Reagents and cell culture
Adriamycin was purchased from Sigma-Aldrich (catalog. D1515) and was soluble in water to final concentration of 10 mg/ml. The catalog number of 3-MA and rapamycin M9281and S-015 (Sigma-Aldrich). Human breast cancer cell line, MCF-7, T47D, BCAP37, MDA-MB231, MDA-MB-453, MDA-MB-436, MDA-MB-468, HBL-100 and HCL-1937 were purchased from the Cell Bank of the Chinese Academy of Sciences and stored in liquid nitrogen. ADM-resistant MCF-7 cells (MCF-7/ADM) was derived from the human breast cancer cell MCF-7, which was maintained in the presence of 1 ug/ml ADM. A series of MCF-7 cells with incremental resistance to ADM were established by ADM challenge at the starting concentration of 1 ng/ml. A double concentration of ADM was then applied when the cells became tolerable. The process was repeatedly performed to increase cell tolerance to ADM. Cells were cultured in RPMI 1640 medium (Invitrogen, Carlsbad, CA, USA) supplemented with 10% fetal bovine serum (GIBREAST CANCERO) and grew at 37 °C with 5% CO2 and 95% humidity.
Plasmids, siRNAs, and transfection
Lentiviral PLAC8-overexpressing and negative control vectors were obtained from GENE (Shanghai China). Short interfering RNAs targeting PLAC8 or p62 (siRNA-PLAC8/siRNA-p62), and a scrambled control siRNA were designed and commercially synthesized by Ribo Bio (Guangzhou, China). MCF-7 and MCF-7/ADR cells were transfected with 1 µg of LC3-EGFP-mCherry plasmid using Lipofectamine® 3000 transfection reagent (Invitrogen, L3000001). The stable cell line was selected using G418 sulfate antibiotic (Cal- biochem, 509290). Cells were seeded 24 h in 12-well plates (1 × 105/well) and transfected with siRNA duplexes (50 nM) or 2 µg of plasmids using Lipofectamine 3000 (Invitrogen, USA) following the manufacturer’s instructions. Cells were harvested for RNA and protein extraction 48 h after transfection and processed for functional assays.
RNA isolation and real-time fluorescent quantitative PCR
Total RNA was extracted after 48 h transfection using Trizol reagent (Invitrogen) following the manufacturer’s instruction. The concentrations were quantified by NanoDrop 2000 (Thermo Scientific, USA), and the RNA (1 µg) was reverse-transcribed by the HiFiScript cDNA Synthesis Kit (CWBIO, CW2569M). Real-time fluorescent quantitative PCR was performed using UltraSYBR Mixture (CWBIO, CW0957H). Glyceraldehyde 3-phosphate dehydrogenase (GAPDH) was used as the reference gene. The following primers were used: PLAC8: 5′-GGAACAAGCGTCGCAATGAG-3′ (sense) and 5′-AAAGTACGCATGGCTCTCCTT-3′ (anti-sense); GAPDH: 5ʹ-TGCACCACCAACTGCTTAG-3ʹ (sense) and 5ʹ-AGTAGAGGCAGGGATGATGTTC-3ʹ (anti-sense). P62:5′-ATCGGAGGATCCGAGTGT-3′ (sense) and 5′-TGGCTGTGAGCTGCTCTT-3′ (anti-sense), The results were calculated using 2^-△△Ct method.
Protein extraction and Western blot analysis
Total protein was extracted after 48 h transfection using RIPA reagent (Beyotime Biotechnology, China) following the manufacturer’s instruction. The following antibodies were used: PLAC8 (1:1000, Cell Signaling Technology, #13885), Ki67 (1:500, Sino Biological, 100130-T32-50), GAPDH (1:500, Santa Cruz, sc-47724), β-actin HRP conjugated (1:500, Santa Cruz, sc-47778), LC3 antibody (1:1000, SIGMA, L7543), and p62 (1:1000, Medical & Biological Laboratories, PM045) antibodies. The signals were detected with an ECL Kit (Bio-Rad, ClarityTM Western ECL Substrate, 500 ml #1705061).
Immunofluorescence staining
Cells at a density of 1 × 105were briefly plated in 6-well plates, and three glass coverslips were placed onto the wells. The plates were incubated for 24–48 h until 30–40% confluence was reached. The cells were then fixed with 4% paraformaldehyde for 10 min at room temperature and permeabilized with 0.1% Triton X-100. The slides were then washed three times with phosphate-buffered saline (PBS) and blocked with 5% bovine serum albumin in PBS for 30 min at room temperature. The sections were incubated with a primary antibody against PLAC8 overnight. After rinsing three times with PBST for 5 min, an Alexa 488-conjugated (green) goat anti-rabbit antibody was applied (1:200 dilution; Life Technologies) for 1 h at room temperature. Cell nuclei were counterstained with DAPI (4',6-diamidino-2-phenylindole), and images were acquired using a Nikon laser scanning confocal microscope (Nikon Instruments Inc., Melville, NY, USA).
