Knockdown of lncRNA-HOTAIR downregulates the drug-resistance of breast cancer cells to doxorubicin via the PI3K/AKT/mTOR signaling pathway.

The resistance to chemotherapeutic drugs is a critical feature of breast cancer recurrence and metastasis. Long non-coding RNAs (LncRNAs) serve key roles in tumor drug resistance. LncRNA-HOX transcript antisense RNA (HOTAIR) has been reported to be overexpressed in certain types of cancer and may be closely associated with tumor resistance. The current study aimed to investigate the role of lncRNA-HOTAIR in the regulation of breast cancer resistance to doxorubicin (DOX). A breast cancer cell line (MCF-7) and DOX-resistant breast cancer cell line (DOXR-MCF-7) were utilized in the current study. DOXR-MCF-7 cells were transfected with lncRNA-HOTAIR small interfering RNA (siRNA) and control siRNA. Subsequently, MTT and colony formation assays were performed to assess cell proliferation. Cell apoptosis was also evaluated via flow cytometry. In addition, western blotting and reverse transcription-quantitative polymerase chain reaction were performed to detect the expression of caspase-3, B-cell lymphoma 2, Bcl-2-associated X protein, phosphoinositide 3-kinase (PI3K), protein kinase B (AKT) and mechanistic target of rapamycin (mTOR), and the phosphorylation of PI3K, AKT, and mTOR. The data indicated that lncRNA-HOTAIR silencing decreased cell proliferation and increased apoptosis in MCF-7 and DOXR MCF-7 cells. Furthermore, lncRNA-HOTAIR silencing significantly decreased the phosphorylation of PI3K, AKT and mTOR, indicating that the knockdown of lncRNA-HOTAIR effectively attenuates the resistance of breast cancer cells to DOX by inhibiting the PI3K/AKT/mTOR pathway. In summary, the present study indicated that the knockdown of lncRNA-HOTAIR weakened the resistance of breast cancer cells to DOX via PI3K/AKT/mTOR signaling, suggesting that lncRNA-HOTAIR may be a novel intervention target to reverse DOX-resistance in breast cancer.

Introduction

Breast cancer is a common malignant tumor with an increasing incidence rate (1,2). According to the World Cancer Research Fund, 450,000 mortalities are caused by breast cancer worldwide each year, accounting for 13.7% of cancer-associated mortalities in women (3). Great efforts have been made to improve the diagnosis and treatment of breast cancer in recent years; however, the pathogenic mechanism of breast cancer is yet to be fully elucidated. At present, doxorubicin (DOX) is considered to be one of the most effective drugs for the treatment of breast cancer (4). However, following several treatments, drug resistance may develop, which leads to therapy failure (5,6). Currently, the mechanism of DOX resistance is poorly understood.

Long non-coding RNA (lncRNA) are RNA molecules comprising >200 nucleotides that do not possess any protein-coding capacity (7,8). However, lncRNAs serve key roles in the transcriptional, post-transcriptional and epigenetic regulation of gene expression (9). Numerous studies have indicated that the abnormal expression of lncRNA is associated with various tumor functions, including tumor formation, drug resistance and metastasis (10,11). Additionally, the abnormal expression of the lncRNA, HOX transcript antisense RNA (HOTAIR), was identified in breast cancer cell lines and tissue (12,13). A previous study demonstrated that lncRNA-HOTAIR increased cisplatin resistance in gastric cancer by targeting microRNA-126 via the phosphoinositide 3-kinase (PI3K)/protein kinase B (AKT)/multidrug resistance-associated protein 1 (MRP1) pathway (14). However, It is not clear whether LncRNA-HOTAIR is involved in resistance to DOX in breast cancer cells.

The PI3K/AKT/mechanistic target of rapamycin (mTOR) signal transduction pathway serves a key role in the cell cycle, the proliferation of cells, cellular metabolism and in protein synthesis (15). A previous study has indicated that the PI3K/AKT/mTOR pathway is frequently activated in ovarian cancer (16). Furthermore, the aberrant activation of the signaling pathway is associated with the development of breast cancer and has therefore been targeted for the treatment of breast cancer (17).

