Inhibitor of DNA-binding protein 1 knockdown arrests the growth of colorectal cancer cells and suppresses hepatic metastasis in vivo
- Authors:
- Published online on: May 8, 2014 https://doi.org/10.3892/or.2014.3172
- Pages: 79-88
Abstract
Introduction
As a major public health issue worldwide, colorectal cancer (CRC) is the third most common type of cancers and the second leading cause of death by cancer in the Western world (1). Development of a malignant colorectal tumor is a progressive process with a duration of several years. A series of molecular events and alterations, which involve adhesion molecules, angiogenic factors, chemotactic and growth factors, appear to be responsible for the different stages with invasion and metastatic spread (2). However, the predominant drivers contributing to CRC cell malignancy, such as their migration and invasion to the liver, remain to be determined.
Inhibitors of DNA-binding proteins (ID1, ID2, ID3 and ID4) are characterized structurally as classic basic helix-loop-helix (bHLH) transcription factors but lacking a DNA-binding domain (3). The functional activation of ID proteins is initiated by forming a heterodimer with bHLH transcription factors and then blocking their DNA-binding domain, and as a result, inhibiting transcriptional activity. It is widely accepted that the accumulation of activated ID proteins function as dominant-negative regulators of bHLH transcription factors and are critical for various cellular processes in mammalian cells. ID1 was identified as a modulator of E2A to inhibit the cell cycle (4). Some ID proteins have been shown to neutralize pRB suppression on E2F-DP1 activity to potentiate S phase progression (5,6) and to inhibit cell differentiation in cells (7). Consistent with their functional features, ID genes are expressed abundantly in many proliferating tissues but scarcely in terminally differentiated tissues (8), suggesting their specific role in embryonic development (9).
Along with the important cellular function, dysregulation of ID expression strongly correlates with cancer progression (10,11). Overexpression of IDs is a gene-expression signature in a wide variety of cancers. Therefore, IDs have been recognized as oncogenic or ontogenesis-related factors. ID1 is one of the most extensively investigated members of the ID family. Accumulating evidence has confirmed that ID1 is upregulated in several types of tumors including breast, prostate, lung, gastric, esophageal and colorectal adenocarcinoma (12,13). This increase in ID1 expression appears to be crucial for growth grades, invasive properties and subsequently a poor clinical outcome (13–18). Evidence also indicates that expression of ID proteins, including ID1, correlates with the p53 level and the mitotic index in colorectal tumors (19,20). However, our knowledge concerning the potential roles of ID1 in proliferation, migration and metastasis of colon cancer is limited (20).
In the present study, we knocked down ID1 using lentiviral shRNA to investigate the role of ID1 in CRC cell lines. We investigated whether depletion of ID1 in CRC cells is associated with inhibition of proliferation, migration/invasion and distal metastasis abilities. We also provided evidence that the function of ID1 in regulating colon cancer cell migration was partly through the chemokine receptor CXC chemokine receptor 4 (CXCR4) in the HCT116 cell line.
Materials and methods
Cell culture
Human colon cancer cell lines HCT116 and SW620 were obtained from the Shanghai Cell Bank of the Chinese Academy of Sciences. HCT116 cells were cultured in McCoy’s 5A medium, and SW620 were maintained in L-15 medium supplemented with 10% fetal bovine serum (FBS). Cells were collected when at least 80% confluent for the experiments.
