LINC00514 promotes lipogenesis and tumor progression in esophageal squamous cell carcinoma by sponging miR‑378a‑5p to enhance SPHK1 expression.

Increasing evidence has demonstrated that long non‑coding RNAs serve pivotal roles in tumor development, progression, metastasis and metabolism. However, to the best of our knowledge, the roles and molecular mechanisms of long intergenic nonprotein‑coding RNA 00514 (LINC00514) in esophageal squamous cell carcinoma (ESCC) remain unknown. The present study found that LINC00514 and sphingosine kinase 1 (SPHK1) were both upregulated in ESCC tissues and cells, and their high expression levels were closely associated with Tumor‑Node‑Metastasis stage, lymph node metastasis and poor prognosis of patients with ESCC. Functionally, knockdown of LINC00514 inhibited cell proliferation and invasion, and led to the downregulation of lipogenesis‑related proteins, including SPHK1, fatty acid synthase, acetyl‑coenzyme (Co)A carboxylase α and stearoyl‑CoA desaturase 1, whereas LINC00514 overexpression promoted cell proliferation and invasion in ESCC KYSE150 and KYSE30 cells, and upregulated expression of lipogenesis‑related proteins. Mechanistically, LINC00514 functioned as a competing endogenous RNA by sponging microRNA (miR)‑378a‑5p, resulting in the upregulation of SPHK1, which was accompanied by the activation of lipogenesis‑related pathways, to promote ESCC cell proliferation and invasion. Taken together, these findings suggest that LINC00514 may participate in ESCC lipogenesis, and targeting the LINC00514/miR‑378a‑5p/SPHK1 signaling axis may be a novel and promising therapeutic strategy for management of patients with ESCC.

Introduction

Esophageal cancer (ESCA), as one of the most lethal malignant tumors of the digestive tract, exhibits rapid proliferative ability and early metastatic potential, and its incidence is gradually increasing worldwide (1,2). ESCA presents as two primary histological types: i) Esophageal squamous cell carcinoma (ESCC) and; ii) esophageal adenocarcinoma (3). ESCC, the predominant histological type, accounts for >80% of all cases of ESCA (4), particularly in the Henan province of China (5,6). Despite significant progress in the molecular targeted therapy and other strategies of management, the 5-year survival rate of patients remains low (15-25%) (7,8). Therefore, there remains an urgent need to further understand the pathogenesis of ESCC and to identify early biomarkers for the diagnosis and therapy of ESCC, which will provide novel opportunities for the treatment of patients with ESCC.

Long non-coding RNAs (lncRNAs) are a class of transcripts >200 nucleotides in length without protein coding potential (9). Increasing evidence has demonstrated that lncRNAs are closely implicated in numerous tumor phenotypes through a variety of molecular mechanisms, including transcriptional regulation, epigenetic modification, microRNA (miRNA/miR) sponging and RNA decay (10-12). With the rapid development of sequencing and molecular biology tech- nologies, multiple ESCC-related lncRNAs have been identified, including lncRNA H19 (13), cancer susceptibility 9 (14,15) and fragile X mental retardation 1-antisense RNA 1 (16), which have been widely implicated in the development and progression of ESCC via various mechanisms. Current data suggest that lncRNAs may constitute novel, promising biomarkers and therapeutic targets for patients with ESCC.

Long intergenic non-protein coding RNA 514 (LINC00514) is localized at chromosome 16p13.3, and it is 3,221-bp long (17). LINC00514 has been reported to be closely associated with the development and progression of tumors, including osteosarcoma (18), papillary thyroid cancer (19) and neuroendocrine prostate cancer (20). Sphingosine kinase 1 (SPHK1) is localized at chromosome 17q25.1, and it has been shown to participate in lipogenesis and tumor progression in a variety of tumors (21-23). However, to the best of our knowledge, the roles and molecular mechanisms of LINC00514 in ESCC remain to be investigated.

The present study investigated the expression and correlation of LINC00514 and SPHK1 in ESCC tissues and cells, and determined the clinical value of LINC000514 and SPHK1 in Tumor-Node-Metastasis (TNM) stage, lymph node metastasis and prognosis of patients with ESCC. Functionally, the roles of LINC00514 in cell proliferation, invasion and lipogenesis were explored. Mechanistically, the present study demonstrated the competing endogenous (ceRNA)-mediated mechanism of LINC00514, through its ability to absorb miR-378a-5p to promote SPHK1 expression and lipogenesis in ESCC cells, further promoting the proliferation and invasion of these cells. Taken together, the present data highlighted the role of LINC00514 in ESCC proliferation, invasion and lipogenesis, and identified a novel lipogenesis-related pathway based on LINC00514 and LINC00514/miR-378a-5p/SHPK1 signaling in ESCC cells. Therefore, the LINC00514/miR-378a-5p/SHPK1 signaling axis identified in the current study may be a novel and promising therapeutic target for patients with ESCC.

Materials and methods

Tissue samples

A total of 85 ESCC and corresponding normal tissues were obtained from The First Affiliated Hospital of Zhengzhou University (Zhengzhou, China).

The age range of all the patients was 41-85 years, and the median age was 64 years old. The clinicopathological features of the patients with ESCC enrolled in the present study were as follows: i) Sex: Male, 55 cases vs. female, 30 cases; ii) age: <60 years old, 38 cases vs. ≥60 years old, 47 cases; iii) smoking history: Smoker, 41 cases vs. non-smoker, 44 cases; iv) alcohol consumption: Drinker, 49 cases vs. non-drinker, 36 cases; v) tumor diameter, <4 cm, 51 cases vs. ≥4 cm, 34 cases; differentiation degree: High/moderate differentiation, 52 cases vs. poor differentiation, 33 cases; vi) TNM stage (24): I-II, 55 cases vs. III-IV, 30 cases; and vii) metastasis status: Lymph node metastasis, 28 cases vs. absence of lymph node metastasis, 57 cases.

Tumor tissue samples were confirmed as ESCC using hematoxylin and eosin staining by experienced pathologists at The First Affiliated Hospital of Zhengzhou University as routine. Informed consent for the use of all samples in the present study was obtained from each patient, and the study was approved by the Research and Ethics Committee of The First Affiliated Hospital of Zhengzhou University.