The present study aimed to assess whether lncRNA-HOTAIR is associated with the resistance of breast cancer cells to DOX. The results revealed that the silencing of lncRNA-HOTAIR decreased the resistance of breast cancer cells to DOX by suppressing the PI3K/AKT/mTOR pathway. These results may provide a novel intervention target to reverse DOX-resistance in breast cancer.

Materials and methods

Cell culture

The human breast cancer cell lines, MCF-7 and SKBR3, were obtained from the American Type Culture Collection (Manassas, VA, USA). Cells were cultivated in RPMI-1640 medium (Gibco; Thermo Fisher Scientific, Inc., Waltham, MA, USA) supplemented with 10% fetal bovine serum (Gibco; Thermo Fisher Scientific, Inc.) and incubated at 37°C with 5% CO2.

Establishment of DOX-resistant cell lines

DOX was purchased from the First Affiliated Hospital of Kunming Medical University (Kunming, China). MCF-7 and SKBR3 cells were cultured in DOX-free Dulbecco's modified Eagle's medium (DMEM; Gibco; Thermo Fisher Scientific, Inc.) until cells were in the logarithmic growth phase, at which point the culture medium was replaced with DMEM medium containing a low dose of DOX (0.2 µg/ml). Subsequently, the concentration of DOX was increased from 0.2 to 0.6 µg/ml in 0.04 µg increments every 3 weeks. The DOX-resistant MCF-7 and SKBR3 cell lines were considered to have been successfully established when cells were able to survive under high DOX treatment (0.6 µg/ml). Prior to subsequent experimentation, cells were cultured in the drug-free DMEM medium containing 5% CO2 at 37°C for 2 days.

Cell transfection and RNA interference

LncRNA-HOTAIR small interfering RNAs (siRNAs or siR; siR-HOTAIR1, 3′-GAACGGGAGUACAGAGAGAUU-5′; siR-HOTAIR1-2, 3′-CCACAUGAACGCCCAGAGAUU-5′) were designed and synthesized by Shanghai GenePharma Co., Ltd. (Shanghai, China). Negative control siRNA (3′-CUACAACAGCCACAACGUCdTdT-5′) was purchased from Sangon Biotech Co., Ltd. (Shanghai, China). Briefly, 500 ng siR-HOTAIR1 was transfected into MCF-7 cells and DOXR-MCF-7 cells using 1 µl Lipofectamine® 2000 (Invitrogen; Thermo Fisher Scientific, Inc.) according to the manufacturer's protocol. The cells were incubated at 37°C in an atmosphere containing 5% CO2 for 6 h. Subsequently, transfected cells were incubated at 37°C for 72 h. Cells were then divided into the following experimental groups: Untransfected MCF-7 cells, negative control siRNA-transfected MCF-7 cells, siR-HOTAIR1 transfected MCF-7 cells; untransfected DOXR-MCF-7 cells, negative control siRNA-transfected DOXR-MCF-7 cells and siR-HOTAIR1 transfected DOXR-MCF-7 cells.

Reverse transcription-quantitative polymerase chain reaction (RT-qPCR) analysis

Total RNA was extracted from MCF-7 and DOXR-MCF-7 cells using TRIzol reagent (Thermo Fisher Scientific, Inc.) according to the manufacturer's protocol. Total RNA was then reverse-transcribed into cDNA using an RT kit (Takara Biotechnology Co., Ltd., Dalian, China) following the manufacturer's protocol. qPCR was performed using the SYBR Premix Ex Taq (Applied Biosystems; Thermo Fisher Scientific, Inc.) with the following thermocycling conditions: Initial denaturation at 95°C for 10 min, followed by 40 cycles of denaturation for 30 sec at 95°C, annealing at 60°C for 30 sec and extension at 72°C for 30 sec. Relative expression levels were calculated using the 2−ΔΔCq method (18). GAPDH was used as the reference gene. The following primers were used for amplification: GAPDH forward, 5′-ATTGATGGATGCTAFGAGTATT-3′ and reverse, 5′-AGTCTTCTGGGTGGCAGTGAT-3′; lncRNA-HOTAIR forward, 5′-CGGAGTGAGTTTATCGCAG-3′ and reverse, 5′-GGCGACCGGAGCTCATCTTACC-3′.

