Yang Ge1, Pengfei Gu1, Wenbo Wang2, Liyuan Cao1, Lulu Zhang3, Jingquan Li1, Wei Mu1, Hui Wang1,4. 1. State Key Laboratory of Oncogenes and Related Genes, Center for Single-cell Omics, School of Public Health, Shanghai Jiao Tong University School of Medicine, Shanghai 200025, China. 2. Department of Oncology, Shanghai Tenth People's Hospital, School of Medicine, Tongji University, Shanghai 200072, China. 3. Institute of Military Health Management, Second Military Medical University, Shanghai 200433, China. 4. CAS Key Laboratory of Nutrition, Metabolism and Food Safety, Shanghai Institute of Nutrition and Health, Shanghai 200031, China.
Hepatocellular carcinoma (HCC) is the most common type of primary liver cancer (Yang et al., 2019). Large epidemiological studies
have reported that an elevated HCC risk is associated with exposure to ubiquitous
environmental and food contaminants (Niu et al.,
2016), particularly benzo(a)pyrene (B[a]P) intake. Our findings reveal several
unhealthy eating patterns, such as tobacco smoke and consumption of grilled foods (Schutte et al., 2009; Souza et al., 2016). B[a]P is a well-known type of carcinogenic
polycyclic aromatic hydrocarbons, leading to covalent DNA modifications and dysregulation of
gene expression (Ba et al., 2015a). Upon
entering the human body, B[a]P is transported by the blood and lymphatic systems to the
organs, including the liver and intestine where it would deposit. Once it is taken up by
host cells, B[a]P undergoes metabolic activation by generating reactive oxygen species, as
well as regulating toxic metabolites that bind to cellular elements, such as DNA damage.
Exposure to B[a]P may favor the transition of non-alcoholic fatty liver disease (NAFLD) to
liver cancer in obese populations. Furthermore, oral administration of B[a]P leads to
various types of gastrointestinal cancer diseases, particularly liver cancer (Chen et al., 2003; Ba et al., 2015b). Although many studies evaluated the mechanism
of HCC metastasis (Liu et al., 2014), there
are relatively few exploring the association between dietary habits and HCC progression.MicroRNAs (miRNAs) are regarded as a class of small non-coding RNAs that negatively
regulate gene expression primarily through post-transcriptional modifications (Vasuri et al., 2018; Xu et al., 2018). miRNAs are commonly altered in various types of
cancer and they have been functionally implicated in tumor pathogenesis, suggesting that
they are important modulators of tumorigenesis (Chen
et al., 2018). Notably, dysregulation of miRNAs could alter the signaling pathway
cascades via targeting their binding regions that block complementary sequences within
messenger RNA (mRNA) tails, the 3′-untranslated region (3′-UTR). Translational applications
of miRNAs include their use as disease biomarkers, predictors of prognosis, and novel
therapies or treatments. The most exciting application enables potentially disease-specific
individualized therapeutic targeting. For instance, miR-30a promotes the migration and
invasion of liver cancer cells, which indicates the importance of miR-30a in regulating
cancer metastasis (Fu et al., 2018).
Recently, many studies have screened the upregulated or downregulated miRNAs in HCC and
demonstrated that miRNAs play important roles in the metastasis of HCC (Guo et al., 2018; Zhang et al., 2019). However, few studies have evaluated the
roles of miRNAs in liver cancer induced by unhealthy eating practices.In our previous study, we established HCC cell lines by 4-week long-term B[a]P exposure and
figured out that chronic B[a]P exposure did not alter cell growth but promoted cell
migration and invasion both in vitro and in vivo (Ba et al., 2015b, 2016). However, the molecular and toxicological mechanisms
underpinning the role of B[a]P in tumor progression are still uncertain. To further explore
the precise mechanisms in B[a]P-induced HCC metastasis, we used RNA sequencing to screen the
previously established HCC cell lines for dysregulated mRNAs and miRNAs after B[a]P
exposure. We found that miR-650 was upregulated in B[a]P-treated cells, along with enhanced
HCC cell motility. Additionally, we predicted and analyzed the target genes of miR-650. All
the predicted genes were analyzed by Gene Ontology (GO) and protein–protein interaction
(PPI) network systems. The suppressor of cytokine signaling 3 (SOCS3) was finally verified
to be a direct target of miR-650 and responsible for cell motility via regulation of Janus
kinase/signal transducer and activator of transcription 3/interleukin-6 (JAK/STAT/IL-6)
cascades. Our present findings suggest that miR-650 may be an important diagnostic predictor
in B[a]P exposure-correlated liver cancer, which implicates a potential strategy for
improving food safety and public health prevention.
