Cell lines and culture
Human normal liver cell line LO2 and HCC cell lines HepG2, 7402 and 97H were obtained from American Type Culture Collection (ATCC, USA). The cells were cultured in DMEM (Invitrogen, USA) with 10% FBS (GIBCO, Brazil) at 37 °C with 5% CO2. All cell lines are passaged in our laboratory for less than six months after resuscitation of frozen aliquots and re-authenticated by DNA fingerprinting every six months.
Quantitative RT-PCR analysis (qRT-PCR)
Total RNA of cells and tissues was isolated by TRIzol reagent (Life Technologies, USA). cDNA was synthesized using the PrimeScript RT reagent kit (Takara Bio Inc, China), and qRT-PCR was performed using SYBR Premix Ex Taq (Takara Bio Inc.) with CFX96 Real-time PCR system (Bio-Rad, USA). The abundance of target transcripts was evaluated using house-keeping genes U6 or β-actin as control. The relative fold-change in expression for a control sample was calculated by the 2-ΔΔCt method.
RNase R digestion experiment
The RNA extracted from 97H cells was evenly divided into two groups: treated by RNase R group (Epicentre Technologies, USA) and treated by the buffer control group. In RNase R group, 2 μg of total RNA was incubated with RNase R (3 U/μg) for 20 min at 37 °C. β-Actin served as an internal control.
Actinomycin D assay
Cells (1 x 105) were seeded into 6-well plates and treated with actinomycin D (2 mg/L; Sigma, USA). All the treated cells were collected at 8 h,16 h, 24 h respectively for qRT-PCR analysis of circ0097009 and SLC7A11 mRNA.
CCK8 assay and Transwell assay
Cell proliferation was evaluated by CCK-8 assay (Dojindo Laboratories, Japan). Cells (1 × 103) were seeded into 96-well plates and incubated at 37 °C for 24 h before transfection. CCK-8 solution (10 μl) was added to each well 48 h after transfection. After two h of incubation at 37 °C, the absorbance at 450 nM was tested using a microtiter plate reader (Bio-Tek EPOCH2, USA). For transwell assay, cells (at a density of 1×104) were seeded into migration chamber (BD Biosciences, USA), and medium (containing 10% FBS) was subsequently added into the lower chamber as an attractant. The cells were fixed by methanol after 24 h incubation, dyed by 0.1% crystal violet, and then counted under a microscope. Triplicate independent experiments were carried out.
Mouse xenograft model
All animal studies are following the guidelines of the Institutional Animal Experimental Ethics Committee of Sun Yat-Sen University Cancer Center. 4-week-old female BALB/c nude mice were subcutaneously inoculated with 2×106 cells (5 mice per group). Then, intratumoral injection (40 μL si-circ0097009 or si-NC) was conducted every four days. Tumour weights were measured after four weeks when the mice were euthanized. For lung metastases, cells (1×105) were intravenously injected into mouse tail veins (6 mice per group). Eight weeks later, the lungs of anaesthetized mice were removed, and the numbers of metastatic lung nodules were visually counted and verified by H&E-stained sections under a microscope.
Luciferase reporter assay
Luciferase reporter vector with the full length of the 3’-UTR of SLC7A11 or circ0097009 were constructed. Then we generated the mutant luciferase reporter vectors with QIAGEN XL-site directed Mutagenesis Kit (QIAGEN, California, USA). HepG2 cells were seeded into 96-well plates and co-transfected with a luciferase reporter vector and miR-1261 mimics or miR-1261 LNA. After 48 h of incubation, the luciferase activities were quantified with a dual-luciferase reporter assay (Promega, USA). Cells (5×103) were plated and co-transfected with the constructed vectors and miR-1261 mimics for incubation (48 h). Then, the relative luciferase activity was assessed by a dual-luciferase reporter assay system (Promega).
RIP assay
HepG2 cells are transfected with MS2bs-circ0097009, MS2bs-circ0097009 mt or MS2bs-Rluc with MS2bp-GFP by Lipofectamine 2000. Forty-eight hours later, RIP was performed using a Magna RIP RNA-Binding Protein Immunoprecipitation Kit (Millipore, USA). After purification of RNA complexes, the miR-1261 level was measured. The Ago2-RIP assay was performed with an anti-Ago2 antibody (Millipore). After purification of RNAs, the levels of circ0097009, SLC7A11, and miR-1261 were quantified.
Western blots
Total proteins were extracted, separated by SDS-PAGE (10%) and subsequently transferred to PVDF membranes (Millipore, USA). The membranes were then blocked with 5% skim milk for one h at room temperature. Subsequently, the membranes were incubated with primary anti-SLC7A11 (1:100, Abcam, USA) or anti-GAPDH (1:1000, Affinity, USA) antibody. HRP-labelled secondary antibody (CST) was used and detected by chemiluminescence.
Assessment of GSH/GSSG ratio
GSH/GSSG Quantification Kit II (Dojindo, Shanghai, China) was used to measure the intracellular ratio of glutathione (GSH) and oxidized glutathione (GSSG) levels. Sample preparation, standard solution and detection of concentration were performed according to the manufacturer’s protocols. The relative levels were calculated on a microplate reader (Molecular Devices Flexstation3, USA).