MTT assay

Following 72 h incubation, cell proliferation analysis was performed using an MTT assay kit (Sigma-Aldrich; Merck KGaA, Darmstadt, Germany). MCF-7 and DOXR-MCF-7 cells (5×105 cells/well) were seeded into 96-well plates. Subsequently, cell proliferation was detected at different time points (24, 48 and 72 h). MTT (5 mg/Ml, 20 µl) was added to cells and incubated for 4 h at 37°C. The precipitate was dissolved in 100 µl dimethyl sulfoxide and absorbance at 490 nm was detected using a microplate spectrophotometer.

Colony formation assay

A colony formation assay was performed following transfection. Cells (500 cells/well) were seeded into 6-well plates and incubated for 10 days in 5% CO2 at 37°C to form colonies. Cells were fixed in 95% methanol for 15 min at 4°C and stained with 1% crystal violet solution for 30 min at room temperature. Images were captured under a light microscope (magnification, ×100). Colony number was quantified using Alpha-View Software 3.1 (FluorChem Q; ProteinSimple, San Jose, CA, USA).

Flow cytometric assay

Cell apoptosis was assessed using a fluorescein isothiocyanate (FITC) apoptosis detection kit (Oncogene Research Products, La Jolla, CA, USA) in accordance with the manufacturer's protocol. Cells were harvested, washed twice with pre-cooled PBS and stained successively with propidium iodide (10 µl) and Annexin-V-FITC (10 µl; Nanjing KeyGen Biotech Co., Ltd., Nanjing, China). Following 15 min of incubation at room temperature, a flow cytometer (FACSVantage SE; BD Biosciences, San Jose, CA, USA) was used for sample analysis using the FlowJo software package (version 10.0.7; Tree Star, Inc., Ashland, OR, USA). The number of cells in each classification was presented.

Western blot analysis

Western blotting was performed to assess the expression of proteins of interest. Proteins were isolated using radioimmunoprecipitation assay lysis buffer (Beyotime Institute of Biotechnology, Haimen, China) and protein concentration was measured using a bicinchoninic acid protein assay kit (Beyotime Institute of Biotechnology). Proteins (20 µg/per lane) were subsequently separated via SDS-PAGE on 10% gels using polyvinylidene fluoride (PVDF) membranes (EMD Millipore, Billerica, MA, USA) for protein transfer. Membranes were then blocked with 5% nonfat milk for 2 h at room temperature and incubated with the following primary antibodies obtained from Cell Signaling Technology, Inc. (Danvers, MA, USA): Anti-Bcl-2-associated X protein (Bax; 1:1,000; cat. no. 2774), anti-B-cell lymphoma 2 (Bcl2; 1:1,000; cat. no. 2872), anti-cleaved caspase3 (1:500; cat. no. 9664), anti-PI3K (1:1,000; cat. no. 4255), anti-AKT (1:500; cat. no. 9272), anti-mTOR (1:500; cat. no. 2972), anti-phospho (p)-mTOR (ser2448; 1;1,000; cat. no. 5536), anti-p-PI3K (tyr458; 1:1000; cat. no. 4228), anti-p-AKT (ser473; 1:500; cat. no. 4060), anti-MRP1 (1:500; cat. no. 14685), anti-multidrug resistance protein 1 (MDR1; 1:500; cat. no. 13978), anti-ATP binding cassette subfamily B member 1 (ABCB1; 1:1,000; cat. no. 12683) and anti-GAPDH (1:2,000; cat. no. 5174). The membrane was then incubated with goat anti-rabbit IgG secondary antibodies (1:3,000; cat. no. ab6721; Abcam, Cambridge, UK) for 1 h at room temperature. An enhanced chemiluminescence kit (Bio-Rad Laboratories, Inc., Hercules, CA, USA) was used for visualization and the images were analyzed using ImageJ v1.8.0 (National Institutes of Health, Bethesda, MD, USA). The relative quantification of protein expression was analyzed using Image-Pro Plus 6.0 (Media Cybernetics, Inc., Rockville, MD, USA).