Results
Long-term B[a]P exposure dysregulates mRNAs and miRNAs in HCC cells
To identify mRNAs and miRNAs that were dysregulated by long-term B[a]P exposure, we
performed RNA sequencing to generate mRNA and miRNA profiles of the HCC line 7404 exposed
to 100 nM B[a]P (7404-Bap100) and control 7404 cells. The mRNAs and non-coding RNAs were
selected by their differential expression, with fold change (FC) ≥2.0,
P < 0.05, and false discovery rate (FDR) <0.05.
Using these parameters, we identified 348 and 148 mRNAs upregulated and downregulated,
respectively. Meanwhile, 76 and 109 miRNAs were upregulated and downregulated,
respectively, in 7404-Bap100 cells compared to control cells. The dysregulated genes and
miRNAs were analyzed using a Volcano plot, with red points representing upregulation,
green points representing downregulation, and gray points representing statistically not
significant (Figure 1A). We next analyzed the
dysregulated mRNAs in control and B[a]P-exposed cells through GO and Kyoto Encyclopedia of
Genes and Genomes (KEGG) analyses. GO analysis revealed the most frequent genes and
enriched terms. The profile of annotation consists of biological process, cellular
component, and molecular function. Our results showed that in the category of biological
process, the most dysregulated mRNAs were associated with signal transduction and
regulation of apoptotic process (Figure 1B).
In the KEGG database, main pathways were identified, suggesting enriched terms for
differentially expressed intersection mRNAs in Ras, TNF, and tumorigenesis cascades (Figure 1C; Supplementary Figure S1). To further
investigate the biological functions of mRNAs in B[a]P-exposed HCC cells, we performed a
PPI network analysis using the online STRING tool to support the interplay among
co-expressing genes. Furthermore, Cytoscape3.0 software was used to visualize and generate
predicted PPI networks. As shown in Figure 1D, up- and downregulated mRNA-encoded proteins are coded as orange and
green spots, respectively.
Figure 1
GO, KEGG, and PPI network analyses for functional enrichment in B[a]P-treated HCC
cells. RNA sequencing was performed on 7404 cells and 100 nM B[a]P-treated 7404 cells.
(A) Volcano plot for differentially expressed mRNAs and miRNAs.
(B) GO analysis of differentially expressed genes in categories of
biological process, cellular component, and molecular function. (C) KEGG
analysis of differentially expressed intersection mRNAs for 10 enriched main pathway
terms. (D) PPI network organized by String and visualized by cytoscape
3.0, with orange and green spots representing up- and downregulated mRNA-encoded
proteins, respectively. Both up- and downregulated mRNAs are significantly changed
with FC ≥ 2.0, P < 0.05.
GO, KEGG, and PPI network analyses for functional enrichment in B[a]P-treated HCC
cells. RNA sequencing was performed on 7404 cells and 100 nM B[a]P-treated 7404 cells.
(A) Volcano plot for differentially expressed mRNAs and miRNAs.
(B) GO analysis of differentially expressed genes in categories of
biological process, cellular component, and molecular function. (C) KEGG
analysis of differentially expressed intersection mRNAs for 10 enriched main pathway
terms. (D) PPI network organized by String and visualized by cytoscape
3.0, with orange and green spots representing up- and downregulated mRNA-encoded
proteins, respectively. Both up- and downregulated mRNAs are significantly changed
with FC ≥ 2.0, P < 0.05.