Gene knockdown (KD) and overexpression
All of the shId1 and control plasmids were purchased from Sigma-Aldrich Corp. The human short hairpins used to target ID1 were as follows: 5′-AGTCTCTGGTGACTAGTAG-3′ (shID1-1); 5′-TGAGGCGTGAGTAACAGCC-3′ (shID1-2); 5′-ACCTGCTGCTCGTCCAGCA-3′ (shID1-3) and 5′-CATGTCGTAGAGCAGCACG-3′ (shID1-4). A control shRNA unrelated to the human sequences was used as a negative control. The shRNA vector was co-transfected with packaging vectors pCMV-Dr82 and pCMV-VSVG at a ratio of 4:3:2 into 293T cells using Lipofectamine 2000 reagent (Invitrogen, USA). Polybrene (6 μg/ml; Sigma, USA) was added to the media for viral infection. For generating stable clones, the ID1-KD cells and control vector cells were selected using 1.5 μg/ml puromycin (Merck, Germany) for 3 weeks. The expression of ID1 was routinely detected by western blotting and quantitative real-time RT-PCR. For CXCR4 overexpression, full-length CXCR4 cDNA was cloned into a pcDNA3.0 vector using standard protocols. ID1 stable KD HCT116 cells were transfected with either a pcDNA-CXCR4 or a pcDNA3.0 empty vector using Lipofectamine 2000 reagent.
Flow cytometric analysis
Apoptosis/necrosis was determined using the PE Annexin V Apoptosis Detection Kit I (BD Biosciences), according to the manufacturer’s recommendations. Samples were analyzed by flow cytometry (FACSCalibur; BD Biosciences). The experiments were performed in triplicate and repeated six times.
Proliferation assay
A total of 4×103 HCT116 or 5×104 SW620 cells/well with ID1-KD or control shRNA were seeded in 96-well plates and cultured for 48 h. Cell proliferation was determined using the 3-(4,5-dimethylthiazol-2-yl)-5-(3-carboxymethoxyphenyl)-2-(4-sulfophenyl)-2H-tetrazolium, inner salt (MTS) assay (Promega, Madison, WI, USA) according to the manufacturer’s recommendations.
Wound healing assay and migration/invasion assays
Cells with ID1-KD shRNA or cells with control shRNA were plated in 6-well plates in duplicate at ~80% confluency and allowed to grow overnight. The following day a scratch wound was made through the center of each well using a 10-μl pipette tip. Plates were washed three times with phosphate-buffered saline (PBS), and fresh media were then added to remove any loose cells. After 48 h, the cells were examined by light microscopy to determine resealing of the monolayer.
A Transwell migration assay was performed using 8.0-μm pore insert 24-well plates (Becton-Dickinson AG, Allschwil, Switzerland). Transwell chambers were pre-coated with 1 μg/ml fibronectin on the underside of the membrane. A total of 1×105 HCT116 or 5×105 SW620 cells were plated in a 24-well cell culture insert in 100 μl of FBS-free media. Inserts were then placed in the well with 500 μl of 20% FBS containing media. After 24 h (for HCT116 cells) or 48 h (for SW620 cells), medium and cells in the culture insert were removed. Cells at the bottom side of the insert were methanol-fixed and stained with 0.1% crystal violet. Five random fields were selected, and cells were counted at a ×100 magnification to determine the average number of cells in each insert. The invasion assay was carried out in the same manner except that the 8.0-μm pore size membrane insert was coated with Matrigel (BD Biosciences) that had been diluted in medium (1:5 dilution).
RNA extraction and real-time reverse transcription-PCR
Total RNA from the CRC cells was extracted using the RNeasy Mini kit, according to the manufacturer’s protocol (Qiagen Inc., USA). Total cellular RNA was isolated from the xenografted tumors using TRIzol reagent (Invitrogen). One microgram of total RNA was reverse-transcribed using the Promega Reverse Transcription System A3500 (Promega). Quantitative real-time polymerase chain reaction (qRT-PCR) was run on a LightCycler Roche 480 with DyNAmo Flash SYBR-Green qPCR kit (Thermo Fisher Scientific, USA). The thermocycling program was performed according to the instrument’s manual. Primers for the genes of interest are listed in Table I. For the relative quantification of the mRNA levels, 6 independent amplifications were performed for each target gene, with triplicate samples. β-actin was used as a reference gene to normalize gene expression in each sample. The relative mRNA expression levels were normalized to the level of β-actin mRNA expression (equal 1) in the corresponding samples. The data were presented numerically by the comparative 2−ΔΔCt method.
