Clinical samples
A cohort of 48 pairs of human glioma tissues and adjacent non-tumor tissue samples was procured from the Pathology department at the Affiliated Hospital of Guizhou Medical University in Guiyang, China. The glioma diagnosis of all cancer tissue specimens was validated through postoperative pathological examination, and clinicopathological data was collected at the time of sample acquisition. Approval for all experiments involving human specimens was obtained from the Human Ethics Review Committee of the Affiliated Hospital of Guizhou Medical University.
qRT-PCR assays
Total RNA was extracted using TRIzol reagent (Thermo Fisher Scientific, USA) and subjected to cDNA synthesis with a Quantscript RT Kit (Thermo Fisher Scientific, USA). Transcript quantification was performed with a SYBR RT-PCR kit (Thermo Fisher Scientific, USA) and specific primers, utilizing the 2−ΔΔCT method for expression level analysis with β-actin as the internal control. The primers employed in this study are detailed in Supplementary Table S1 of the supplementary data.
Western blotting
An analysis of the concentration of protein extracted from glioma cells using RIPA reagent containing 5% PMSF protease inhibitor was performed using the BCA method. Subsequently, 30µg of proteins per line were loaded and separated by 10% SDS-PAGE for 120 minutes. The proteins were then transferred onto PVDF membranes with a pore diameter of 0.45µm (Millipore, USA), blocked in 5% BSA for 30 minutes, and incubated with primary antibodies including TGF-β1 (1:1000, Cat No : 21898-1-AP, Proteintech), ARG1 (1:5000, Cat no. 16001-1-AP, Proteintech), IL-10 (1:2000, Cat no. 60269-1-Ig), HSP70 (1:5000, Cat no. 10995-1-AP, Proteintech), CD81 (1:1000, Cat no. 66866-1-Ig, Proteintech), CD9 (1:1000, Cat no : 20597-1-AP, Proteintech), TSG101 (1:2000, Cat no. 28283-1-AP, Proteintech), ace-STAT3 (1:1000, Cat no. #2523, CST), p-STAT3 (Y705) (1:2000, Cat no. #9145, CST), STAT3 (1:2000, Cat No : 10253-2-AP, Proteintech), NF-κB-p65 (1:5000, Cat no. 80979-1-RR, Proteintech), p300 (1:500, Cat no. 20695-1-AP, Proteintech), NF-κB-p65 (S536) (1:1000, Cat no. #3033, CST), and GAPDH (1:50000, Cat no. 60004-1-Ig, Proteintech) for 16 h at 4℃. A high sensitivity ECL reagent was used in the MultiImager to visualize the blots, and Image J software was used to quantify the relative protein expression.
RNA in situ hybridization (ISH)
ISH probes were inserted into glioma tissues after fixing and treating with pepsin, followed by hybridization and wash steps before digoxin antibodies were injected. The Aperio ImageScope system was used to capture ISH images after DAB was applied to detect signals.
Immunohistochemistry (IHC) experiments
The tissue sections underwent dewaxing, rehydration, and incubation in a repair solution at 96˚C. Following cooling, the sections were subjected to inactivation of endogenous enzymes and blocked with a 10% goat serum solution. Subsequently, primary antibodies including CD68 (1:1000, Cat no. 28058-1-AP, Proteintech), CD206 (1:10000, Cat no. 28058-1-AP, Proteintech), CD163 (1:1000, cat no, 16646-1-AP, Proteintech), KI67 (1:2000, Cat no. 16646-1-AP, Proteintech), PCNA (1:3000, 10205-2-AP, Proteintech) were applied and incubated overnight at 4˚C, followed by the addition of secondary antibodies. The sections were stained with 3,3'-diaminobenzidine (DAB) and hematoxylin, dehydrated, and sealed with gum before being examined under a microscope.