Public database analysis

starBase version 3.0 online soft- ware based on The Cancer Genome Atlas (TCGA) database was used to investigate the expression levels of LINC00514, SPHK1 and miR-378a-5p in patients with ESCA and healthy individuals (starbase.sysu.edu.cn/panCancer.php), and the P-value of differential expression was directly obtained from the website. Gene Expression Profiling Interactive Analysis (GEPIA) was employed to determine SPHK1 expression. The Gene Expression Omnibus (GEO) dataset, GSE111011, was used to assess the expression of SPHK1 in 7 cases of ESCC and paired normal samples, whereas the GSE43732 was used to analyze the expression of miR-378a-5p in 119 cases of ESCC and paired normal samples. LncBase Predicted v.2 (carolina.imis.athena-innovation.gr/diana_tools/web/index.php?r=lncbasev2/index-predicted) (25) was used to predict the binding site of LINC00514 and miR-378a-5p. TargetScan (targetscan.org/vert_71/) and miRDB (mirdb.org/) were employed to predict the down- stream target genes of miR-378a-5p.

Cell lines and culture

Human ESCC cell lines (Eca109, KYSE150, KYSE30, KYSE450 and KYSE70) and normal esophageal epithelial Het-1A cells were obtained from The Cell Bank of Type Culture Collection of The Chinese Academy of Sciences, and were maintained in RPMI-1640 medium supplemented with 10% FBS (Gibco; Invitrogen; Thermo Fisher Scientific, Inc.) in a humidified incubator with 5% CO2. All cells were routinely tested and verified as negative for mycoplasma.

Cell transfection

LINC00514 small interfering RNA (siRNA)s 1, 2 and 3 were designed and chemically synthesized by Guangzhou RiboBio Co., Ltd. miR-378-5p mimic, negative control (NC) mimic, miR-378a-5p inhibitor and NC inhibitor were purchased from Shanghai GenePharma Co., Ltd. SPHK1 siRNA was purchased from Santa Cruz Biotechnology, Inc. pcDNA3.1 and pcDNA3.1-LINC00514/SPHK1 were constructed by TsingKe Biological Technology.

The aforementioned constructs were transfected into KYSE150 and KYSE30 cells using Lipofectamine® 2000 (Invitrogen; Thermo Fisher Scientific, Inc.) according to the manufacturer's protocol.

Cell Counting Kit-8 (CCK-8) assay

The proliferation of ESCC KYSE150 and KYSE30 cells was assayed in triplicate according to the manufacturer's protocol. Briefly, KYSE150 and KYSE30 cells (~2×103 cells/well) were seeded into 96-well plates. At the time of measurement, CCK-8 reagent (Beyotime Institute of Biotechnology) was added to the wells, and the absorbance value at 450 nm was determined using a microplate reader (Thermo Fisher Scientific, Inc.) to evaluate the proliferative ability of KYSE150 and KYSE30 cells.

Transwell assay

Cell invasion was determined using Transwell chambers coated with Matrigel (BD Biosciences). Briefly, the transfected KYSE150 and KYSE30 cells (1×105 cells) were seeded in the upper layer of the chamber, whereas the bottom chamber contained 20% FBS. A total of 48 h after seeding, the cells that had invaded were fixed using methanol for 30 min at room temperature, and then stained with 0.1% of crystal violet for 15 min at room temperature. Finally, the number of invasive cells was determined using a light microscope (Leica Microsystems, Inc.) (magnification, ×200).

Reverse transcription-quantitative PCR (RT-qPCR)

Total RNA was isolated using TRIzol® (Invitrogen; Thermo Fisher Scientific, Inc.) according to the manufacturer's instructions. For mRNA analysis, RT-qPCR was performed using a Quant One Step qRT-PCR kit (SYBR Green; cat. no. FP303; Tiangen Biotech Co., Ltd.) on an ABI 7500 series PCR system (Applied Biosystems; Thermo Fisher Scientific, Inc.) using the following specific primers: LINC00514 forward 5'-CAT CCA GAT TTG GGC CCC TT-3' and reverse, 5'-CAT GCC TGA CCA CGA ATC CT-3' (product length, 231 bp); SPHK1 forward, 5'-CAG TGG TCG GTT GCG GAC-3' and reverse, 5'-GCA CGT GAC TCC GGA AGA G-3' (product length, 150 bp); and GAPDH forward, 5'-TCA TCA TCT CTG CCC CCT CT-3' and reverse 5'-GAT GGC ATG GAC TGT GGT CA-3' (product length, 188 bp). The thermocycling conditions were: 95°C 30 sec; followed by 30 cycles of 95°C for 5 sec, 50°C for 30 sec and 72°C for 30 sec. The results were normalized to GAPDH using the 2−∆∆Cq method (26).

For miR-378a-5p analysis, total RNA was reverse transcribed using a miRcute Plus miRNA First-Strand cDNA kit according to the manufacturer's protocol (Tiangen Biotech Co., Ltd.). qPCR amplification for miR-378a-5p was performed using the miRcute Plus miRNA qPCR kit (SYBR Green) (Tiangen Biotech Co., Ltd.) and the following specific forward primers along with the reverse primers from the kit: miR-378a-5p forward, 5'-CTC CTG ACT CCA GGT CCT G TG T-3' and U6 forward, 5'-CTC GCT TCG GCA GCA CA-3'. The thermocycling conditions were: 95°C for 30 sec; followed by 40 cycles of 95°C for 5 sec and 60°C for 30 sec. The results were normalized to GAPDH using the 2−∆∆Cq method.

Subcellular fractionation

A Cell Nucleus and Cytoplasm RNA Isolation kit (Shaanxi Yuan Beibei Biological Technology Co., Ltd.) was used to extract the nuclear and cytoplasmic RNA according to the manufacturer's instructions. Briefly, KYSE150 and KYSE30 cells (3×107 cells) were harvested by centrifugation at 2,000 × g for 10 min at room temperature, and washed with ice-cold PBS. Cells were then resuspended in 300 µl PBS and centrifuged at 3,000 × g for 10 min at 4°C. The supernatant was obtained as the cytoplasmic fraction. The precipitate was collected and resuspended in 300 µl PBS and then centrifuged at 3,000 × g for 10 min at 4°C. The precipitate was collected as the nuclear fraction.

