2.1 Human osteosarcoma clinical specimens
A total of 6 paired osteosarcoma and corresponding paratumoral tissues were collected at the First Affiliated Hospital of Nanchang University from November 2021 to January 2022. All tissues specimens were resected during surgery and directly snap frozen in liquid nitrogen. The study protocol was approved by the ethics committee of the First Affiliated Hospital of Nanchang University. All written informed consents had received from patient who underwent surgery resection.
2.2 Cell culture
The U251 and U87 cell lines (ATCC, Manassas, VA, USA) are commonly used as experimental models of glioblastoma. Cells were cultured in Dulbecco’s Modified Eagle’s medium (Gibco, Waltham, MA, USA), supplemented with 10% fetal bovine serum (FBS, Gibco, Waltham, MA, USA), pyruvate (1 mM; Sigma-Aldrich, Shanghai, China), non-essential amino acids (0.1 mM; Sigma-Aldrich, Shanghai, China), and a mix of antibiotics (1 mM; Sigma-Aldrich, Shanghai, China) in a humidified atmosphere with 5% CO2 at 37°C.
2.3 Quantitative RT-PCR
Total RNA from tissue samples and cells were isolated using the mirVana™ miRNA isolation kit (Ambion, Austin, TX, USA) according to the manufacturer’s instruction. RT-qPCR analysis was performed with SYBR green in a 7500 Fast Real-Time PCR system (Applied Biosystems, Carlsbad, CA, USA). Circ-0010117, microRNA-6779-5p (miR-669-5p) and SPEN were detected by qRT-PCR. U6 was used as internal references for circ-0010117 and miR-669-5p, as previously described[6]. β-Actin was used as an internal control for SPEN. All primers were commercially available from Sangon Biotech (Shanghai, China). The amount of circ RNA, miRNA or each gene relative to the internal control was calculated as previously described[7].
2.4 RNA interference of circ-0010117
Circ-0010117 siRNAs (siRNA-#1, siRNA-#2 and siRNA-#3) targeting the junction region of the circRNA-0010117 sequence were commercially available from GeneCopoeia (Rockville, MD, USA). Transfection of siRNA was performed using Lipofectamine 3000 (Invitrogen, Carlsbad, CA, USA) according to the manufacturer’s protocol. The shcirc-0010117 is also commercially available from GeneCopoeia (Rockville, MD).
For circ-0010117 over-expression plasmid (circ-0010117), the sequence was cloned into GV248. The backbone of pLCDH-ciR (Geneseed, Guangzhou, China) was used to construct the circ-0010117 overexpression plasmid. The linear sequence of circ-0010117 together with the flanking circ-0010117-inducing sequence was amplified and subcloned into EcoRI and BamHI sites of pLCDH-ciR.
2.5 MiR-6779-5p/SPEN overexpression and inhibition
For SPEN overexpression in vitro, we used SPEN vector construct (OriGene Technologies, Inc., Rockville, MD). U251 and U87 cells were seeded in a 6-well plate (Corning, Cambridge, MA, USA) (2X105 cells/well) with the complete media. The cells were transfected with 2ug SPEN vector or the vector control (OriGene Technologies) using lipofectamine 3000 (Invitrogen, Carlsbad, CA, USA) with Opti-MEN (Gibco) for 4h. Then, we replaced the Opti-MEN with the complete medium. After 48h, the cells were collected to the next determination. MiR-6779-5p mimics were commercially available from life technologies. Transfection of miRNA mimics was performed using the RNAiMAX Reagent (Invitrogen, Carlsbad, CA, USA) followed the manufacturer’s instruction. miRNA vector control (NC mimic) was used as a vector control. The shSPEN and miR-6779-5p inhibitor are also commercially available from GeneCopoeia (Rockville, MD).
2.6 Cell Counting Kit-8 (CCK8) assay
CCK-8 assay were performed to assess the proliferation of U251 and U87 cells. For CCK-8 assay, the mock and infected cells (1×105 cells/well) were seeded into 96-well plates (Corning, Cambridge, MA, USA) after 24h transfection and cultured for 24h, 48h and 72h. The absorbance at 450 nm was measured using CCK-8 (Dojindo Laboratories, Kumamoto, Japan) at indicated time according to the manufacturer’s protocols.
2.7 Colony formation assay
For colony formation assay, we melt 1.4% (v/v) agarose (Sigma-Aldrich, Shanghai, China) in a microwave and cool to room temperature. Then, we mixed equal volumes of the 1.4% melted agarose with the complete cell culture medium. After that, 2ml of 0.7% (v/v) low melt agar was added into each well of the 6-well plate (Corning, Cambridge, MA, USA) and set aside to allow agarose to solidify. Cells (5×103 cells/well) were mixed with 1.4% agarose in complete culture medium, plated on top of the solidified layer to form colonies in1-3 weeks. Cells were fed with complete culture medium every 3 d.
The colony is denied to consist of at least 50 cells [8]. Clones were fixed with 4% paraformaldehyde for 30 min and stained with 0.1% crystal violet (Millipore, Billerica, MA, USA). Visible colonies were manually counted.