Statistical analysis

Statistical analysis was performed using SPSS version 20.0 software (IBM Corp, Armonk, NY, USA). Each experiment was repeated in triplicate and all data are presented as the mean ± standard deviation. Differences among multiple groups were detected using one-way analysis of variance followed by the Dunnett's post hoc-test. P<0.05 was considered to indicate a statistically significant difference.

Results

Detection of lncRNA-HOTAIR interference efficiency

The results of RT-qPCR revealed that HOTAIR was upregulated in the drug resistant breast cancer cell line, DOXR-MCF-7, compared with the other cell lines. HOTAIR expression also significantly differed between MCF-7 and MCF-7-DOX cell lines (Fig. 1A). Therefore, MCF-7 and MCF-7-DOX cell lines were used for the subsequent experimentation. The interference efficiency of HOTAIR siRNA was determined via RT-qPCR. The results revealed that the expression of lncRNA-HOTAIR1 was significantly reduced in the siR-HOTAIR1 and siR-HOTAIR1-2 groups compared with the negative control (Fig. 1B). The siR-HOTAIR1 plasmid, which exhibited the greatest interference effect, was selected for subsequent experimentation.

Figure 1.

Knockdown of LncRNA-HOTAIR suppressed the proliferation of MCF-7 cells. MCF-7 cells were transfected with lncRNA-HOTAIR siRNA and negative control siRNA for 72 h. (A) Levels of lncRNA-HOTAIR were assessed in the indicated cell lines via RT-qPCR. ##P<0.01 vs. the SKBR3 group; ***P<0.001 vs. the MCF-7 group. (B) Interference efficiency was also measured via RT-qPCR. ##P<0.01 and ###P<0.001 vs. the NC group. (C) MTT (*P<0.05 and **P<0.01 vs. the NC group; #P<0.05 vs. the control group) and (D) colony formation assays were performed to assess cell proliferation. The rate of colony formation was quantitatively analyzed. Magnification, ×100. **P<0.01 vs. the NC group; ##P<0.01 vs. the control group. Values are expressed as the mean ± standard deviation of three independent experiments. LncRNA, long non-coding RNA; HOTAIR, HOX transcript antisense RNA; RT-qPCR, reverse transcription-quantitative polymerase chain reaction; NC, negative control; siRNA, small interfering RNA; Dox, doxorubicin; OD, optical density.

Effect of siR-HOTAIR on the proliferation of MCF-7 cells

An MTT assay was performed to assess the proliferation of siR-HOTAIR1-transfected MCF-7 cells using optical density values (Fig. 1C). The results indicated that proliferation was markedly decreased in the siR-HOTAIR1 group compared with the control and NC groups. Subsequently, a colony formation assay was performed to further assess the proliferation rate of MCF-7 cells (Fig. 1D). The results demonstrated that cell colony formation ability was significantly decreased in the siR-HOTAIR1 group compared with the control and NC groups. Furthermore, the results of flow cytometry revealed that the rate of apoptosis was increased in the siR-HOTAIR1 group compared with the control and NC groups (Fig. 2). These results indicate that the knockdown of lncRNA-HOTAIR may suppress the proliferation of MCF-7 cells.

Figure 2.

Knockdown of lncRNA-HOTAIR induces the apoptosis of MCF-7 cells. Following staining with Annexin V FITC and PI, apoptotic cells were analyzed using a (A) flow cytometer with (B) subsequent quantification. The Annexin V assay was performed three times and values are expressed as the mean ± standard deviation of three independent experiments. ***P<0.001 vs. the NC group. LncRNA, long non-coding RNA; HOTAIR, HOX transcript antisense RNA; FITC, fluorescein isothiocyanate; PI, propidium iodide; siRNA, small interfering RNA; NC, negative control.

HOTAIR silencing reduces the sensitivity of drug resistance in drug-resistant MCF-7 cells

DOXR-MCF-7 cells were transfected with siR-HOTAIR1 and an MTT assay revealed that proliferation was significantly decreased in the siR-HOTAIR1 group compared with the control and NC groups (Fig. 3A). Additionally, cell colony formation was significantly decreased in the Dox-siR-HOTAIR1 group (Fig. 3B and C). Furthermore, the apoptosis rate of Dox-siR-HOTAIR1 cells was significantly increased compared with the control group (Fig. 4). The results indicate that lncRNA-HOTAIR may serve a key role in the resistance to DOX in MCF-7 cells.