Expression of miRNAs upregulated by B[a]P exposure promotes HCC cell motility
In our previous study, we found that long-term exposure of B[a]P could not affect the
tumor cell growth but significantly facility HCC metastasis (Ba et al., 2015b; Souza
et al., 2016). miRNAs are abundant and play important roles in regulating tumor
cell proliferation, motility, and apoptosis (Vasuri et al., 2018; Tang et al.,
2019). Therefore, we explored the effect of miRNAs on B[a]P-induced HCC cells. To
further identify miRNAs specifically induced by B[a]P exposure, we investigated the
expression of these candidate miRNAs in 7404 and 7404-Bap100 cells by quantitative
real-time polymerase chain reaction (qRT-PCR) analysis (Figure 2A). miR-650, miR-212-5p, and miR-660-3p were highly
expressed in B[a]P-treated cells compared to controls. Then, the mimics of these
upregulated miRNAs were transfected into 7404 cells, and proliferation and migration
assays were performed. The results from the Cell Counting Kit-8 (CCK-8) cell proliferation
assay showed little difference between control and miRNA-overexpressing cells, suggesting
that B[a]P-induced miRNAs have only a slight effect on tumor cell growth (Figure 2B). Notably, 7404 is regarded as a
low-metastatic HCC line, while we had demonstrated that 100 nM B[a]P treatment could
significantly promote tumor cell migration. Thus, we next explored the effect of miRNA
overexpression on tumor cell motility and found that miR-650 mimic displayed the highest
capacity for facilitating cell migration (Figure 2C; Supplementary
Figure S2). Meanwhile, we determined that the metastasis-associated genes, such
as E-cadherin and hepatocyte growth factor were stimulated in miR-650 mimic-transfected
cells (Figure 2D). These results suggested
that miR-650 could be a potent inducer in B[a]P-modulated HCC metastasis.
Figure 2
miR-650 is a potent inducer in B[a]P-promoted HCC cell migration. (A)
Expression levels of miRNAs miR-650, miR-660-3p, and miR-212-5p were determined by
qRT-PCR analysis. (B–D) 7404 cells were transfected with indicated miRNA
mimics or control and analyzed for cell proliferation by CCK-8 assay (B),
cell migration by transwell assay (C), and indicated gene expression by
qRT-PCR analysis (D).
miR-650 is a potent inducer in B[a]P-promoted HCC cell migration. (A)
Expression levels of miRNAs miR-650, miR-660-3p, and miR-212-5p were determined by
qRT-PCR analysis. (B–D) 7404 cells were transfected with indicated miRNA
mimics or control and analyzed for cell proliferation by CCK-8 assay (B),
cell migration by transwell assay (C), and indicated gene expression by
qRT-PCR analysis (D).
miR-650 inhibits SOCS3 expression by directly binding to its mRNA
The interactions between miR-650 and its target mRNAs were predicted via miRDB, miRWalk,
and TargetScan databases, from which a series of common target genes of miR-650 were
selected according to the confidence level and predicted binding site scores (Figure 3A). As shown, SOCS3 (Ogata et al., 2006a) was predicted and selected
as a potential target of miR-650, which may be responsible for B[a]P-induced HCC
metastasis. Interestingly, we also found downregulation of SOCS3 in B[a]P-treated 7404
cells (Figure 1D). Based on that, we explored
whether the dysregulated expression of SOCS3 was associated with miR-650 in liver tumor
cells (Figure 3B). Briefly, the transcription
and protein expression levels of SOCS3 were determined in 7404 cells and miR-650
mimic-transfected cells, respectively. The result showed that miR-650 could significantly
inhibit SOCS3 expression (Figure 3B). We
further performed a luciferase assay to determine the target site of miR-650. The
luciferase vectors containing wild-type or mutant 3′-UTR sequences of SOCS3 mRNA were
constructed as shown in Figure 3C. It was
obvious that luciferase activity decreased markedly in cells co-transfected with the
wild-type binding-site vector in the presence of miR-650. However, cells containing the
mutated binding-site vector did not show such repression (Figure 3C). These results reveal that SOCS3 is a direct target
gene of miR-650 in B[a]P-treated HCC cells.
Figure 3
SOCS3 is a direct downstream target of miR-650. (A) Target gene
prediction of miR-650 with three bioinformatics tools. (B) 7404 cells
were transfected with miR-650 mimics or control. The transcription and protein
expression levels of SOCS3 were determined by qRT-PCR and immunoblotting analyses.
(C) The luciferase vectors containing wild-type (wt) or mutated (mu)
sequences of the binding site between miR-650 and SOCS3 mRNA were constructed.
Relative luciferase activities of 7404 cells with the indicated treatments were
determined. *P<0.05, ***P<0.001.