Total RNA was isolated using TRIzol®. Finally, the cytoplasmic and nuclear RNA was reverse transcribed to cDNA using a PrimeScript™ RT kit with gDNA Eraser (cat. no. RR047A; Takara Bio, Inc.) according to the manufacturer's protocol, were further investigated using RT-qPCR utilizing LINC00514, U6 and GAPDH-specific primers as described above. GAPDH and U6 were used as cytoplasmic and nuclear controls, respectively.

Fluorescence in situ hybridization (FISH) assay

LINC00514 probe (NR_033861.1, 5'-AAC GGA CCG GGA ACC CAG CCA GGT CGG GGC CGA AGG GGC TGG GGT GGC TGGGGGAG A-3') was synthesized and labeled using cyanine 3 (Cy3) by Shanghai GenePharma Co., Ltd. FISH assays were performed using an RNA FISH kit (Shanghai GenePharma, Co., Ltd.) according to manufacturer's instructions. Briefly, KYSE150 and KYSE30 cells were grown in 24-well plates with glass cover slips for 24 h. After immobilization using 4% paraformaldehyde for 15 min at room temperature and permeabilization using Triton X-100 for 15 min at room temperature, KYSE150 and KYSE30 cells were hybridized with 20 µM Cy3-labeled LINC00514 probe, and DAPI was used to stain the nuclei of KYSE150 and KYSE30 cells for 10 min in dark at room temperature. Images were observed using a fluorescence microscope (magnification, ×200).

Dual luciferase reporter assay

Dual luciferase reporter assays were performed to determine the interaction of miR-378a-5p with LINC00514 or SPHK1 in KYSE150 and KYSE30 cells. Recombinant vectors, pmirGLO-LINC00514-wild type (WT) and pmirGLO-LINC00514-mutant (MUT), as well as pmirGLO-SPHK1-WT and pmirGLO-SPHK1-MUT (all from TsingKe Biological Technology) along with miR-378a-5p mimic and NC mimic were co-transfected into KYSE150 and KYSE30 cells using Lipofectamine® 2000. Luciferase activity was determined using the Dual-Luciferase Reporter assay system (Promega Corporation) 48 h after transfection according to the manufacturer's protocol.

RNA immunoprecipitation (RIP) assay

RIP assay was performed in KYSE150 and KYSE30 cells using an RNA-Binding Protein Immunoprecipitation kit (MilliporeSigma) according to the manufacturer's protocol. Briefly, RIP lysates were prepared from KYSE150 and KYSE30 cells transfected with miR-378a-5p mimic or NC mimic using a Magna RIP™ RNA-binding Protein Immunoprecipitation kit (cat. no. 17-700; MilliporeSigma) by centrifugation at 1,000 × g for 5 min at 4°C. Subsequently, 100 µl lysate was subjected to IP using 5 µl normal mouse IgG or 5 µl anti-argonaute (Ago)2 antibody in the kit. The presence of LINC00514 or SPHK1 and miR-378a-5p enriched on beads was determined using RT-qPCR with the corresponding specific primers.

Western blotting

Total protein was extracted from ESCC cells using RIPA lysis buffer (Beijing Solarbio Science & Technology Co., Ltd.), and the protein concentration was determined using a Bradford assay. The proteins (100 µg/lane) were loaded on 10% SDS-gels, resolved using SDS-PAGE and then transferred to PVDF membranes (MilliporeSigma). After blocking with skimmed milk for 2 h at room temperature, the membranes were incubated with primary antibodies against SPHK1 (cat. no. ab109522; 1:1,000), fatty acid synthetase (FASN) (cat. no. ab128870; 1:10,000), acetyl-CoA carboxylase α (ACACA) (cat. no. ab109368; 1:1,000), stearoyl-CoA desaturase 1 (SCD1) (cat. no. ab236868; 1:1,000) and β-actin (cat. no. ab115777; 1:200) (Abcam) overnight at room temperature. Subsequently, a secondary horseradish peroxidase-conjugated AffiniPure goat anti-rabbit IgG (AmyJet Scientific Inc.; cat. no. 111-035-003; 1:20,000) was added to the PVDF membranes. Finally, enhanced chemiluminescence reagent (Beyotime Institute of Biotechnology) was used to visualize the signals, and the quantification of the blots was analyzed using ImageJ version 1.8.0 (National Institutes of Health).

Statistical analysis

GraphPad Prism version 8.0 (GraphPad Software, Inc.) was used to analyze the experimental data, which are presented as the mean ± standard deviation. The association between LINC00514, SPHK1, miR-378a-5p and the clinicopathological features were investigated using a χ2 test. Survival analysis was performed using a log-rank test. Spearman's rank correlation analysis was used to analyze the non-parametric data, and Pearson's correlation coefficient analysis was used to examine the parametric data. For the matched samples, the data was analyzed using a Wilcoxon signed rank test, and for non-matched samples, the data was compared using a Mann-Whitney U test. Comparisons between two groups were determined using a Student's t-test, whereas comparisons between ≥3 groups were analyzed using a one-way ANOVA with a Dunnett's or Tukey's post hoc test to assess the difference between two groups. P<0.05 was considered to indicate a statistically significant difference.

Results

Upregulated expression of LINC00514 in ESCC tissues is predictive of a poor prognosis

To explore the expression pattern of LINC00514 in ESCA tissues, starBase and RT-qPCR assays were used to determine the expression of LINC00514 in ESCA tissues. Data from starBase revealed that ESCA tissues exhibited higher expression levels of LINC00514 compared with those of normal samples (P<0.05; Fig. 1A). Furthermore, RT-qPCR analysis showed that the expression of LINC00514 in the 85 ESCC tissues was also higher compared with that of the paired normal samples (P<0.0001; Fig. 1B). Notably, patients with ESCC and high LINC00514 expression exhibited a lower survival rate than those with low LINC00514 expression (Fig. 1C).