Western blot analysis
Cells in 6-cm dishes were washed with cold PBS and harvested by scraping following addition of lysis buffer (50 mM HEPES, pH 7.4, 250 mM NaCl, 1% Nonidet P-40, 1 mM EDTA, 1 mM Na3VO4, 1 mM NaF, 1 mM PMSF, 1 mM dithiothreitol and a protease inhibitor cocktail from Roche) for 15 min on ice. The protein concentration was determined by the bicinchoninic acid assay (BCA Protein Assay kit; Pierce, USA). The samples were boiled for 5 min and stored at -20°C until use. Equal amounts of protein were electrophoresed on polyacrylamide gradient gels (10–15%; Bio-Rad Laboratories) and electro-transferred to membranes. After transfer, the membranes were then blocked in 3% bovine serum albumin at room temperature for 2 h. The membranes were then incubated overnight at 4°C with primary antibodies against PCNA, survivin (Abcam Inc., Cambridge, MA, USA), ID1, MMP2 and MMP9, (Santa Cruz Biotechnology, Santa Cruz, CA, USA), CXCR4 (Cell Signaling Technology, Beverly, MA, USA) and β-actin (Santa Cruz Biotechnology). The binding of secondary horseradish peroxidase-conjugated antibodies was visualized by enhanced chemiluminescence (ECL Plus, USA).
Immunohistochemical staining
Immunohistochemistry for detection of target protein (ID1, PCNA, survivin, MMP2, MMP9 and CXCR4) expression in the tumor tissues from mice was carried out using the streptavidin-biotin-peroxidase (SP) staining method. The immunostaining SP kit was purchased from Fuzhou Maxim Biotech Company. Paraffin-embedded sections were deparaffinized by xylene and dehydrated in graded alcohol. To retrieve antigen, the sections were boiled in 10 mM citrate buffer (pH 6.0) for 5 min. The tissue sections were treated with peroxidase blocking agent to block endogenous peroxidase and normal rabbit serum to block non-specific binding sites. The primary antibodies were used at a dilution according to the antibodies manual and were added to adjacent tissue sections and incubated overnight at 4°C. Secondary antibodies were added to the sections and incubated at room temperature for 10 min. S-P complex was added at room temperature for 10 min, DAB was used for the color reaction, and the sections were counterstained with hematoxylin. Stained sections were viewed and photographed using a fluorescence microscope.
Gelatin zymography
Gelatin zymography was carried out on protein extracts from the HCT116 and SW620 cells. Cells were plated at a density of 1×106 in 6-well plates. After 24 h, the cells were washed with PBS and incubated in 1 ml of serum-free medium for 24 h. The conditioned medium was separated on 10% SDS/PAGE with 1 mg/ml gelatin incorporated into the gel mixture. Following electrophoresis at 4°C, the gels were washed 4 times for 15 min each in 2.5% Triton X-100 to remove the SDS and were incubated for 37 h at 37°C in 50 mM Tris, pH 7.5, 10 mM CaCl2, 1 μM ZnCl2 and 150 mM NaCl. Afterwards, the gels were fixed and stained with 0.5% Coomassie blue in 30% isopropanol/10% acetic acid for 1 h, then destained in 30% isopropanol/10% acetic acid. The stain was washed out with water until clear bands were observed.
In vivo nude mouse study
Male nude mice (BALB/c nu/nu), 4–6 weeks old, weighing ~16–19 g, were purchased from the Shanghai SLAC Laboratory Animal Co., Ltd. (Shanghai, China). All experiments were approved by the Animal Ethics Committee of Fujian Medical University. To establish CRC xenografts, six mice received 3×106 control and shID1-KD HCT116 cells in a final volume of 0.1 ml PBS by subcutaneous injection in the right and left groin, respectively. Measurement of the resulting tumor xenografts began when the size was >2 mm in diameter and was carried out thereafter every three days. Tumor volumes were calculated using the following formula: Volume = [length (mm) × width2 (mm2)]/2. Mice were sacrificed 21 days after the injections and immediately weighed.