Figure 3.

LncRNA-HOTAIR silencing reduces the sensitivity of drug resistance in drug-resistant MCF-7 cells. DOXR-MCF-7 cells were established and transfected with siRNA-HOTAIR1. (A) MTT (*P<0.05 and **P<0.01 vs. the NC group. #P<0.05 vs. the control group) and (B) colony formation assays with (C) subsequent quantification were performed to assess cell proliferation. ***P<0.001 vs. the NC group; ###P<0.001 vs. the control group. LncRNA, long non-coding RNA; HOTAIR, HOX transcript antisense RNA; DOXR, doxorubicin resistant; siRNA, small interfering RNA; NC, negative control.

Figure 4.

LncRNA-HOTAIR silencing affects the apoptosis of DOXR-MCF-7-cells. After staining with Annexin V FITC and PI, apoptotic cells were analyzed using a (A) flow cytometer with (B) subsequent quantification. The Annexin V assay was performed three times and values are expressed as the mean ± standard deviation of three independent experiments. ***P<0.001 vs. the NC group. LncRNA, long non-coding RNA; HOTAIR, HOX transcript antisense RNA; DOXR, doxorubicin resistant; FITC, fluorescein isothiocyanate; PI, propidium iodide; siRNA, small interfering RNA; NC, negative control.

HOTAIR silencing inhibits proliferation and promotes apoptosis by regulating apoptosis associated proteins

The activation of programmed cell death machinery is considered to be associated with the inhibition of cell proliferation. To assess the effect of siR-HOTAIR1 on cell apoptosis, the expression of apoptosis-associated proteins was determined via western blot analysis. Caspase-3, Bcl-2 and Bax have essential roles in cell apoptosis and tumorigenesis. As demonstrated in Fig. 5, the protein levels of caspase-3 and Bax were increased, and the expression of Bcl-2 was markedly decreased in the DOXR-MCF-7 siR-HOTAIR1 group compared with control group. The results indicated that HOTAIR silencing may affect proliferation and promote apoptosis by regulating the expression of apoptosis-associated proteins.

Figure 5.

LncRNA-HOTAIR silencing inhibits proliferation and promotes apoptosis by regulating apoptosis associated proteins. (A) The protein expression of (B) Bax, (C) caspase-3 and (D) Bcl-2 and were determined via western blotting. Values are expressed as the mean ± standard deviation of three independent experiments. *P<0.05 vs. the NC group and #P<0.05 vs. the control group. LncRNA, long non-coding RNA; HOTAIR, HOX transcript antisense RNA; Bax, Bcl-2 associated X; VCl-2, B-cell lymphoma 2; siRNA/siR, small interfering RNA; NC, negative control; Dox, doxorubicin.

Effect of HOTAIR silencing on drug-resistant proteins

Classical multidrug-resistant proteins, MDR1, MRP1 and ABCB1 were detected to determine the effect of lncRNA-HOTAIR on the drug resistance of DOXR-MCF-7 cells. The protein levels of MDR1, MRP1 and ABCB1 were significantly decreased in DOXR-MCF-7 siR-HOTAIR1 cells compared with the siR-NC DOXR-MCF-7 cells (Fig. 6).

Figure 6.

Effect of HOTAIR silencing on drug-resistant proteins. The expression of MDR1, MRP1 and ABCB1 were determined via western blotting. Values are expressed as the mean ± standard deviation of three independent experiments. ***P<0.001 and **P<0.01 vs. the NC group. ###P<0.001 and ##P<0.01 vs. the control group. HOTAIR, HOX transcript antisense RNA; MDR1, multidrug resistance protein 1; MRP1, multidrug resistance-associated protein 1; ABCB1, ATP binding cassette subfamily B member 1; NC, negative control; Dox, doxorubicin; siR, small interfering RNA.