Figure 1

Expression and prognostic value of LINC00514 and SPHK1 in ESCC. (A) starBase was used to investigate the expression of LINC00514 in 162 esophageal cancer samples and 11 normal samples. (B) Reverse transcription-quantitative PCR was used to evaluate the expression levels of LINC00514 in 85 ESCC and paired normal samples using a Wilcoxon signed rank test. ****P<0.0001. (C) A log-rank test was used to analyze the effects of LINC00514 expression on the survival rate of patients with ESCC. (D) Gene Expression Profiling Interactive Analysis online software analysis of SPHK1 level in 182 ESCA and 13 normal samples. (E) starBase analysis was performed to determine the expression of SPHK1 in 162 ESCA and 11 normal samples. (F) The GSE111011 Gene Expression Omnibus dataset was used to detect the levels of SPHK1 in seven ESCC and paired normal samples using paired a Student's t-test. *P<0.05. (G) Reverse transcription-quantitative PCR assay was used to determine the SPHK1 levels in 85 ESCC and paired normal samples, and the data was analyzed using a Wilcoxon signed rank test. (H) SPHK1 protein expression in four randomly selected paired tissues. β-actin was used as the loading control. (I) SPHK1 protein expression in ESCC cell lines (Eca109, KYSE150, KYSE30, KYSE450 and KYSE70) and the normal esophageal epithelial cell line Het-1A. β-actin was used as a loading control. (J) Spearman's rank correlation analysis of the correlation between LINC00514 and SPHK1 expression in the 85 ESCC and paired normal samples. (K) Log-rank analysis of the effect of SPHK1 expression on the survival rate of patients with ESCC. ****P<0.0001. LINC00514, long intergenic nonprotein-coding RNA 00514; ESCC, esophageal squamous cell carcinoma; SPHK1, sphingosine kinase 1; ESCA, esophageal cancer; T, tumor; N, normal.

In addition, it was found that LINC00514 was frequently upregulated in 13 other tumor types and downregulated in two other tumor types, including kidney chromophobe (KICH) and lung squamous cell carcinoma (Fig. S1). These data suggest that LINC00514 is closely associated with tumor development and progression in ESCC, and it may be a novel prognostic predictor for patients with ESCC.

Upregulated expression of SPHK1 in ESCC tissues

To analyze the expression pattern of SPHK1 in ESCA tissues, data from TCGA and GEO, as well as from the RT-qPCR analysis were used to determine the expression of SPHK1 in ESCA tissues. GEPIA online software showed that SPHK1 expression in ESCA tissues was significantly higher than that in normal tissues (P<0.05; Fig. 1D), which was consistent with the data from starBase online software and the GEO dataset, GSE111011 (Fig. 1E and F).

Further analysis of the 85 cases of ESCC and corresponding normal tissues demonstrated that SPHK1 expression in ESCC tissues was markedly higher than that in paired normal tissues (P<0.0001; Fig. 1G), which was further validated in four randomly selected ESCC and paired normal tissues (Fig. 1H) as well as in a number of ESCC cell lines (Fig. 1I).

To further elucidate the correlations between LINC00514 and SPHK1, Pearson's correlation analysis was used, which revealed that LINC00514 expression exhibited a positive correlation with SPHK1 expression in the 85 ESCC tissues (Fig. 1J). Importantly, patients with ESCC who had a high SPHK1 expression level exhibited reduced survival rates compared with those of patients with ESCC who had low SPHK1 expression (Fig. 1K). In addition, SPHK1 expression levels were higher in 13 other tumor types compared with those in the respective paired normal tissues, whereas it was only downregulated in KICH (Fig. S2). These findings suggest that SPHK1 may function as an oncogene in different tumor types, particularly in ESCC, and may be a novel prognostic predictor for patients with ESCC.

Association between LINC00514 and SPHK1 expression levels with the clinicopathological features in patients with ESCC

To unveil the possible biological functions of LINC00514 and SPHK1 in ESCC, the present study further investigated the associations between the expression levels of LINC00514 and SPHK1 and the clinicopathological features. It was found that the expression of LINC00514 and SPHK1 was closely associated with TNM stage and lymph node metastasis in patients with ESCC, but was not associated with patients' sex, age, smoking history, alcohol consumption, tumor diameter or degree of differentiation (Tables I and II). These findings suggest that LINC00514 and SPHK1 may participate in the progression and metastasis of ESCC.

Table I

Associations between LINC00514 expression and the clinicopathological features of the patients with ESCC.

Features	n	LINC00514 expression		χ2	P-value
		+	−
Sex				2.172	0.141
Male	55	33	22
Female	30	13	17
Age, years				1.261	0.262
<60	38	18	20
≥60	47	28	19
Smoking				1.500	0.221
Yes	41	25	16
No	44	21	23
Drinking				1.196	0.274
Yes	49	29	20
No	36	17	19
Tumor diameter, cm				1.335	0.248
<4	51	25	26
≥4	34	21	13
Differentiation degree				1.968	0.161
High/moderate	52	25	27
Poor	33	21	12
Tumor-Node-Metastasis stage				4.710	0.030a
I-II	55	25	30
III-IV	30	21	9
Lymph node metastasis				5.039	0.025a
Yes	28	20	8
No	57	26	31

P<0.05.

Table II

Associations of SPHK1 expression with the clinicopathological features of patients with ESCC.

Features	n	SPHK1 expression		χ2	P-value
		+	−
Sex				0.526	0.468
Male	55	32	23
Female	30	15	15
Age, years				1.746	0.186
<60	38	18	20
≥60	47	29	18
Smoking				0.337	0.562
Yes	41	24	17
No	44	23	21
Drinking				1.646	0.200
Yes	49	30	19
No	36	17	19
Tumor diameter, cm				2.031	0.154
<4	51	25	26
≥4	34	22	12
Differentiation degree				0.616	0.433
High/moderate	52	27	25
Poor	33	20	13
Tumor-Node-Metastases stage				8.567	0.003a
I-II	55	24	31
III-IV	30	23	7
Lymph node metastasis				6.559	0.010a
Yes	28	21	7
No	57	26	31

P≤0.01.

LINC00514 promotes the proliferation and invasion of ESCC cells by regulating lipogenesis-related proteins

In order to reveal the biological functions of LINC00514 in ESCC, RT-qPCR was used to detect the expression of LINC00514 in a number of ESCC cell lines. It was found that all ESCC cell lines exhibited higher levels of LINC00514 expression compared with the Het-1A cells, a normal esophageal epithelial cell line (all P<0.0001; Fig. 2A), which was consistent with the data derived from the ESCC tissues.

