server for customizable and interactive large-scale expression analysis.
Functional enrichment analysis
The deeper exploration of potential functional implications of PPP2R2B associated with PC involved the application of Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways. Moreover, Gene Set Enrichment Analysis (GSEA) was employed to assess the intrinsic molecular mechanisms distinguishing low- and high-risk cohorts.
Patients and samples
Between 2021 and 2022, a total of 60 pairs of tissue samples from PCs and nearby tissues were gathered from individuals who underwent pancreaticoduodenectomy at the First Hospital of Lanzhou University. Prior to participating in the research, all subjects had given their consent after being informed about the study's objectives. Approval for the research was granted by the Ethics Committee at the First Hospital of Lanzhou University (LDYYLL-2024-244).
Cell lines and cell culture
Human four PC cell lines including PANC-1, BxPC-3, SW1990, AsPC-1, and the HPDE6-C7 normal human pancreatic duct epithelial cell line were acquired from the BNCC and the Shanghai Branch of the Chinese Academy of Sciences. In order to ensure cell survival, all cell lines were grown in DMEM at 37°C with 95% humidity and 5% CO2.
Quantitative real-time PCR (qRT-PCR)
After total RNA extraction with the TRIzol Reagent (TaKaRa), cDNA synthesis was carried out using 5 µg of the mentioned total RNA and the PrimeScript RT Reagent Kit (TaKaRa). A Bio-Rad RT-PCR amplification system along with a SYBR Green PCR Kit (Takara) was utilized for qRT-PCR. The quantification of mRNA expression levels was conducted using the 2ΔΔCt method, with normalization to the endogenous reference gene GAPDH. The PCR primer sequences for the human PPP2R2B were as follows: (forward) 5′-TGCAGCTTACTTTCTTCTGTCT-3′ and (reverse) 5′-GTAGCCTTCTGGCCTCTTATC-3′. For the GAPDH primers, the sequences were (forward) 5′-AAGGTGAAGGTCGGAGTCAAC-3′ and (reverse) 5′-GGGGTCATTGATGGCAACAATA-3′.
Western blotting (WB)
Antibodies against PPP2R2B, N-cadherin (N-cad), E-cadherin (E-cad), Vimentin, Bax, and Bcl-2 were bought from Wuhan Sanying (Wuhan, China). ERK, JNK and p38 antibodies, were sourced from Boser Bio (Wuhan, China).
Proteins were extracted from cells and tissues using SDS-PAGE gels for separation. Following separation, the proteins were transferred onto a PVDF membrane and then incubated with primary antibodies targeting PPP2R2B, accompanying biomarkers, and GAPDH at 4 degrees Celsius for 48 hours. After blocking the membrane with BSA at room temperature for 2 hours, secondary antibodies were added and incubated for another 2 hours. The membrane underwent three TBST washes before exposure to a luminescent solution, using GAPDH as an internal control.
Immunohistochemistry (IHC) staining
A senior pathologist reviewed tissue slides to detect and label tumor regions. Cylinder replicas (1.0 mm wide) were collected from the designated tumor sites and adjacent non-malignant pancreatic tissue in the donor's tissue samples. These samples were then embedded in a fresh paraffin block. Standard protocols were followed for immunohistochemical staining, employing specific Vimentin, Beclin, and PPP2R2B antibodies.
Cell counting Kit‑8 (CCK-8) assay
Cells were first plated onto 96-well culture dishes with a concentration of 5 × 103 cells per well. Following plating, the dishes were placed in the incubator for durations spanning from 24 to 72 hours. A CCK-8 solution obtained from Boster Bio (China) was utilized for the experiment. A volume of 10 µL of the CCK-8 solution was added to each separate well and permitted to incubate within the incubator for a duration of one hour. In order to guarantee precise evaluation of cellular growth, the absorbance at a wavelength of 450 nm was measured for each well utilizing a plate reader.
5-Ethynyl-2’-deoxyuridine (EdU) assay
The Seville Biotech (Wuhan, China) provided the necessary reagents for the EdU assay. Pancreatic cancer cells were seeded in confocal dishes at a density of 3×105 cells per well. Subsequently, the cells were treated with 4% paraformaldehyde (Beyotime, China) for 10 minutes to fix them. After fixing, the cells underwent three washes with PBS and were permeabilized for 5 minutes using 1% Triton (Beyotime, China). Subsequently, the cells were exposed to the dyeing agent in the dark for 30 minutes, then subjected to DAPI staining (Olympus, Tokyo, Japan) at 37°C for 5 minutes. Imaging was carried out with a microscope at 400× magnification.
Wound healing assay
An exact count of cells were uniformly spread in a 6-well dish and cultured for a duration of 24 hours. A gap was created between the cells by drawing a single line using the tip of a crystal pipette. After washing with PBS, images were captured; then, drug-containing and standard media were added. Gap growth was monitored and captured at 0 and 24 hours. The area was determined by dividing the width by the length. Mobility of cells (%) was calculated as 100 times the difference in width between 0 h and 24 h, divided by the width at 0 h. The Image J program was utilized to gauge the gap between the opposing ends of the wound. Analysis of the data from three distinct trials involving two sets of samples was conducted for statistical purposes.
Migration and invasion assay
The Transwell system filter (8.0 µm pore size; BD Biosciences, USA) was used for the migration assay. In a 24-well culture plate (Corning, USA), 200 µL of either treated or untreated 1×105 cells were added to the upper chamber of Transwell inserts for 24 hours, followed by the addition of 700 µL of medium containing 30% FBS to the lower chamber. The invasion assay utilized chambers with inserts coated uniformly with Matrigel (BD Biosciences). The chambers were then fixed with 4% paraformaldehyde for 15 minutes and stained with 0.1% crystal violet for 30 minutes. Following this, the upper surface of the inserts was carefully cleaned using absorbent paper, and the stained cells were imaged randomly using a microscope after rinsing with PBS. Cell migration and invasion capabilities were assessed by quantifying the average number of labeled cells across five different fields. Statistical analysis was performed utilizing data from two groups across three independent experiments.
Animal experiment
Four to six-week-old BALB/c mice, weighing between eighteen and twenty grams, were kept in a sterile setting with unrestricted access to food and water. Through unbiased randomization, ten mice were evenly split into two groups, with each group consisting of five mice. Then, both groups were injected subcutaneously in the side with 5×106 PANC-1 cells that expressed various PPP2R2B shRNAs and control NC shRNAs. Weekly measurements were taken of the tumor's dimensions, which were determined using the formula of multiplying the length by the square of the width, and then multiplying by 0.5. Afterward, the mice were put to sleep with isoflurane overdose, followed by measuring the tumor’s size and weight in a lab setting. All animal experiments were conducted in accordance with the Guidelines for the Care and Use of Laboratory Animals, and were granted approval by the Ethics Committee at the First Hospital of Lanzhou University (LDYYLL-2024-244).
Statistical analysis
Statistical analyses were conducted using the SPSS 22.0 software from Chicago, USA, and GraphPad Prism software version 9.5 from the USA. The results were presented as mean ± SEM (standard error of the mean). A comparison of means between two groups was made using an unpaired t-test. To assess differences between two or more groups, one-way ANOVA and the Bonferroni test for multiple comparisons were applied. Statistical significance was defined as p < 0.05.