2.8 Apoptosis assay
Flow cytometry was performed for the apoptosis analysis. U251 and U87 cells were digested with trypsin (Invitrogen, Carlsbad, CA, USA) and washed with PBS. After blocking with 10% FBS, cells were stained with 5 µl FITC annexin-V and 1 µl propidiumiodide (Becton Dickinson, Heidelberg, Germany) and incubated at room temperature for 15 mins in the dark. Then, flow cytometric was performed (Life Technologies, Darmstadt, Germany). The cells were then analyzed with CellQuest software (BD Biosciences, San Jose, CA). The dead cells and the relative ratio of apoptotic cells was compared in each condition.
2.9 Wound scratch assay analysis
U251 and U87 cells were first transfected with shcirc-0010117 or circ-0010117 or their related control for 24hrs. Wound scratch assay was performed as previous description[9–12]. After then, cells were seeded into 12-well plates (5X105 cells/well) with medium and cultured for 24h to reach ~ 90% confluence. A 10µl pipette tip was used to make a scratch line. Cells were washed with PBS for 3 times to remove the scratched cells. After then, cells were cultured in medium containing 0.5% FBS. The cells were incubated at 37°C and images were captured at 0 and 48h using a light microscope (Olympus Corporation, Tokyo, Japan).
2.10 Cellular Invasion
Boyden chamber assay with 24-well collagen-based cell invasion assay kit (Millipore, Bedford, MA, USA) was used to perform transwell assay. U251 and U87 cells were first transfected with shcirc-0010117 or circ-0010117 or their related control for 24hrs. After then, 200ul of serum-free medium containing 5X105 cells were added to the filter. 750µl complete cell culture medium was added into the bottom chamber in which the FBS as a chemoattractant. After incubated for indicated time, the non-invasive cells were cleaned by scrubbing with a cotton swab. The cells that adhered to the outside of the membrane were fixed and dyed with Cristal Violet solution (Millipore, Billerica, MA, USA). An Olympus optical microscope (Olympus Corporation, Tokyo, Japan) was used to observe invasive cells.
2.11 Dual-luciferase reporter assay
The binding sites of circ-0010117 for miR-6779-5p of its 3’-UTR and mutant were commercially available at GeneCopoeia (Rockville, MD). U251 and U87 cells were seeded in a 6-well plate (Corning, Cambridge, MA, USA) at a density of 2.5 X 105 cells/ well with the complete media. The cells were co-transfected with 1ug circ-0010117 3’-UTR (circ0010117-WT) or mutant luciferase reporter construct (circ0010117-Mut) with 20nM miRNA mimic or NC mimic using lipofectamine 2000 (Carlsbad, CA, USA) with Opti-MEN (Gibco, Waltham, MA, USA) for 48h. Luciferase assays were performed using the dual-luciferase reporter assay reagent from GeneCopoeia. Data are expressed as the ratio of firefly luciferase activity by Renilla luciferase activity.
2.12 Western blotting
The total protein was extracted from cell with and without circ-0010117 with T-PER Tissue Protein Extraction Reagent (Thermo Pierce, Rockford, IL, USA) with 1% Halt Protease and Phosphatase Inhibitor (Thermo Pierce, Rockford, IL, USA). After then, the extracted protein was loaded and ran on odium dodecyl sulfate-polyacrylamide gels (8–12% separating gel, 5% concentrated gel). The protein in the gel was transferred onto a PVDF membrane (Millipore, Bedford, MA, USA) for antibody detection. The PVDF membrane was blocked for 1 h at room temperature in 5% non-fat milk in Tris-buffered saline with 0.1% Tween- 20 detergent (TBST). The membrane was washed by TBST for 3 times for 10 min each in room temperature and followed by incubation with primary antibodies (anti-truncated-cas-3, full-cas-3, cas-8, cas-9, BCL-2, BAX, P53, and JNK1) overnight at 4℃. β-actin was served as internal control (Abcam, Cambrigde, MA, USA). After then, the membrane was washed by TBST for 3 times for 10min each in room temperature, and incubated with horseradish peroxidase (HRP) labeled goat anti-mouse IgG or goat anti-rabbit IgG secondary antibody, respectively (Thermo Pierce, Rockford, IL, USA) for 1h in room temperature. Proteins were visualized by using ECL western blotting detection reagents (SuperSignal® West Dura Extended Duration Substrate, Thermo Pierce, Rockford, IL, USA) after the membrane was washed by TBST for 3 times for 10 min each in room temperature. The relative expression of the target protein was quantitatively analyzed by ImageJ (NIH, Bethesda, MD, USA).
2.13 Mouse xenograft assays
Female nude mice (BALB/c, SPF grade, weighing 16–20 g and 4-week-old) were purchased from Shanghai Lingchang Biotechnology Co., Ltd (Shanghai, China). Transfected cells were digested with trypsin and washed twice with PBS. Cells were resuspended in 200 µL solution containing 100 µL PBS and 100 µL Matrigel substrate at a final density of 2×107 cells/0.2 mL. Four-week-old female BALB/c nude mice were subcutaneously injected with 2×107 tumor cells. Mice were sacrificed at day 35 since tumor cells have been injected and tumor volume was measured.
2.14 Statistical analysis
Statistical analyses were performed using GraphPad Prism and all data were presented as mean ± standard deviation (SD) from triplicate experiments. Differences between groups were analyzed by unpaired t-test. A p-value < 0.05 is considered significant.