HOTAIR affects the PI3K/AKT/mTOR signaling pathway in drug-resistant MCF-7 cells

The PI3K/AKT/mTOR pathway serves a key role in cell proliferation, cellular metabolism, protein synthesis and in the cell cycle (14). It is considered to be one of the most frequently mutated pathways in cancer (14). To determine the effect of HOTAIR silencing on the PI3K/AKT/mTOR pathway, the phosphorylation of these proteins were analyzed via western blotting. The protein expression of PI3K, AKT and mTOR remained unchanged, while the phosphorylation of PI3K, AKT and mTOR was significantly reduced by HOTAIR silencing in DOXR-MCF-7 cells compared with the control and NC groups (Fig. 7). This series of analyses indicate that siR-HOTAIR alters the resistance of MCF-7 cells to DOX.

Figure 7.

LncRNA-HOTAIR affects the PI3K/AKT/mTOR signaling pathway in DOXR-MCF-7 cells. (A) The protein expression and phosphorylation of (B) mTOR (C) PI3K and (D) AKT was assessed via western blotting. Values are expressed as the mean ± standard deviation of three independent experiments. *P<0.05 and **P<0.01 vs. the NC group. #P<0.05 vs. the control group. LncRNA, long non-coding RNA; PI3K, phosphoinositide 3-kinase; AKT, protein kinase B; mTOR, mechanistic target of rapamycin; HOTAIR, HOX transcript antisense RNA; PI3K, siRNA, small interfering RNA; NC, negative control; siR, small interfering RNA.

Discussion

Breast cancer is the most common cause of cancer-associated mortality among women (1,2) and chemoresistance is a major cause of treatment failure (19,20). Previous research has revealed that drug resistance is associated with DNA repair, aberrant gene expression and epigenetics (21).

LncRNAs have gained increasing attention as they have been reported to be associated with the progression of several types of cancer (22). Previous research has indicated that lncRNAs may be involved in numerous cellular activities and the roles of lncRNAs in various cancer types have been discussed. LncRNA-HOTAIR has been identified as a regulator of trans-silencing (23). A study by Yu et al (24) demonstrated that the knockdown of lncRNA-HOTAIR significantly inhibited MCF-7 cell proliferation and promoted apoptosis (24). The present study revealed that lncRNA-HOTAIR silencing decreased proliferation and increased apoptosis in breast cancer cells, which supports these previous findings.

A previous study has demonstrated that lncRNA-HOTAIR is also involved in regulating the resistance of lung cancer cells to cisplatin (25). Furthermore, previous studies have indicated that the overexpression of HOTAIR promotes the proliferation and enhances doxorubicin resistance in GC and TCC cells; however, HOTAIR silencing exhibits the opposite regulative effects (26,27). In the present study, the expression of multidrug-resistant proteins was significantly decreased by lncRNA-HOTAIR silencing, which also inhibited cell viability and induced apoptosis in DOXR-MCF-7 cells, indicating that the knockdown of lncRNA-HOTAIR decreased DOX resistance in breast cancer cells, which is consistent with previous findings. Furthermore, a previous study demonstrated that lncRNA-HOTAIR silencing suppresses the proliferation and metastasis of osteosarcoma cells by inhibiting the PI3K/AKT/mTOR pathway (28). The results of the present study revealed that the phosphorylation of PI3K, AKT and mTOR were significantly altered in DOXR-MCF-7 cells, which indicated that the knockdown of lncRNA-HOTAIR decreased DOX resistance breast cancer cells by inhibiting the PI3K/AKT/mTOR pathway. Caspase-3, Bcl-2 and Bax serve essential roles in cell apoptosis and tumorigenesis. In the current study, the protein levels of caspase-3, Bcl-2 and Bax were significantly altered by HOTAIR silencing in DOXR-MCF-7 cells, which indicated that the knockdown of lncRNA-HOTAIR promoted apoptosis in DOXR-MCF-7 cells.

In summary, the results of the present study indicated that lncRNA-HOTAIR silencing inhibits cell proliferation and promotes apoptosis in MCF-7 and DOXR-MCF-7 cell lines. Furthermore, the knockdown of lncRNA-HOTAIR reduces DOX resistance in breast cancer cells via the PI3K/AKT/mTOR signaling pathway, indicating that lncRNA-HOTAIR has the potential to become a therapeutic target for the treatment of breast cancer.