Figure 2

LINC00514 Knockdown suppresses the proliferation, invasion and expression of lipogenesis-related proteins in ESCC cells. (A) Reverse transcription-quantitative PCR assay of LINC00514 expression in various ESCC cell lines, including Eca109, KYSE150, KYSE30, KYSE450 and KYSE70 as well as in the normal esophageal epithelial Het-1A cell line. Data were compared using an ANOVA followed by a post hoc Dunnett's test. *P<0.05, **P<0.01, ***P<0.001 vs. Het-1A. (B) Three siRNAs specific for LINC00514 significantly downregulated the expression of LINC00514 in KYSE150 and KYSE30 cells. Data were compared using an ANOVA followed by a post hoc Dunnett's test. (C-E) LINC00514 siRNA2 suppressed the proliferation and invasion of KYSE150 and KYSE30 cells. (F) LINC00514 siRNA2 reduced the expression of lipogenesis-related proteins (SPHK1, FASN, ACACA and SCD1) in KYSE150 and KYSE30 cells. *P<0.05, **P<0.01, ***P<0.001, ****P<0.0001 vs. si-NC group. LINC00514, long intergenic nonprotein-coding RNA 00514; ESCC, esophageal squamous cell carcinoma; SPHK1, sphingosine kinase 1; FASN, fatty acid synthetase; ACACA, acetyl-CoA carboxylase α; SCD1, stearoyl-CoA desaturase 1; siRNA, small interfering RNA.

In addition, three siRNAs against LINC00514 markedly downregulated the expression of LINC00514 in KYSE150 and KYSE30 cells, which harbored the highest levels of LINC00514, and LINC00514 siRNA2 displayed the most effective interference efficacy in these cell lines (Fig. 2B). Functionally, knockdown of LINC00514 significantly suppressed the proliferation of KYSE150 and KYSE30 cells after 24, 48, 72 and 96 h (P<0.05; Fig. 2C), as well as their invasive ability after 48 h (Fig. 2D and E). In addition, knockdown of LINC00514 led to the downregulation of expression of lipogenesis-related proteins, including SPHK1, FASN, ACACA and SCD1 (Fig. 2F). By contrast, pcDNA3.1-LINC00514 significantly increased the expression of LINC00514 in KYSE150 and KYSE30 cells (Fig. 3A), significantly increased cell proliferation and invasion in KYSE150 and KYSE30 cells, and led to an increase in the protein expression levels of SPHK1, FASN, ACACA and SCD1 (Fig. 3B-E). These findings suggest that LINC00514 may function as an oncogene by affecting lipogenesis in ESCC cells.

Figure 3

LINC00514 promotes the proliferation, invasion and expression of lipogenesis-related proteins in ESCC cells. (A) pcDNA3.1-LINC00514 transfection significantly upregulated the expression of LINC00514 in KYSE150 and KYSE30 cells. (B-D) LINC00514 overexpression promoted the proliferation and invasion of KYSE150 and KYSE30 cells. (E) LINC00514 overexpression promoted the expression of lipogenesis-related proteins (SPHK1, FASN, ACACA and SCD1) in KYSE150 and KYSE30 cells.*P<0.05, **P<0.01, ***P<0.001, ****P<0.0001. LINC00514, long intergenic nonprotein-coding RNA 00514; ESCC, esophageal squamous cell carcinoma; SPHK1, sphingosine kinase 1; FASN, fatty acid synthetase; ACACA, acetyl-CoA carboxylase α; SCD1, stearoyl-CoA desaturase 1; siRNA, small interfering RNA.

LINC00514 affects miR-378a-5p expression by acting as a ceRNA

To further explore the possible molecular mechanisms of LINC00514 in ESCC cells, a localization assay was performed using RT-qPCR. It was found that LINC00514 was primarily localized in the cytoplasm of KYSE150 and KYSE30 cells (Fig. 4A), which was validated using a FISH assay (Fig. 4B), suggesting that LINC00514 functions via a ceRNA-mediated mechanism in ESCC cells.

Figure 4

LINC00514 functions as a competing endogenous RNA by sponging miR-378a-5p in ESCC cells. (A) Reverse transcription-quantitative PCR was used to analyze the subcellular localization of LINC00514 in KYSE150 and KYSE30 cells. (B) Subcellular localization of LINC00514 in KYSE150 and KYSE30 cells was investigated using a fluorescence in situ hybridization assay, where LINC00514 was labeled by cyanine 3 (red) and the nuclei were stained with DAPI (blue). (C) lncBase was used to identify the association between LINC00514 and miR-378a-5p. (D) Dual-luciferase reporter assays were performed to investigate the binding between LINC00514 and miR-378a-5p in KYSE150 and KYSE30 cells. An Ago2-RIP assay was used to analyze the enrichment of (E) LINC00514 or (F) miR-378a-5p in the RISC in KYSE150 and KYSE30 cells. (G) Ago2-RIP assay was employed to analyze the enrichment of LINC00514 in KYSE150 and KYSE30 cells in the presence of miR-378a-5p mimic. (H) Transfection of LINC00514 siRNA 2 significantly promoted the expression of miR-378a-5p in KYSE150 and KYSE30 cells. (I) LINC00514 overexpression markedly suppressed the expression of miR-378a-5p in KYSE150 and KYSE30 cells. ****P<0.0001. LINC00514, long intergenic nonprotein-coding RNA 00514; ESCC, esophageal squamous cell carcinoma; miR, microRNA; Ago2, argonaute 2; RIP, RNA immunoprecipitation; RISC, RNA-induced silencing complex; siRNA, small interfering RNA.

Subsequently, LncBase Predicted v.2 which is integrated into DIANA Tools was used to predict the possible miRNAs that bound to LINC00514, and it was found that LINC00514 harbored binding sites for miR-378a-5p (Fig. 4C).

To further confirm the interaction of LINC00514 with miR-378a-5p, a dual-luciferase reporter assay was conducted to investigate the binding of LINC00514 with miR-378a-5p. It was found that the luciferase intensity was markedly reduced by co-transfecting miR-378a-5p mimic and pmirGLO-LINC00514-WT vector into KYSE150 and KYSE30 cells, but not by co-transfecting miR-378a-5p mimic and pmirGLO-LINC00514-MUT vector (which lacks the miR-378-5p binding site) (Fig. 4D).

To further validate this result, an Ago2-RIP assay was performed, which revealed that endogenous LINC00514 and miR-378a-5p were preferentially enriched in Ago2-RIP, compared with the findings in control IgG-RIP (Fig. 4E and F). Importantly, LINC00514 enrichment was much higher in the miR-378a-5p mimic group than that in the NC mimic group (P<0.0001; Fig. 4G), suggesting that LINC00514 and miR-378a-5p appeared in the same RNA-induced silencing complex.

