Human osteosarcoma tissue samples
Human OS tissue samples and their adjacent tissues (n = 15) were collected at ZiBo Central Hospital and written informed consent was obtained from all patients. The protocol of this research project has been approved by the Ethics Committee of ZiBo Central Hospital and was in accordance with the Declaration of Helsinki [14].
Cell Culture
Human OS cell lines (MG63, HOS, 143B and U2OS cells) and human osteoprogenitor cell line hFOB1.19 cells were obtained from American Type Culture Collection (ATCC, USA). All cells were incubated in Dulbecco's modified Eagles' medium (DMEM, HyClone, USA) supplemented with 1% penicillin/streptomycin (Invitrogen, USA) and 10% fetal bovine serum (FBS, Invitrogen, USA) under 37⁰C with 95% air and 5% CO2 in a humidified incubator.
For transfection experiments, cells were cultured in sterile 12-well plates at the density of 1 × 106 cells/well. miR-338-3p mimics, miR-338-3p inhibitors small hairpin RNA of circ_0005909 (sh-circ_0005909) and their negative controls were purchased from Guangzhou Bersin Biotechnology Co. Ltd (BersinBio, China) and transfected into the cultured cells with Lipofectamine 2000 (Invitrogen, USA) according to the manufacturers’ protocols. The transfected cells were cultured under 37⁰C with 95% air and 5% CO2 for 24 hours (h) for further experiments and analysis.
RNA extract and quantitative real time PCR (RT-qPCR) assay
After treatment, total RNA was extracted with Trizol reagent (TaKaRa, China) according to the manufacturer’s instructions. Total RNA (500 ng) was reverse transcribed to cDNA with the PrimeScript RT Master Mix (TaKaRa, China). The relative RNA expression was examined using SYBR® Green Quantitative RT-qPCR Kit (Sigma-Aldrich, USA) and calculated by means of the 2−ΔΔCt method. The primer sequences (Sigma-Aldrich, USA) were shown in table 1.
Table 1 Primer sequences for RT-qPCR
Gene
|
Primer sequences
|
GAPDH
|
Forward: CCACATCGCTCAGACACCAT
Reverse: CCAGGCGCCCAATACG
|
circ_0005909
|
Forward: GTATCCACTTGCCCTTTA
Reverse: TTACTCCAGCCTGTCTC
|
U6
|
Forward: CGCTTCGGCAGCACATATAC
Reverse: TTCACGAATTTGCGTGTCAT
|
miR-338-3p
|
Forward: ATCCAGTGCGTGTCGTGG
Reverse: TGCTTCCAGC ATCAGTGAT
|
HMGA1
|
Forward: GGTCGGGAGTCAGAAAGAGC
Reverse: ATTCTTGCTTCCCTTTGGTCG
|
RNase R treatment and colony formation
5 μg of total RNA was incubated with or without 3 U/μg of RNase R (Epicentre Biotechnologies, USA) 37 °C for 15 min. Expression of RNA was subsequently purified and extracted by phenol-chloroform and then subjected to qRT‐PCR.
CCK-8 assay and clone formation assay
After treatment, cell proliferation was examined at 0, 24, 48 and 72 hours (h) by Cell Counting Kit-8 (CCK-8) assay (Dojido, Japan) in a 96-well plate according to the manufacturer’s instructions. Briefly, 10 µl of CCK-8 solution was added to each well. The solution was then measured spectrophotometrically at 450 nm after 2-h incubation at 37°C and the optical density (OD) value was recorded.
For clone formation assay, MG63 and 143B cells were mixed with 0.4 % of agarose and seeded into 12-well plates. 2 ml of culture medium was added to each well and incubated at 37 °C with 5 % CO2 for 7 days. MG63 and 143B cells were fixed with 10 % methanol and stained with 0.1 % crystal violet. The cell colonies were counted and photographed under a microscope (Olympus, Japan).
Construct of plasmid and Luciferase assay
This protocol was followed the published paper [15]. Briefly, the full-length of HMGA1 3’-UTR or circ_0005909 containing wild type (wt) and scrambled (mut) miR-338-3p binding sequence were inserted downstream of the firefly luciferase gene in psiCHECK2 to generate the psiCHECK2-HMGA1 3’UTR-wt or circ_0005909-mut plasmid and psiCHECK2-HMGA1 3’UTR-mut plasmid or circ_0005909-mut, respectively. The wt and mut plasmids were co-transfected into H293T cells with negative control, miR-338-3p mimics or their negative control (miR-NC) with control Renilla luciferase expression plasmid using Lipofectamine 2000. After 24h, relative luciferase activity was measure using the Dual-luciferase reporter Assay System (Promega, USA) according to the manufacturer's instructions.
Bioinformatics analysis
CircInteractome (https://circinteractome.nia.nih.gov/) was used to predict miR-338-3p binding site in the circ_0005909 and starBase v2.0 (http://starbase.sysu.edu.cn/) was used to predict the potential miR-338-3p binding sites to corresponding gene HMGA1 3’UTR to study the possible crossing network among circRNA, miRNA and target gene.
Statistical Analysis
GraphPad 8.1.0 was used to perform the statistical analysis in this study. Comparisons between two groups was analyzed using Student’s t-test or one-way ANOVA. When comparing more than two groups, one-factor analysis of variance was performed. All data was presented as mean ± standard error of means (S.E.M.). p < 0.05 represents statistical significance.