Chemicals and reagents
Indirubin (wkq-01742, purity ≥ 97.0%, HPLC) and indigo (wkq-00174, purity ≥ 98.0%, HPLC) were purchased from Sichuan Weikeqi Biological Technology Co., Ltd (Chengdu, China). Primary antibodies to PTGS2 (GB11077-2) was purchased from Servicebio Co., Ltd (Wuhan, China). Primary antibodies, anti-GSK-3β (D5C5Z, #12456) and anti-phospho-GSK-3β (Ser 9, 5B3) (#9323), were purchased from Cell Signaling Technology (CST) (Boston, MA, USA). Primary antibodies to 4-HNE (ab46545) and GPX4 (ab125066) were purchased from Abcam (Cambridge, MA, USA). Adriamycin (A183027, purity ≥ 97.0%) was purchased from Shanghai Aladdin Bio-Chem Technology Co., LTD (Shanghai, China). Anti-glyceraldehyde 3-phosphate dehydrogenase (GAPDH) antibody (FD0063) was from Fude Biological Technology (Hangzhou, China). Other chemicals were purchased from standard commercial suppliers.
Bioinformatical analysis of breast cancer-related genes
The gene expression profile of GSE20713, GSE42568 and GSE 54002 in breast cancer and normal breast tissues were obtained from the free public database, NCBI-GEO database. Differentially expressed genes (DEGs) between breast cancer specimen and normal breast specimen were identified via GEO2R online tools with log FC < -2 and adjust P value < 0.05 [22]. Then, the raw data in TXT format were checked in Venn software online to detect the commonly DEGs among the three datasets. The prognostic relationships between selected genes and breast cancer were analyzed by Kaplan-Meier plotter and GEPIA online tools [23, 24].
Cell culture
4T1 mouse breast cancer cell was purchased from the Cell Bank of the China Academy of Sciences and cultured in DMEM medium (C11995500BT, Gibco, Carlsbad, CA, USA) supplemented with 10% fetal bovine serum (FBS) (ST40-39500, PAN-Seratech, Aidenbach, Germany) and 1% penicillin-streptomycin (C0222, Beyotime, Shanghai, China) at 37 °C under a humidified 5% CO2 atmosphere.
Cell viability analysis
4T1 cells were seeded in a 96-well plate and cultured in DMEM supplemented with 10% FBS overnight. After 24 h of drug treatment, 3-(4,5-dimethyl-2-thiazolyl)-2,5-diphenyl-2-H-tetrazolium bromide (MTT) solution was added into each well and incubated at 37 °C for 4 h. The medium was removed and formazan crystals were later dissolved in dimethyl sulfoxide (DMSO). The absorbance was measured at 570 nm.
Wound healing assay
4T1 cells were seeded into 12-well plates and grown to a monolayer until 90% confluence. After removing the medium, the cell monolayer was scraped in a straight line with a sterile tip of 200 microliters. Next, the isolated cells were washed with phosphate buffer saline (PBS). The cells were treated with fresh medium containing 2% FBS with different drug concentrations for 48 h. Untreated cells served as the control. All the cells were photographed with a microscope before and after the drug treatment. Image J software was used to quantitatively calculate the wound area.
Animal experiment
BALB/c mice (6–8 weeks old, female) were purchased from Guangdong Medical Laboratory Animal Center (Guangzhou, China) with permission No. SCXK 2017 − 0174. Animal experiments were approved by the Animal Care and Use Committee of Jinan University and conducted in accordance with National Institute of Health’s Guide for the Care and Use of Laboratory Animals (7th edition, United States). All mice were kept in a non-pathogenic animal chamber with a temperature of 23 ± 1 °C and a dark period of 12 h, and fed with standard laboratory diet and water. The animals were allowed to acclimatize for a week before the experiment. Mice received a subcutaneous injection with 4T1 cells (2 × 106 cells) into the right flank. When the tumor diameter reached about 5 mm, the mice were randomly divided into 5 groups. The mice were treated with saline, indigo (20 mg/kg), indirubin (low dose, 10 mg/kg; high dose, 20 mg/kg) and Adriamycin (1 mg/kg, clinically used in the treatment of breast cancer, as a positive control drug) every day (Supplementary Table 1). The tumor sizes were measured every 2 day using calipers, and the tumor volume was calculated by the following formula: volume (mm3) = 0.5 × [length (mm)] × [width (mm)]2. The tumor size at 21th day post-injection was used as the endpoint reading. Mice were sacrificed with diethyl ether anesthesia. The data were presented as the mean volume X ± S. E.