SOCS3 is a direct downstream target of miR-650. (A) Target gene
prediction of miR-650 with three bioinformatics tools. (B) 7404 cells
were transfected with miR-650 mimics or control. The transcription and protein
expression levels of SOCS3 were determined by qRT-PCR and immunoblotting analyses.
(C) The luciferase vectors containing wild-type (wt) or mutated (mu)
sequences of the binding site between miR-650 and SOCS3 mRNA were constructed.
Relative luciferase activities of 7404 cells with the indicated treatments were
determined. *P<0.05, ***P<0.001.
miR-650 promotes tumor cell motility via the SOCS3/JAK/STAT3 axis
To investigate the effect of SOCS3 inhibition on HCC metastasis, we knocked down SOCS3
expression with small interfering RNAs (siRNAs) in 7404 cells and confirmed the expression
levels of SOCS3 in 7404 + control siRNA (siNC), 7404 + siSOCS3, and 7404-Bap100 cells
(Figure 4A). Then, cell proliferation and
transwell assays were performed in 7404 + siNC and 7404 + siSOCS3 cells. The results
revealed very little change in cell proliferation in the absence of SOCS3 (Supplementary Figure S3) but a great
promotion on cell motility (Figure 4C),
similar to that observed in 7404 cells transfected with miR-650 mimic. Moreover, the
expression levels of metastasis-associated and inflammatory genes were examined by qRT-PCR
and immunoblotting analyses. As shown in Figure 4C
and D, knocking down SOCS3, similar to overexpressing miR-650, enhanced
expression levels of oncogenes and pro-inflammatory genes, which were regarded as targets
of JAK cascades. Furthermore, both transwell migration and immunoblotting assays were
conducted with the miR-650 inhibitor. The miR-650 inhibitor remarkably suppressed the
enhanced transwell migration of 7404-Bap100 cells (Supplementary Figure S4), suggesting that miR-650 mediates the
B[a]P-promoted HCC cell motility. Additionally, overexpression of miR-650 or
downregulation of SOCS3 by siRNA decreased SOCS3 but increased p-JAK and STAT3 expression
levels, while opposite results were obtained when treated with the miR-650 inhibitor
(Figure 4D). All these data indicate that
miR-650 promotes tumor cell motility by mediating SOCS3/JAK/STAT3 signaling
activation.
Figure 4
miR-650 promotes tumor cell motility via SOCS3/JAK/STAT3 signaling axis.
(A) Immunoblotting assay for SOCS3 protein levels in 7404-Bap100,
7404+siSOCS3, and 7404 cells. (B) Migration assay of 7404 cells
transfected with siRNAs targeting SOCS3 or control. (C) qRT-PCR analysis
of 7404 cells transfected with siRNAs targeting SOCS3 or control for indicated genes.
(D) Immunoblotting assays of 7404 cells transfected with siRNAs
targeting SOCS3 or control, miR-650 mimic, and miR-650 inhibitor for indicated
proteins.
miR-650 promotes tumor cell motility via SOCS3/JAK/STAT3 signaling axis.
(A) Immunoblotting assay for SOCS3 protein levels in 7404-Bap100,
7404+siSOCS3, and 7404 cells. (B) Migration assay of 7404 cells
transfected with siRNAs targeting SOCS3 or control. (C) qRT-PCR analysis
of 7404 cells transfected with siRNAs targeting SOCS3 or control for indicated genes.
(D) Immunoblotting assays of 7404 cells transfected with siRNAs
targeting SOCS3 or control, miR-650 mimic, and miR-650 inhibitor for indicated
proteins.
Downregulation of SOCS3 by B[a]P-induced miR-650a correlates with
tumorigenesis
We then explored whether the downregulation of SOCS3 by B[a]P exposure-induced miR-650a
expression correlates with liver cancer progression in patients. First, SOCS3 expression
in liver cancer tissues was much lower than that in normal liver tissues (Figure 5A). Importantly, liver cancer patients
suffering from high-grading metastasis showed obviously lower levels of SOCS3 expression
(Figure 5B). In addition, although there
was no significant difference in overall survival between high- and low-SOCS3 expression
groups, lower expression of SOCS3 still responded to a higher percentage of survival
(Supplementary Figure S5). In
summary, our results suggest a molecular mechanism underlying B[a]P-promoted HCC
metastasis that B[a]P-induced miR-650 downregulates SOCS3, thereby activating JAK and
STAT3 to promote tumor cell motility (Figure 5C).