Cell culture and transfection
Human normal glial cells (NHA), monocyte THP-1, and glioma cell lines (T98G, LN229, LN18, U251, U87, and SHG-44) were procured from ATCC (USA) and cultured in DMEM (Invitrogen, USA) and 10% FBS at 37°C with 5% CO2. After cloning STAT3 cDNA into pCDNA3 vectors, site-directed mutagenesis was used to create plasmids containing STAT3 (K685Q) and STAT (K685R). GeneChem (Shanghai, China) verified the authenticity of all plasmids. Circum-001422 lentiviral plasmid was acquired from GeneChem (Shanghai, China) and transfected using Polybrene (Thermo Fisher, USA) according to the manufacturer's instructions.
Nuclear and cytoplasmic separation
Following the manufacturer's instructions, nuclear and cytoplasmic RNAs were isolated using the PARISTM Kit (Thermo Fisher Scientific, USA). Centrifugation at 4 ºC for 5 minutes was used to separate the nuclear and cytoplasmic RNA fractions after cell lysis. Afterward, the supernatant, which contains cytoplasmic RNA, was transferred to an RNase-free test tube, and the pellet, which contains nuclear RNA, was lysed in 500 mL of cell destruction buffer. Following separation of nuclear and cytoplasmic RNA fractions, washing, eluting, and storing at -80 ºC, the RNA fractions were passed through a filter cartridge.
Fluorescence in situ hybridization (FISH)
An RNA-FISH experiment was performed to determine the subcellular distribution of circ-001422 in glioma cells. FITC-labeled probes for circ-001422 were synthesized by RiboBio (Guangzhou, China). A Fluorescence In Situ Hybridization Kit (RiboBio, China) was used to produce fluorescent signals, and an Olympus FV300 confocal laser scanning microscope (Japan) was used to capture cellular images.
Chromatin immunoprecipitation (ChIP)
A 1% formaldehyde solution was administered to cells for 10 minutes, followed by two washes with ice-cold PBS, then the cells were harvested and centrifuged. A protease inhibitor complex was injected into the cells, and they were sonicated. After this, either antibody or control IgG was added and the cells were incubated overnight at 4 ºC. PCR was used to analyze the purified DNA fragments resulting from the antibody-DNA complex.
Luciferase Assay
To confirm the binding of STAT3 to WHSC1, a dual luciferase reporter assay was conducted utilizing the online database JASPAR. Both wild-type and mutated WHSC1 promoter sequences were cloned into the psi-basic luciferase reporter vector (Promega, USA). Following cell seeding and overnight incubation, U87 and LN229 cells were placed in a 24-well plate. Luciferase reporter vectors, containing either the wildtype WHSC1 promoter sequence or a mutated sequence, were then introduced. These vectors were co-transfected with NC or STAT3 plasmids into glioma cells using Lipo2000. The luciferase activity of the cells was evaluated 24 hours after transfection.
Macrophage induction
Monocyte-like THP-1 cells were cultured in six-well plates at a density of 1 × 106 cells and incubated in a serum-free high-glycemic medium containing 100 ng/ml of phorbol 12-myristate 13-acetate (PMA, MCE) and 0.3% BSA for 72 hours to induce differentiation into macrophage-like THP-1 cells.
Flow cytometry
Macrophage-like THP-1 cells were cultured in 6-well plates at a density of 10^6 cells per well in DMEM medium supplemented with 5% FBS and specific stimuli. After a 48-hour incubation period, the macrophages were detached using Accutase (Sigma-Aldrich), washed twice with PBS, and incubated with a blocking buffer composed of 50 µl of PBS containing 2% FBS and 0.02% NaN3 for 30 minutes on ice. Subsequently, the cells were treated with a fluorescently conjugated anti-human CD206 antibody for 20 minutes on ice, followed by rinsing with a washing buffer and fixation with 1% paraformaldehyde. Flow cytometric analysis was then conducted using a BD FACSCalibur instrument and data analysis was performed in FlowJo software.