To verify the effects of LINC00514 knockdown or over- expression on the expression of miR-378a-5p in ESCC cells, RT-qPCR was performed, and it was found that LINC00514 depletion notably enhanced the expression of miR-378a-5p (P<0.0001; Fig. 4H), whereas LINC00514 overexpression markedly suppressed the expression of miR-378a-5p (P<0.0001; Fig. 4I). These findings suggest that LINC00514 directly affects the expression of miR-378a-5p by acting as a ceRNA in ESCC cells.

Associations between miR-378a-5p expression and clinicopathological features of patients with ESCC

Considering the interaction of LINC00514 with miR-378a-5p in ESCC cells, whether miR-378a-5p participated in the development and progression of ESCC was next investigated. miR-378a-5p was closely associated with TNM stage and lymph node metastasis in patients with ESCC (P<0.01), but was not associated with patients' sex, age, smoking habits, drinking habits, tumor diameter or degree of differentiation (Table III). These findings suggest that miR-378a-5p may participate in the progression and metastasis of ESCC.

Table III

Associations of miR-378a-5p expression with clinicopathological features of patients with ESCC.

Features	n	LINC00514 expression		χ2	P-value
		+	−
Sex				0.353	0.552
Male	55	22	33
Female	30	14	16
Age, years				0.708	0.400
<60	38	18	20
≥60	47	18	29
Smoking				1.079	0.299
Yes	41	15	26
No	44	21	23
Drinking				0.112	0.738
Yes	49	20	29
No	36	16	20
Tumor diameter, cm				2.321	0.128
<4	51	25	26
≥4	34	11	23
Differentiation degree				0.193	0.660
High/moderate	52	23	29
Poor	33	13	20
Tumor-Node-Metastasis stage				6.869	0.009a
I-II	55	29	26
III-IV	30	7	23
Lymph node metastasis				7.488	0.006a
Yes	28	6	22
No	57	30	27

P≤0.01.

SPHK1 is the direct target of miR-378a-5p in ESCC cells

To further investigate the downstream molecular mechanisms of miR-378a-5p in ESCC cells, the expression of miR-378a-5p in ESCC tissues was analyzed. The data derived from TCGA and the GEO datasets revealed that miR-378a-5p expression was markedly reduced in ESCA (Fig. 5A) and ESCC tissues (Fig. 5B), which was validated by RT-qPCR in 85 cases of ESCC and paired normal tissues (Fig. 5C). In addition, the miR-378a-5p levels in a number of ESCC cell lines (Eca109, KYSE150, KYSE30, KYSE450 and KYSE70) was significantly lower than that in the normal esophageal epithelial cell line Het-1A (all P<0.0001; Fig. 5D).

Figure 5

miR-378a-5p expression is low in ESCC tissues. (A) starBase was used to determine the expression of miR-378a-5p in 162 esophageal cancer and 11 normal samples. (B) The GSE43732 Gene Expression Omnibus dataset was used to assess the levels of miR-378a-5p in 119 ESCC and paired normal samples. Data were compared using a paired Student's t-test. (C) RT-qPCR analysis was used to determine the miR-378a-5p levels in 85 ESCC and paired normal samples. Data were analyzed using a Wilcoxon signed rank. (D) RT-qPCR was used to determine the miR-378a-5p levels in various ESCC cell lines (Eca109, KYSE150, KYSE30, KYSE450 and KYSE70) and a normal esophageal epithelial cell line (Het-1A), and the data were compared using a one way ANOVA followed by a Dunnett's post hoc test. (E) A log-rank test was used to analyze the effects of miR-378a-5p expression on the survival rate of patients with ESCC. *P<0.05, **P<0.01, ***P<0.001, ****P<0.0001. ESCC, esophageal squamous cell carcinoma; miR, microRNA; RT-qPCR, reverse transcription-quantitative PCR.

Notably, patients with ESCC and high miR-378a-5p levels exhibited improved survival rates compared with patients with ESCC and low miR-378a-5p levels (Fig. 5E). Bioinformatics analysis showed that miR-378a-5p exhibited lower levels in another 11 different tumor types compared with those in the corresponding paired normal tissues (Fig. S3). These data suggest that miR-378a-5p may function as a tumor suppressor in multiple tumor types.

TargetScan and miRDB online software were used to predict the possible downstream target genes of miR-378a-5p, and it was found that SPHK1 may be the potential target of miR-378a-5p (Fig. 6A). To validate this predicted result, a dual-luciferase reporter assay was performed, which showed that luciferase activity was markedly reduced in KYSE150 and KYSE30 cells co-transfected with miR-378a-5p mimic and pmirGLO-SPHK1-WT vector, whereas this was not observed with the pmirGLO-SPHK1-MUT vector, which lacks the miR-378-5p binding site (Fig. 6B).

Figure 6

SPHK1 is a direct target of miR-378a-5p in ESCC cells. (A) TargetScan and miRDB both predicted SPHK1 as the downstream target of miR-378a-5p. (B) A dual-luciferase reporter assay was performed to investigate the binding status of SPHK1 and miR-378a-5p in KYSE150 and KYSE30 cells. (C) Ago2-RIP analysis of the enrichment of SPHK1 in RNA-induced silencing complex in KYSE150 and KYSE30 cells. (D) Ago2-RIP analysis of the enrichment of SPHK1 in KYSE150 and KYSE30 cells after transfection with miR-378a-5p mimic. (E) Spearman's rank correlation analysis was used to determine the correlation between miR-378a-5p and SPHK1 expression in 85 ESCC and paired normal samples. (F) miR-378a-5p mimic significantly upregulated the expression of miR-378a-5p in KYSE150 and KYSE30 cells. (G) miR-378a-5p inhibitor markedly downregulated the expression of miR-378a-5p in KYSE150 and KYSE30 cells. (H) miR-378a-5p mimic suppressed the expression of SPHK1 in KYSE150 and KYSE30 cells. (I) miR-378a-5p inhibitor promoted the expression of SPHK1 in KYSE150 and KYSE30 cells. ***P<0.001, ****P<0.0001. SPHK1, sphingosine kinase 1; ESCC, esophageal squamous cell carcinoma; miR, microRNA; Ago2, argonaute 2; RIP, RNA immunoprecipitation.