Figure 5
Downregulation of SOCS3 by B[a]P-induced miR-650 may be associated with metastatic
progression in liver cancer. (A) SOCS3 expression in normal liver tissues
and liver cancer tissues. (B) SOCS3 expression in normal liver tissues
and varying metastasis-grade liver cancer tissues. (C) Proposed schematic
diagram of B[a]P exposure-stimulated miR-650 mediating SOCS3 suppression and JAK
activation to promote tumor cell motility and ultimately metastasis of liver
cancer.
Downregulation of SOCS3 by B[a]P-induced miR-650 may be associated with metastatic
progression in liver cancer. (A) SOCS3 expression in normal liver tissues
and liver cancer tissues. (B) SOCS3 expression in normal liver tissues
and varying metastasis-grade liver cancer tissues. (C) Proposed schematic
diagram of B[a]P exposure-stimulated miR-650 mediating SOCS3 suppression and JAK
activation to promote tumor cell motility and ultimately metastasis of liver
cancer.
Discussion
HCC is regarded as environmental-related cancer, along with chemical carcinogen components
and viral implicated in the multistage process (Tian
et al., 2016). Apart from hepatitis B virus or hepatitis C virus infection,
obesity-induced NAFLD is a spectrum of chronic liver diseases that range from steatosis to
non-alcoholic steatohepatitis and finally to liver cirrhosis or even HCC. Our study explored
the effect of direct exposure to environmental pollution (in the form of an unhealthy
lifestyle) on cellular changes that destabilize genomic integrity (Jepsen et al., 2012; Younossi et al., 2015, 2016).
B[a]P, a polycyclic aromatic hydrocarbon, is one of the ubiquitous environmental pollutants
emitted into the surrounding environment via various manners and has been mostly reported in
the environment and fried foods as a result of incomplete combustion of organic materials,
such as coal, food chain, and cigarette smoke (Conney
et al., 1994; Shi et al., 2010).
B[a]P is a pro-carcinogen and harmful to human beings, which can be converted into reactive
metabolites and contributes to DNA damage (Guo et
al., 2015), potentially causing genomic alterations and tumor progression. Although
B[a]P has been reported to be associated with increased HCC risk worldwide, relatively
little research has been performed to explore the toxicology of long-term exposure to an
environmentally low dose of B[a]P in tumor progression. In this study, we first performed
RNA sequencing on B[a]P-treated HCC cells and demonstrated that the expression of various
mRNAs and miRNAs is dysregulated by B[a]P exposure, which may be associated with HCC
metastasis. We observed high expression of miR-650 and decreased expression of SOCS3, an
important tumor suppressor, in B[a]P-treated 7404 cells. We then showed that miR-650
directly binds to SOCS3 and may regulate the migratory ability of HCC cells via activation
of the JAK/STAT signaling cascade. Furthermore, our analyses suggest that low SOCS3
expression in patients with liver cancer may correlate with tumorigenesis and metastasis,
which has important implications for efficient prevention of cancer progression.Our previous study had demonstrated chronic toxicity of B[a]P with human-derived HCC cell
lines that were subjected to long-term B[a]P exposure at environmental-relevant
concentrations. Although we have determined the biological effects of B[a]P on cancer
metastasis and progression, a better understanding of its underlying adverse outcome pathway
is still unclear. Dysregulated expression of miRNAs is commonly observed in HCC, and these
miRNAs contribute to tumor development acting as either oncogenes or tumor suppressors
(Budhu et al., 2008; Vasuri et al., 2018). Since an individual miRNA can bind to
multiple genes and each mRNA also can be targeted by different miRNAs, it is necessary to
consider the interaction between miRNA and target gene-associated pathways when
investigating the possible functions of miRNAs. The oncogenic role of miR-650 was implicated
in several human malignancies (Farooqi et al.,
2014; Han et al., 2018; Ningning et al., 2019; Tang et al., 2019). For instance, in prostate cancer, the
oncogenic activity of miR-650 is mediated by the downregulation of CSR1 in tumor colony