5-ethynyl-2’-deoxyuridine (EDU) Assay
The EDU assay was performed using a BeyoClick™ EdU-488 Proliferation Detection Kit (Beyotime, Suzhou, China). Glioma cell lines U87 and LN229 were cultured in 6-well plates, allowed to adhere, and then treated with fresh medium containing 10 µM EDU. After a 2.5-hour incubation at 37°C, the cells were fixed in 4% paraformaldehyde (Boster, Wuhan, China) for 15 minutes and permeabilized with 0.1% Triton X-100 (Boster, Wuhan, China) for 8 minutes. Subsequently, 500µl of Apollo dyeing reaction buffer was applied for 40 minutes in a light-free environment. This staining was followed by DAPI staining for a period of 10 minutes. A fluorescence microscope (Olympus, Japan) was used to visualize the EDU staining.
Colony formation
The study examined the colony formation abilities of LN229 and U87 cells following treatment. Colonies exceeding 75 µm in diameter or comprising more than 50 cells were classified as positive colonies. After seeding a total of 1000 cells into each well of a six-well culture plate, three wells were assigned to each sample. Following 2 weeks incubation, the cells were rinsed twice in PBS, then stained with crystal violet.
Transwell assay
One thousand U87 and LN229 cells were resuspended in 300 ml of FBS-free DMEM and seeded into matrigel-coated transwell chambers. DMEM medium with 10% FBS was used in the bottom transwell chambers. Invading cells were fixed and stained for 20 minutes with 0.5% crystal violet after 24 hours. A microscope was used to visualize and count invasive cells in five randomly selected fields (up, down, left, right, middle) of each chamber.
In vivo mice model
The in vivo model was performed on female BALB/c nude mice obtained from the Animal Center of Guizhou Medical University. A subcutaneous injection of 2×106 glioma cells mixed with 1×105 macrophage-like THP-1 were administered either into the BALB/c mice's upper-right flank or into their in situ brain following adaptive feeding (n = 5 in each group). Guizhou Medical University's Animal Experimental Center approved the experiments on mice, monitoring health status daily and assessing tumor volume on a weekly basis.
Exosome extraction
Culture dishes containing DMEM-supplemented medium were incubated at 37°C with 5% CO2 until 70% confluent. Subsequently, the cells underwent a medium change and were incubated for a period of 3 days. Supernatant was obtained through a series of low-speed and high-speed centrifugation steps, followed by filtration and ultracentrifugation for 90 minutes. The resulting supernatant was removed, and the cells were resuspended in PBS for secondary ultracentrifugation to collect and resuspend the exosome precipitation.
RNA pulldown assay
T7 High Yield RNA Transcription Kit (Vazyme, USA) and PierceTM RNA 3' End Desthiobiotinylation Kit (Thermo Fisher) were used to synthesize biotin-labeled circ-001422. Following isolation of the RNA–protein binding complex with the PierceTM Magnetic RNA–protein Pull-Down Kit (Thermo Fisher), specific protein targets were identified using mass spectrometry.
RNA binding protein immunoprecipitation (RIP) assay
Whole cell lysis was obtained from 2 × 106 U87 and LN229 cells, followed by the addition of protease inhibitor cocktail and RNase inhibitor for a 5-minute incubation period. After incubation at room temperature for 30 minutes with IgG or antibodies, magnetic beads were coated with lysate from cell lysis and incubated at 4°C overnight after centrifugation at 1000g for 10 minutes. Finally, qRT-PCR was used to quantify the purified RNA.
Statistical analysis
Statistical analyses were conducted using the Student t test or one-way ANOVA to assess variances between two groups or multiple groups, respectively. Experiments were conducted thrice, with data presented as the mean ± SD. The overall survival rates were calculated using the Kaplan-Meier method, and log-rank tests were used for comparisons. Statistical significance was determined using GraphPad Prism 8 software.