For the experimental liver metastasis assays, cells were injected into the spleen (5×106 cells/mouse). The mice were placed in the right lateral decubitus position, an incision in the abdominal wall on the left side was made, the spleen was exteriorized, and the cells were injected into the spleen. Mice were sacrificed at day 28. Tumor samples from the site of the tumor injection and from livers (metastasis target organ) were shock-frozen in liquid nitrogen, formalin-fixed and paraffin-embedded.
Statistical analysis
The data represent means ± SD from at least six independent experiments. Statistical analysis was performed with the Student’s t-test at a significance level of P<0.05. All data analyses were conducted by use of the SPSS 20.0 statistical software package.
Results
Downregulation of ID1 decreases proliferation and induces apoptosis
In order to determine the function of ID1 in CRC, we established stable cancer cell lines with ID1 knockdown. To this end, 4 independent lentiviral shRNAs targeting the ID1 gene were evaluated for their knockdown efficiency. Quantitative PCR (qPCR) analysis demonstrated that ID1 transcript in the HCT116 cell line was affected by the different ID1 shRNAs to varying degrees of reduction (50–85%, data not shown). We used the lentivirus containing the most efficient shRNA to infect the HCT116 and SW620 cells and found a robust depletion of ID1 mRNA in both cell lines (Fig. 1A). Subsequently, we generated stable pools of HCT116 and SW620 cells with shID1 and control shRNA. Western blot analysis demonstrated an ~60–70% reduction in ID1 protein in the ID1-KD cells as compared to the control cells (Fig. 1B).
To assess the function of ID1 in the proliferation of CRC cells, we performed an MTS assay to determine the cell proliferation rate in the ID1-KD and control cells. As shown in Fig. 2A, ID1 knockdown in both HCT116 and SW620 cells resulted in a significant decrease in cell proliferation when compared to the controls, suggesting its pivotal role in cell growth. We then aimed to ascertain whether depletion of ID1 induces apoptosis in CRC cells. To detect early and late apoptosis rates in shID1 knockdown CRC cells, the Annexin V-PE and 7-AAD double staining assay was used. The early (Annexin V+/7AAD−) and late apoptosis (Annexin V+/7-AAD+) rates were significantly increased in the ID1-KD cells when compared to these rates in the controls (Fig. 2B). Two genes associated with proliferation (PCNA) and survival (survivin) were examined by real-time PCR and western blotting. Consistent with these observations, the mRNA quantities of PCNA and survivin were significantly decreased in the ID1-KD HCT116 and SW620 cells (P<0.05) (Fig. 2C). Western blotting also confirmed that protein levels of PCNA and survivin were reduced in the ID1-KD cells when compared to the levels in the control cells (Fig. 2D). Collectively, these data indicate that ID1 plays an important role in CRC cell proliferation and apoptosis and downregulation of ID1 forms a limiting factor for growth of these cancer cells.
Downregulation of ID1 reduces motility, migration and invasion capacity of CRC cells
To analyze a possible effect of ID1-KD on the migration of CRC cells, cell migration ability was assessed with a scratch assay. As shown in Fig. 3A, ID1-KD cells migrated through the wound scratch more slowly than the control cells. Migration/invasion capacity was tested by Transwell/invasion assays. We also found a significant decrease in cellular migration/invasion capacity in cells with ID1 knockdown. The decrease in the migration/invasion of ID1-KD cells was statistically significant (P<0.05 vs. control group) (Fig. 3B–D).
MMP2 and MMP9 belong to the gelatinase subfamily of matrix metalloproteinases, which are known to be involved in invasion of cancer cells. We then tested the expression of these markers in the control and ID1-KD cells. Both qPCR and western blot assays revealed that mRNA and protein of MMP2 and MMP9 were significantly decreased in the ID1-KD HCT116 and SW620 cells (Fig. 4A and B). Consistently, gelatin zymography revealed an anticipated decrease in MMP2 and MMP9 activity in the ID1-KD cells compared with the control cells (Fig. 4C). In addition, we examined the alteration in CXCR4 in the ID1-KD cells. CXCR4 is a chemokine receptor closely linked to cancer cell growth, migration and invasion in CRC and other cancer types (23). We found that CXCR4 mRNA and protein levels were concurrently decreased in the HCT116 and SW620 cells with ID1 knockdown (Fig. 4A and B). These results revealed a possible molecular mechanism underlying ID1-mediated cell migration and invasion.