To further validate this result, an Ago2-RIP assay was performed, which revealed that SPHK1 was markedly enriched in the Ago2-RIP compared with that observed in the control IgG-RIP (Fig. 6C). Notably, SPHK1 enrichment was much higher in the miR-378a-5p mimic group than that in the NC mimic group (P<0.0001; Fig. 6D).

Further evaluation demonstrated that miR-378a-5p expression exhibited a negative correlation with SHPK1 expression in 85 ESCC tissues compared with their paired normal tissues (Fig. 6E). In addition, miR-378a-5p mimic significantly promoted the expression of miR-378a-5p in KYSE150 and KYSE30 cells (Fig. 6F), whereas miR-378a-5p inhibitor markedly suppressed the expression of miR-378a-5p in KYSE150 and KYSE30 cells (Fig. 6G).

Finally, it was found that the miR-378a-5p mimic significantly downregulated the expression of SPHK1 in KYSE150 and KYSE30 cells (Fig. 6H), whereas miR-378a-5p inhibitor increased the expression of SPHK1 in KYSE150 and KYSE30 cells (Fig. 6I). These data confirm that SPHK1 is a direct molecular target of miR-378a-5p in ESCC cells.

Roles of the LINC00514/miR-378a-5p/SPHK1 signaling axis in the proliferation and invasion of ESCC cells

To clarify the underlying roles and related molecular mechanisms of the LINC00514/miR-378a-5p/SPHK1 signaling axis in the proliferation and invasion of ESCC cells, KYSE150 and KYSE30 cells were transfected with miR-378a-5p mimic or inhibitor combined with pcDNA3.1-LINC00514, or pcDNA3.1-SPHK1 combined with LINC00514 siRNA2 or SPHK1 siRNA.

Next, CCK-8 and Transwell assays were used to examine the proliferation and invasion of the transfected cells. The results showed that miR-378a-5p mimic markedly suppressed the proliferation and invasion of KYSE150 and KYSE30 cells, which was partly reversed by pcDNA3.1-LINC00514 and pcDNA3.1-SPHK1 (Fig. 7A-C).

Figure 7

miR-378a-5p exerts biological functions that are dependent on the levels of LINC00514 and SPHK1 in ESCC cells. (A) ESCC cell proliferation was assessed using a CCK-8 assay in the NC mimic, miR-378a-5p mimic, miR-378a-5p mimic + pcDNA3.1-LINC00514 and pcDNA3.1-SPHK1 groups. (B) Cell invasion ability was assessed using a Transwell chamber assay. (C) Quantification of the number of cells that had invaded in each group. Data was compared using a one-way ANOVA followed by a posy-hoc Tukey's post hoc test. (D) Western blotting was used to analyze the expression of SPHK1, FASN, ACACA and SCD1 proteins in various groups. *P<0.05, **P<0.01, ****P<0.0001. SPHK1, sphingosine kinase 1; ESCC, esophageal squamous cell carcinoma; miR, microRNA; LINC00514, long intergenic nonprotein-coding RNA 00514; siRNA, small interfering RNA; NC, negative control; FASN, fatty acid synthetase; ACACA, acetyl-CoA carboxylase α; SCD1, stearoyl-CoA desaturase 1.

Importantly, miR-378a-5p mimic downregulated the expression of lipogenesis-related proteins, including SPHK1, FASN, ACACA and SCD1, which was also partly reversed by pcDNA3.1-LINC00514 and pcDNA3.1-SPHK1 (Fig. 7D). Conversely, miR-378a-5p inhibitor markedly promoted the proliferation and invasion of KYSE150 and KYSE30 cells, whereas LINC00514 siRNA2 and SPHK1 siRNA significantly reduced the promotive efficacy of miR-378a-5p inhibitor on the proliferation and invasion of KYSE150 and KYSE30 cells (Fig. 8A-C). miR-378a-5p inhibitor induced an upregulation in the protein expression levels of SPHK1, FASN, ACACA and SCD1, which was also in part reversed by LINC00514 siRNA2 and SPHK1 siRNA (Fig. 8D).

Figure 8

Effects of miR-378a-5p inhiation are partly reversed by the downregulation of LINC00514 and SPHK1 in ESCC cells. (A) ESCC cell proliferation was assessed using a CCK-8 assay in the NC inhibitor, miR-378a-5p inhibitor, miR-378a-5p inhibitor + LINC00514 siRNA2 and SPHK1 siRNA groups. (B) Cell invasive ability was detected using a Transwell chamber assay in the various groups. (C) Quantification of the number of cells that had invaded in the various groups. Data was compared using a one-way ANOVA with a post hoc Tukey's test. (D) Western blot analysis of the expression of SPHK1, FASN, ACACA and SCD1 expression in the various groups. *P<0.05, **P<0.01, ***P<0.001, ****P<0.0001. SPHK1, sphingosine kinase 1; ESCC, esophageal squamous cell carcinoma; miR, microRNA; LINC00514, long intergenic nonprotein-coding RNA 00514; siRNA, small interfering RNA; NC, negative control; FASN, fatty acid synthetase; ACACA, acetyl-CoA carboxylase α; SCD1, stearoyl-CoA desaturase 1.

Overall, these data suggest that the LINC00514/miR-378a-5p/SPHK1 signaling axis may play a pivotal role in ESCC lipogenesis, and manipulating this signaling axis may be a novel therapeutic strategy for patients with ESCC (Fig. 9).

Figure 9

LINC00514 promotes cell proliferation, invasion and lipogenesis by affecting a miR-378a-5p/SPHK1 signaling axis. LINC00514 expression is high in ESCC tissues and cells, and overexpression of LINC00514 reduced the expression of miR-378a-5p in ESCC cells. Further results revealed the upregulation of SPHK1 expression in ESCC cells, coupled with the upregulation of the lipogenesis-related proteins fatty acid synthetase, acetyl-CoA carboxylase α and stearoyl-CoA desaturase, which triggers ESCC lipogenesis and progression. LINC00514, long intergenic nonprotein-coding RNA 00514; ESCC, esophageal squamous cell carcinoma; miR, microRNA; SPHK1, sphingosine kinase 1.