formation (Zuo et al., 2015). Moreover,
miR-650 is also overexpressed in anaplastic thyroid carcinoma where it enhances cell
migration and invasion through targeting phosphatase 2 catalytic subunit alpha (Orlandella et al., 2019). In this study, we found
high expression of miR-650 and suppression of SOCS3 expression in B[a]P-treated HCC cells,
which strongly suggested the function of miR-650 as an oncogene by targeting SOCS3 in
HCC.Recently, DNA methylation and reduced expression of the SOCS3 gene in HCC patients have
been reported (Ogata et al., 2006a). However,
the role of SOCS3 in HCC development in vivo has not been clarified. In
some types of cancer, the role of SOCS3 seems controversial. Although there are reports of
either increased or decreased SOCS3 expression in breast and prostate cancer, SOCS3
functions as a tumor suppressor in most cancer types including gastric cancer, HCC, and
colon cancer (Rigby et al., 2007; Kershaw et al., 2013). It has been demonstrated
that SOCS3 deletion in the liver resulted in hyperactivation of STAT3 and promoted
chemical-induced liver fibrosis (Ogata et al.,
2006a). HCC often develops in patients suffering from chronic liver injury to
cirrhotic and advanced fibrosis, along with STAT3 and IL-6 activation. Cytokines, including
IL-6, activate the JAK signaling pathway, which is utilized by numerous cytokines and is
critical for the induction of innate and adaptive immunity (Babon et al., 2012, 2014). Cytokine signaling is strictly regulated by SOCS family proteins. Deletion
of the SOCS3 gene in hepatocytes promotes the activation of STAT3, the resistance to
apoptosis, and an acceleration of proliferation, resulting in enhanced hepatitis-induced
hepatocarcinogenesis (Ogata et al., 2006b).
Thus, miR-650-mediated downregulation of SOCS3 expression by B[a]P is generally associated
with poor clinical outcome, metastasis, and aggressive phenotype of liver cancer. Our
exploration of the adverse outcomes due to B[a]P intake and its role in HCC metastasis have
shed light on the toxicological pathway, through which B[a]P acts in HCC progression, and
revealed potential targets for public health prevention strategies.
Methods and materials
Cell lines and regents
Human HCC cell lines, SMMC-7721 and BEL-7404 (7721 and 7404), were obtained from the Cell
Bank of Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, cultured
in RPMI1640 medium supplemented with 10% fetal bovine serum, 100 μg/ml penicillin, and 100
μg/ml streptomycin, and maintained in an incubator with a humidified atmosphere of 5%
CO2 at 37°C. For B[a]P exposure, 7404 cells were co-cultured with 0.01, 1,
and 100 nM B[a]P or 0.1% DMSO for up to 4 weeks. After treatment, B[a]P was withdrawn and
the effects of B[a]P on HCC cells were determined. Cell morphology was observed using an
inverted microscope. CCK-8 (Dojindo) was used to measure cell growth. miRNA mimics and
inhibitors were purchased from Gene Operation. B[a]P, propidium iodide, crystal violet for
migration staining, and other chemicals used in this study were purchased from
Sigma-Aldrich.
RNA isolation and miRNA detection
Total RNA from cultured cells, with efficient recovery of small RNAs, was isolated by
using the mirVana miRNA Isolation Kit (Qiagen). Detection of the mature form of miR-223
was done by using the mirVana qRT-PCR miRNA Detection Kit and qRT-PCR Primer Sets,
according to the manufacturer’s instructions (Qiagen). The U6 small nuclear RNA was used
as an internal control.
Migration and invasion assays
For transwell migration assay, 1 × 105 cells were plated in the top chamber
with the non-coated membrane (24-well insert; 8-mm pore size; Corning Costar). For
invasion assay, 2 × 105 cells were plated in the top chamber with
Matrigel-coated membrane (24-well insert; 8-mm pore size; Corning Costar). In both assays,
cells were plated in a medium without serum. Medium supplemented with serum was used as a
chemo-attractant in the lower chamber. Cells were incubated for 24 h and the cells that
did not migrate or invade through the pores were removed by a cotton swab. Cells on the
lower surface of the membrane were fixed with methanol and stained with hematoxylin.