CXCR4 reverses the negative effect of the downregulation of ID1 in regards to migration and invasion of CRC cells
Our data suggest that the attenuation of motility, migration and invasion capacity of CRC cells by ID1 depletion are attributable to the compromised function of MMP proteins and CXCR4. To substantiate this hypothesis, CXCR4, as a representative, was further investigated by using a genetic rescue experiment, in which CXCR4 was compensated by its exogenous protein in ID1-KD HCT116 cells. As shown in Fig. 5A, CXCR4 in the ID1-KD cells was restored to a similar level as that in the controls by transfection of a CXCR4-overexpression vector. Consequently, ID1-KD/CXCR4-overexpressing (OE) cells showed higher motility in the scratch assay than the ID1-KD counterparts (Fig. 5B). Moreover, in the Transwell culture assays, CXCR4 restoration significantly improved migration (Fig. 5C and D) and invasion of ID1-KD cells (Fig. 5E). Although CXCR4 rescue did not fully reverse the effect of ID1 knockdown, this partial rescue function in regards to the migration and invasion capacity indicated that CXCR4 indeed played an important role in the altered tumor cell motility by ID1 knockdown. This finding also suggests that other factors are likely to orchestrate this process.
Downregulation of ID1 inhibits tumor growth of HCT116 cells in a xenograft mouse model in vivo
The effects of ID1 knockdown on tumor growth in vivo were first investigated in a subcutaneous tumor model using HCT116 cells. In agreement with the in vitro findings, ID1-KD cells formed smaller tumors than the control cells (Fig. 6A–D). The effect of shId1 on the silencing of the Id1 gene in the xenografted tumors was evaluated by real-time PCR and immunohistochemical analysis. As shown in Fig. 6E and F, a >50% ID1 mRNA and protein reduction was found in the ID1-KD tumors compared with the controls (P<0.05). In addition, PCNA and survivin mRNA levels were significantly decreased in the xenografted tumors (P<0.05). The protein levels of PCNA and survivin assayed by immunohistochemistry were also decreased in the ID1-KD tumor sections (Fig. 6F).
Downregulation of ID1 inhibits metastasis of HCT116 cells in a liver metastasis mouse model
Next, we evaluated the effect of ID1 on the in vivo liver metastasis of HCT116 KD tumors. In line with our in vitro findings, both qPCR and immunohistochemistry showed decreased MMP2, MMP9 and CXCR4 mRNA and protein in the ID1-KD subcutaneous tumors compared to the control group (Fig. 7A and B). We implanted HCT116 cells into the spleen which led to tumor growth in the spleen and metastasis to the liver. Twenty-eight days after tumor cell injection, all animals in the control group developed liver metastases (10/10). In contrast, only 6/10 animals in the ID1-KD group developed liver metastases that were barely visible (P<0.05). As compared to the vector control, ID1 profoundly suppressed liver metastases in the mice (Fig. 7C and D).
Discussion
The principal finding in the present study was that knockdown of ID1 protein expression correlates with the growth arrest of CRC cell lines and the suppression of hepatic metastasis of CRC tumors in a mouse model. The study also emphasized the role of ID1/CXCR4 as a positively regulatory axis required for CRC cell proliferation and migration and tumor invasion. This finding is consistent with these of recent reports on the inhibitive effect of ID1 and ID3 gene downregulation on CRC hematogenous metastasis at the early stage of the tumor (21). The results imply that the ID1 gene could be a therapeutic target for CRC. Our present study indicated that ID1 knockdown caused reduced proliferation and induced apoptosis of CRC cells in vitro and restrained tumor growth in vivo. This can be interpreted along with recent studies of the tumorigenic effect of ID1 in keratinocytes (22) and in a variety of human tumors (23,24), which suggest that an elevated ID1 protein level may promote cell proliferation, inhibit cellular apoptosis, and repress differentiation, thereby leading to the onset and progression of CRC.