Cell viability assay
Cell viability assay was performed with MTS (5 mg/ ml, Promega, WI, USA). Approximately 48 h after transfection, the transfected cells were transferred into a 96-well plate for one day. Cells were then treated with serial dilutions of ADM for 48 h. The absorbance at 490 nm was measured using a multi-mode reader (LD942, Beijing, China). The IC50 (50% inhibitory concentration) value, which represents the drug concentration with 50% cell growth inhibition, was calculated by normal probability transforms based on the relationship of drug concentration and inhibition rat. Samples were prepared in triplicates, and the cell viability was determined as the mean ± SD.
Colony formation assays
Cells were seeded in 6-well plates at 500 cells/well and incubated for 10–14 days before staining with a crystal violet staining solution (Sigma-Aldrich). The colonies were then calculated and photographed.
Patient-specimen selection and Immunohistochemical analysis
The paraffin section of breast tumor and normal samples were collected from Sir Run Shaw Hospital, Zhejiang University. Breast tumor and normal samples were collected from breast cancer patients from Sir Run Run Shaw Hospital. All these selected breast cancer patients underwent primary surgery followed by ADM-based chemotherapy. The study was approved by the ethical committee of the Sir Run Shaw Hospital, School of Medicine, Zhejiang University. Slides were stained with PLAC8, Ki67, LC 3 and p62 antibodies by using the GT Vision III IHC Assay Kit (HRP/DAB, rabbit/mouse-general, two-step, GK500710, Gene Tech, Shanghai, China) in accordance with the manufacturer’s protocol. Images were acquired by polarized light microscopy.
Direct immunofluorescence
MCF-7 and MCF-7/ADM cells were transfected with a GFPLC3 plasmid overnight and transferred to coverslips. Nuclei were stained with 40,6-diamidino-2-phenylindole (DAPI, Sigma-Aldrich, D9542) followed by fixing with 4% paraformaldehyde (Sigma-Aldrich, 158127) and permeabilizing with 0.5% Triton X-100 (Solarbio, T8200-100) in PBS (Corning, R21-040-CV). Images were taken with a spinning disk confocal fluorescence microscope (the system is composed of a CSU-X1 spinning disk from Yokogama. The amounts of GFP-LC3-II-positive puncta in 50 GFP-positive cells for each group were counted using the Metamoph offline 7.7.8.0 software package and the GFP-LC3-II-positive puncta per cell were calculated.
Analysis of autophagy by flow cytometry
Cells added 5ug/ml ADM and 3-MA or RAPA incubated for 48 h. The cells were washed, and the autophagic vacuoles were quantified using a cyto-ID autophagy detection kit (Enzo, ENZ-51031) according to the manufacturer’s instructions. The signals of labeled autophagic vacuoles were analyzed using a flow cytometer with an FL1 (488 nm excitation, green) channel.
Co-immunoprecipitation
Co-immunoprecipitation (Co-IP) was performed using protein lysates of cells transfected with siP62 and PLAC8 plasmid and antibody following standard protocol. Normal rabbit IgG served as negative control. The immunoprecipitates was immunoblotted with anti-PLAC8 and anti-P62 antibodies that were described previously. The immunocomplexes on the Western blot were detected by chemiluminescence and photographic films and quantified with multi-Gauge soft (Fujifilm).
Tumor xenograft assay
MCF-7/ADM cells were transfected with lentiviral PLAC8-silencing and negative control vectors. An equal number (2 × 106) of cells were resuspended in 60 µl of PBS with 40 µl of growth factor-reduced basement membrane matrix (#356231 Corning) and then injected into four-week-old nude mice (n = 5). The mice were observed three times a week, and the tumor volumes were measured twice per week. Tumor volume was calculated with the formula V = 0.5 ab2 (a, longest tumor axis; b, shortest tumor axis). All mice were sacrificed four weeks after tumor cell injection. Tumor tissues were collected and processed for further analyses, including the immunohistochemistry analysis of PLAC8, Ki67, LC3 and p62 expression. Animal studies were reviewed and approved by the Ethics Committee for Animal Studies of Zhejiang University.
Statistical analysis
GraphPad Prism 6.0 software was used for statistical analysis. Data were independently collected from at least three experiments. The survival curve was conducted using the Kaplan–Meier method with a log-rank test. Two-tailed unpaired Student’s t-tests were used to compare mean data. The results are presented as the mean ± SD, and p < 0.05 was considered statistically significant.