Luciferase reporter assay
3′-UTR sequences of SOCS3 containing the binding site for miR-650 were cloned into the
pMIR-REPORT luciferase construct (Ambion). Cells of 50% confluence in 24-well plates were
transfected. Firefly luciferase reporter gene construct (200 ng) and 1 ng of the pRL-SV40
Renilla luciferase construct (for normalization) were co-transfected per well. Luciferase
activity was measured after 48 h of transfection by using the Dual-Luciferase Reporter
Assay System (Promega).
Immunoblotting
The total cell lysate was prepared in 1× sodium dodecyl sulfate (SDS) buffer. Proteins
were separated by SDS‒polyacrylamide gel electrophoresis and transferred onto
polyvinylidene difluoride membranes. Membranes were then blotted with individual
antibodies. The bands were visualized by using the enhanced chemiluminescence system
(Amersham Pharmacia Biotech) according to the instructions of the manufacturer.
miRNA mimic transfection
The plasmid vectors encoding miR-650 were constructed and injected into cells. For
in vitro miRNA inhibition studies, 7404 cells were transfected with the
mimic based on the manufacturer’s recommendations. After 48 h of transfection, cells were
plated for migration and invasion assays or harvested for luciferase reporter assay.
Functional enrichment analysis
GO and KEGG functional and pathway enrichment analyses were performed for mRNAs in
prognosis-related coexpression RNA network using the Database for Annotation,
Visualization, and Integrated Discovery bioinformatics resources (DAVID; https://david-d.ncifcrf.gov/), and
P < 0.05 was considered as the cut-off criterion to
screen the enriched terms and pathways.
Establishment of PPI network
To understand the underlying interaction of mRNAs, the STRING website was employed to
construct the PPI network, which was visualized by the Cytoscape software v3.6.1.
Differentially expressed RNA analysis
The analysis and extraction of differentially expressed miRNAs and mRNAs were conducted
and analyzed by using the oncomine (www.oncomine.org),
networkanalyst (www.networkanalyst.ca), and
pathview (www. pathview.uncc.edu) online
databases. |log2FC| > 2 and FDR < 0.05 were considered to be significant. The
expression network profiles of miRNAs and mRNAs were used for subsequent manipulation.
SOCS3 siRNA transfection
The expression vector pcDNA-3.1 SOCS3 was constructed by inserting the SOCS3 open-reading
frame sequence into the pcDNA-3.1 vector (Invitrogen). pSilencer3.0 (Ambion) was used for
the construction of human SOCS3 siRNA vector psi SOCS3 according to the manufacturer’s
protocol. The siRNA transfection into cells was carried out with Lipofectamine 2000
(Invitrogen) according to the manufacturer’s protocol.
Statistical analysis
The value of P < 0.05 was considered as
statistically significant and error bars represent the standard error of the mean (SEM).
All experiments were repeated 3 times and a representative experiment result was shown
with SEM.
Supplementary material
Supplementary material is
available at Journal of Molecular Cell Biology online.
Funding
This work was supported by grants from the National Natural Science Foundation of China
(82173543, 81803269, and 81902939), Shanghai Municipality Health Commission (GWV-10.2-YQ17
and 2019Y0150), Innovative Research Team of High-level Local Universities in Shanghai
(YG2017QN68), and the Major Science and Technology Innovation Program of Shanghai Municipal
Education Commission (2019-01-07-00-01-E00059).Conflict of interest: none declared.Author contributions: W.M., Y.G., and P.G. performed and analyzed experiments.
L.C., W.W., and L.Z. performed the experiments and data analysis. W.M. and Y.G. wrote the
manuscript. J.L. and H.W. corrected the manuscript draft. All authors approved the
manuscript.Click here for additional data file.
Authors: Zhanquan Shi; Nadine Dragin; Marian L Miller; Keith F Stringer; Elisabet Johansson; Jing Chen; Shigeyuki Uno; Frank J Gonzalez; Carlos A Rubio; Daniel W Nebert Journal: Int J Cancer Date: 2010-11-15 Impact factor: 7.396
Authors: Nadia J Kershaw; James M Murphy; Nicholas P D Liau; Leila N Varghese; Artem Laktyushin; Eden L Whitlock; Isabelle S Lucet; Nicos A Nicola; Jeffrey J Babon Journal: Nat Struct Mol Biol Date: 2013-03-03 Impact factor: 15.369