Since survivin was reported to be a downstream regulator in the ID1/PI3K/Akt/NF-κB/survivin signaling pathway for endothelial progenitor cell proliferation, and CRC tumor growth and malignant metastasis (25,26), the fact that ID1 knockdown induced a decrease in survivin expression, may indicate that activation of survivin is a consequence of the expression of ID1 in CRC cell lines. It has been suggested that PCNA is a proliferation marker of tumors and is critical for DNA synthesis (27). We showed that ID1 knockdown decreased PCNA expression at both the mRNA and protein levels. However, no significant change in the cell cycle was noted following ID1 knockdown (data not shown). Thus, there may be alternative mechanisms that remain to be identified in the stabilization of DNA synthesis. To some extent, these results, together with previous studies, imply that modulation of ID1 expression positively interferes with the functions of PCNA and survivin and subsequently inhibits tumor growth and invasion in CRC.
Many reports have addressed the role of ID1 in tumor metastasis. For example, ID1 was found to elevate the expression of epithelial mesenchymal markers in nicotine and EGF-induced proliferation, migration and invasion of non-small cell lung cancer (23). Similarly, ID1 was found to be positively associated with the migratory and invasive features of breast cancer cells by enhancing epithelial-mesenchymal-like markers (28). A clinical observation indicated that ID1 expression was strongly associated with lymph node metastasis in patients with CRC (13). Our results support recent study by O’Brien et al (20) who demonstrated a significant reduction in tumor growth and hepatic metastatic burden following double-gene ID1 and ID3 knockdown in CRC cell lines in a mouse model. We also found that ID1 knockdown suppressed the expression and activity of the matrix metalloproteinases, MMP2 and MMP9, in vitro, suggesting that ID1-KD may protect against angiogenic destruction of the extracellular matrix of regional blood vessels during adjacent and distal invasion and metastasis (29–31). ID1 knockdown induced suppression of angiogenesis may likely be explained in part by the ID1/NF-κB/MMP-2 or ID1/PI3K/Akt signaling pathways identified in ovarian cancer (32) and integrins (α3, α6 and β1)/laminin adhesion in pancreatic cancer (33).
Another finding of the present study indicated that gross overexpression of CXCR4 reversed the ID1 knockdown-suppressive effects on cell proliferation and metastasis. Metastasis-related molecular events have been explored in several studies (34–36) of which one of the chemokine family members, CXCR4, was significantly higher in liver metastasis compared with primary CRC tumor tissue and was found to correlate with reduced overall median patient survival after liver metastasis (34). In addition, a specific ligand of CXCR4, stromal cell-derived factor-1 (SDF-1), was found to highly express in tumor-adherent stromal cells of metastatic organs such as the liver, lung and lymph nodes (36). Notably, we demonstrated both in vitro and in vivo, significant reductions in CXCR4 expression and hepatic metastasis burden of CRC cells following inactivation of ID1. The fact that overexpression of CXCR4 largely restored the migration and invasion capacities of the HCT116 ID1 knockdown cells, probably represents a positive loop of feedback underlying the interaction of ID1 and CXCR4 in CRC migration and invasion ability. Taken together, the present data suggest that highly enforced expression of ID1 causes CRC cell growth arrest and retards metastatic progression in a CXCR4-dependent manner.
In summary, our studies in vitro and in vivo confirmed the regulatory role of ID1 in the proliferation and metastasis of CRC. The findings provide initial evidence that downregulation of ID1 reduces CRC migration and invasion partly through reduced CXCR4 expression in tumor cells, suggesting the rationale of the ID1 protein as a clinical target of CRC treatment. In order to elucidate its oncogenic function, additional studies are needed to explore the network of ID1 within CXCR4/CD133-related stromal self-renewal in CRC malignancy (37).
Acknowledgements
This study was supported by a grant from the National Natural Science Foundation of China (grant no. 81250002). We would like to thank Professor Xin Lin for his expert suggestions in experiments.
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