Discussion

An increasing number of studies have revealed that numerous lncRNAs are widely implicated in tumor initiation, development, progression and metastasis (21,27,28). lncRNAs have been regarded as excellent candidates for biomarkers and therapeutic targets in a large number of tumor types (29-33). Multiple lncRNAs exhibited differential expression in numerous different human tumors, and were confirmed to harbor diagnostic and prognostic potential (34-37). LINC00514 was reported to be involved in the development and progression of neuroendocrine prostate cancer. Mi et al (38) found that the expression of LINC00514 was markedly upregulated in osteosarcoma tissues and cells, and high levels of LINC00514 were positively associated with advanced tumor stages, distant metastasis and reduced overall survival of patients. Another study on osteosarcoma confirmed that LINC00514 was upregulated in osteosarcoma tissues and cells, and an increased LINC00514 level was associated with tumor size, TNM stage and distant metastasis. Furthermore, patients with osteosarcoma and high LINC00514 levels had a shorter overall survival rate (18).

Despite the fact that the role of LINC00514 has been investigated in various tumor types, its clinical value and possible biological functions remain to be identified in ESCC, to the best of our knowledge. The current study found that LINC00514 exhibited high expression levels in ESCC tissues and cell lines, and this high expression was closely associated with TNM stage, lymph node metastasis and reduced survival rates in patients with ESCC. These data highlighted the important clinical value of LINC00514 in ESCC.

Several studies demonstrated that LINC00514 was implicated in the regulation of cell proliferation and metastasis of different tumors. Yu et al (18) verified that LINC00514 knockdown suppressed cell proliferation in vitro and in vivo, as well as colony formation, migration and invasion in osteosarcoma. LINC00514 functioned as a ceRNA by directly absorbing miR-708-5p, and consequently promoting cell proliferation (38). In addition, LINC00514 downregulation suppressed the proliferation, migration and invasion of papillary thyroid cancer cells, which was achieved by sponging miR-204-3p to increase the expression of cell division cycle 23 (19). The present study found that LINC00514 knockdown markedly inhibited the proliferation and invasion of ESCC cells, whereas LINC00514 overexpression promoted the proliferation and invasion of ESCC cells. Further research confirmed that LINC00514 knockdown notably reduced the expression of lipogenesis-related proteins (SPHK1, FASN, ACACA and SCD1) in ESCC cells, and the opposite results were obtained when LINC00514 was upregulated. These data suggest that LINC00514 may participate in the regulation of cell proliferation, invasion and lipogenesis in ESCC cells. However, whether lipogenesis-related proteins participate in the proliferation and invasion of ESCC remains to be deter- mined, and will form the basis of future experiments into the possible biological functions mediated by LINC00514 in ESCC cells.

Based on the close association between the functions of lncRNAs and their subcellular localization (39-41), a subcellular localization assay was performed using RT-qPCR in the present study. It was found that LINC00514 was primarily localized in the cytoplasm of ESCC cells, suggesting that LINC00514 functions as a ceRNA in ESCC. It was also found that LINC00514 directly regulated the miR-378a-5p level in ESCC cells. miRNAs function as negative regulators of downstream target genes by binding to their 3'-untranslated region (42). miR-378a-3p and miR-378a-5p belong to the two mature strands of miR-378a localized at chromosome 5q32, which was previously known as miR-378 (43). miR-378a has been confirmed to be implicated in the metabolism of lipids and xenobiotics, as well as in lipid storage, the glycolytic pathway and in mitochondrial function (44,45). Pan et al (46) found that miR-378a-5p was reduced in renal tissues and renal cell carcinoma cells, and patients with a high miR-378a-5p level exhibited longer overall survival rates than those of patients with low miR-378a-5p levels. In addition, previous reports have demonstrated that miR-378a-5p is implicated in the regulation of metabolism and angiogenesis (43,47). The present study found low expression of miR-378a-5p in ESCC tissues, and this was closely associated with TNM stage and lymph node metastasis, suggesting that the LINC00514/miR-378a-5p signaling axis may be an important therapeutic target for patients with ESCC.

Lipogenesis contributes to membrane synthesis, provides a source of energy for tumor cells and promotes oncogenic signaling (48); thus, reprogramming lipid metabolism may be a potential therapeutic target in cancer treatment (49). Lipogenesis has been reported to be closely associated with tumor development, progression and metastasis (50-52). SPHK1 is an oncogenic enzyme that phosphorylates sphingosine to produce sphingosine-1-phosphate, and plays a pivotal role in multiple cellular processes (53,54). Increasing evidence has demonstrated that SPHK1 is upregulated in gastric carcinoma (55), colorectal cancer (56) colon cancer (57) and ESCC (58). In the present study, SPHK1 was confirmed as a direct molecular target of miR-378a-5p, and SPHK1 was closely associated with TNM stage, lymph node metastasis and poor prognosis of patients with ESCC.

To further clarify the role of the LINC00514/miR-378a-5p/SPHK1 signaling axis in ESCC cell proliferation and invasion, CCK-8 and Transwell chamber assays were employed to investigate the function of this axis. The current data revealed that miR-378a-5p mimic significantly suppressed cell proliferation and invasion, and the expression of lipogenesis-related proteins in ESCC cells, which was partly reversed by over-expression of LINC00514 and SPHK1. However, the opposite results were obtained with miR-378a-5p alone or combined with LINC00514 and SPHK1 siRNAs. These results suggest that the LINC00514/miR-378a-5p/SPHK1 signaling axis may be closely associated with ESCC development and progression, and may be a novel and promising therapeutic target for patients with ESCC. Thus, in future studies, the function of the LINC00514/miR-378a-5p/SPHK1 signaling axis will be further assessed in vivo, to lay the foundation for targeting of this signaling axis as a potential therapeutic option in the treamtent of patients with ESCC.

In conclusion, the current data demonstrated that LINC00514 and SPHK1 expression levels were upregulated in ESCC tissues and cells, and this high expression of LINC00514 and SPHK1 was correlated with TNM stage, lymph node metastasis and poor prognosis in patients with ESCC. LINC00514 knockdown inhibited cell proliferation and invasion, and reduced the expression of lipogenesis-related proteins, whereas LINC00514 overexpression accelerated the proliferation and invasion of ESCC cells, and promoted the expression of lipogenesis-related proteins. Mechanistically, LINC00514 functioned as a ceRNA to sponge miR-378a-5p, thereby indirectly upregulating SPHK1 expression, which further promoted the expression of the lipogenesis-related proteins FASN, ACACA and SCD1, and thus promoting ESCC progression. The current data may provide novel evidence for the use of LINC00514/miR-378a-5p/SPHK1 signaling axis-based targeted therapy in patients with ESCC.