Histological analysis
Breast tumors were fixed with 4% paraformaldehyde for 48 h at room temperature. Then, they were dehydrated, transparent, paraffin-embedded and cut into 5 µm thick slices. Hematoxylin and eosin (H&E) were used for staining of tumor tissues. The histological changes were observed and imaged at 40x magnification under an automatic scanning microscope (PreciPoint M8, Freising, Germany).
Western blotting
The cells and tumor tissues were lysed using RIPA (P0013C, Beyotime) lysis buffer containing 1 mM PMSF (P1005, Beyotime) on ice for 30 min. After centrifugation at 12,000 × g at 4 °C for 10 min, the supernatants were collected and total protein concentrations were determined using BCA protein assay kit (Pierce, Rockford, IL, USA). The protein samples were separated by 10% SDS-PAGE and then transferred to PVDF membranes (Millipore Corporation, Billerica, MA, USA). The membranes were blocked with 5% skim milk dissolved in TBST buffer at room temperature for 1 h and probed with the indicated primary antibodies at 4 °C overnight and then incubated with HRP-labeled secondary antibodies at room temperature for 2 h. Target proteins were detected using ECL Western Blotting Detection Reagent (20190120, Fude Biological Technology) and visualized by Tanon 5200 imaging system (Tanon, Shanghai, China). GAPDH is used as an internal control.
Reverse transcription and quantitative real-time PCR
Total RNA of cells was extracted using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) according to manufacturer’s instructions. RNA concentrations were determined by optical density measurement at 260 nm on a spectrophotometer (NanoDrop 2000, Thermo Scientific; Wilmington, DE, USA). cDNA was synthesized from the purified RNA by both random and oligo (dT) priming by a TransScript One-Step gDNA Removal and cDNA Synthesis SuperMix kit (AT311, TransGen Biotech, Beijing, China) and amplified in real-time quantitative PCR by a TransStart Top Green qPCR SuperMix kit (AQ131, TransGen Biotech). The following primer sequences were used: Ptgs2, 5’-CCACTTCAAGGGAGTCTGGA-3’ (Forward), Ptgs2, 5’-AGTCATCTGCTACGGGAGGA-3’ (Reverse); Gapdh, 5’-AACTTTGGCATTGTGGAAGG-3’ (Forward), Gapdh, 5’-GGATGCAGGGATGATGTTCT-3’ (Reverse). Using the comparative threshold cycle (Ct), relative expression was calculated using 2−△△Ct method and normalized by the expressions of Gapdh from the same samples.
Determination of glutathione (GSH) and malondialdehyde (MDA)
The cells and tumor tissues were lysed using RIPA lysis buffer containing 1 mM PMSF on ice for 30 min and then centrifuged at 12,000 × g at 4 °C for 10 min. Then, the resulting cell lysates were utilized to assess GSH content and MDA content, using commercially test kits (GSH, A061-1-1, Nanjing Jiancheng BioTechnology, Nanjing, China; MDA, S0131, Beyotime), respectively, according to the manufacturer's protocols.
Molecular docking
The molecular docking method was used for the analysis of indirubin and indigo binding with GSK-3β. The discovery Studio 3.0 docking program was adopted [25]. The structure of GSK-3β was downloaded from PDB database (PDB ID: 2O5K). The preparation of protein structure included adding hydrogen atoms, removing water molecules, and assigning Charmm forcefield. All parameters were set as default.
Statistical analysis
Statistical analysis was performed using GraphPad Prism 6.0 software (San Diego, CA, USA). The statistical significance of differences between two groups was determined with unpaired Student's t-test and multiple comparisons were analyzed with one-way ANOVA. All data presented as mean ± standard deviation. Differences were considered statistically significant at p < 0.05.