| Literature DB >> 30365097 |
Wenzhao Hang1, Yiwen Feng1, Zhenyu Sang1, Ye Yang1, Yaping Zhu1, Qian Huang2, Xiaowei Xi1.
Abstract
The present study aimed to identify shared microRNAs (miRNAs) in ovarian cancer (OC) cells and their exosomes using microarray data (accession number GSE103708) available from the Gene Expression Omnibus database, including exosomal samples from 13 OC cell lines and 3 normal ovarian surface epithelial cell lines, and their original cell samples. Differentially expressed miRNAs (DE‑miRNAs) were identified using the Linear Models for Microarray data method, and mRNA targets of DE‑miRNAs were predicted using the miRWalk2 database. The potential functions of target genes were analyzed using Database for Annotation, Visualization and Integrated Discovery and intersected with known OC‑associated pathways downloaded from the Comparative Toxicogenomics Database. The associations between crucial miRNAs and target genes, and their clinical associations, were validated using data from The Cancer Genome Atlas. As a result, 16 upregulated and 6 downregulated DE‑miRNAs were shared in OC cell lines and their exosomes compared with normal controls. The target genes of 11 common DE‑miRNAs were predicted. Among these DE‑miRNAs, a low expression of homo sapiens (hsa)‑miR‑145‑5p was significantly correlated with a poor prognosis and higher stages. Although 91 target genes were predicted for hsa‑miR‑145‑5p, only 4 genes [connective tissue growth factor (CTGF), myotubularin‑related protein 14, protein phosphatase 3 catalytic subunit alpha and suppressor of cytokine signaling 7] were suggested as risk factors for prognosis. The subsequent Pearson's correlation analysis validated a significant negative correlation between hsa‑miR‑145‑5p and CTGF (r=‑0.1126, P=0.02188). According to the results of the functional analysis, CTGF is involved in the Hippo signaling pathway (hsa04390). In conclusion, decreased expression of hsa‑miR‑145 in OC and OC‑derived exosomes may be a crucial biomarker for the diagnosis and treatment of OC.Entities:
Mesh:
Substances:
Year: 2018 PMID: 30365097 PMCID: PMC6257844 DOI: 10.3892/ijmm.2018.3958
Source DB: PubMed Journal: Int J Mol Med ISSN: 1107-3756 Impact factor: 4.101
Figure 1Shared differentially expressed miRNAs in 13 ovarian cancer cells and their exosomes compared with normal cells. (A) Venn diagram. (B) Heat map. Contra-regulated in the Venn diagram indicates there was a different expression trend in ovarian cancer cells and their exosomes. Red in the heat map indicates the high expression of miRNAs; the green in the heat map indicates the lower expression of miRNAs. miRNA, microRNA.
Shared differentially expressed miRNAs in exosomes and original cells.
| miRNA | Exosome
| Original cells
| ||||
|---|---|---|---|---|---|---|
| logFC | P-value | FDR | logFC | P-value | FDR | |
| hsa-miR-202-3p - | 1.14 | 7.29×10−5 | 1.48×10−2 | −2.14 | 1.13×10−2 | 3.92×10−2 |
| hsa-miR-5684 | −1.73 | 5.76×10−5 | 1.17×10−2 | −1.58 | 1.94×10−3 | 8.36×10−3 |
| hsa-miR-376a-3p - | 1.74 | 9.67×10−6 | 1.97×10−3 | −1.80 | 3.36×10−3 | 1.38×10−2 |
| hsa-miR-141-3p | 2.13 | 8.71×10−6 | 1.77×10−3 | 2.01 | 6.05×10−3 | 2.29×10−2 |
| hsa-miR-376c-3p - | 2.07 | 4.41×10−6 | 8.95×10−4 | −2.08 | 6.82×10−4 | 3.32×10−3 |
| hsa-miR-381-3p - | 2.11 | 6.51×10−6 | 1.33×10−3 | −2.35 | 4.88×10−4 | 2.47×10−3 |
| hsa-miR-145-5p - | 2.67 | 1.15×10−8 | 2.35×10−6 | −2.16 | 1.84×10−4 | 1.03×10−3 |
| hsa-miR-378i | 2.79 | 2.54×10−6 | 5.15×10−4 | 2.13 | 2.05×10−3 | 8.70×10−3 |
| hsa-miR-98-5p | 1.286 | 2.42×10−4 | 4.91×10−2 | 5.30 | 4.07×10−6 | 4.21×10−5 |
| hsa-miR-7-5p | 1.48 | 9.31×10−5 | 1.90×10−2 | 4.92 | 6.08×10−5 | 3.89×10−4 |
| hsa-miR-374b-5p | 1.34 | 1.57×10−4 | 3.19×10−2 | 5.59 | 5.44×10−7 | 1.45×10−5 |
| hsa-miR-374a-5p | 1.42 | 1.08×10−4 | 2.20×10−2 | 5.74 | 1.54×10−7 | 8.57×10−6 |
| hsa-miR-301a-3p | 1.56 | 8.62×10−5 | 1.76×10−2 | 5.60 | 5.44×10−7 | 1.45×10−5 |
| hsa-miR-17-3p | 2.06 | 1.84×10−4 | 3.74×10−2 | 5.42 | 1.64×10−6 | 2.15×10−5 |
| hsa-miR-335-5p | 3.09 | 2.31×10−4 | 4.70×10−2 | 4.22 | 1.65×10−3 | 7.19×10−3 |
| hsa-miR-186-5p | 3.34 | 7.16×10−6 | 1.46×10−3 | 3.93 | 6.75×10−3 | 2.53×10−2 |
| hsa-miR-148a-3p | 2.50 | 1.50×10−5 | 3.05×10−3 | 5.27 | 5.01×10−6 | 4.90×10−5 |
| hsa-miR-532-5p | 3.35 | 1.78×10−4 | 3.63×10−2 | 4.30 | 1.21×10−3 | 5.51×10−3 |
| hsa-miR-660-5p | 3.45 | 1.29×10−4 | 2.62×10−2 | 4.43 | 7.61×10−4 | 3.64×10−3 |
| hsa-miR-205-5p | 4.31 | 6.74×10−6 | 1.37×10−4 | 4.48 | 7.61×10−4 | 3.64×10−3 |
| hsa-miR-126-3p | 4.15 | 1.17×10−5 | 2.37×10−3 | 4.85 | 6.98×10−5 | 4.44×10−4 |
| hsa-miR-200c-3p | 4.00 | 7.13×10−7 | 1.45×10−4 | 5.05 | 2.99×10−5 | 2.06×10−4 |
FC, fold change; FDR, false discovery rate; hsa, homo sapiens; miRNA, microRNA.
Figure 2Regulatory network comprising 11 common differentially expressed miRNAs in ovarian cancer cells and their exosomes, and their target genes. Red squares represent upregulated miRNAs, and green squares represent downregulated miRNAs. The changes in red shades indicated different numbers of target genes (darker shades = higher numbers). hsa, homo sapiens; miRNA, microRNA.
Figure 3Kaplan-Meier analysis of the associations between miRNAs and overall survival of patients with ovarian cancer. (A) miR-98-5p. (B) miR-145-5p. (C) miR-17-3p. hsa, homo sapiens; miRNA, microRNA.
Associations between miRNAs and clinical characteristics using data from The Cancer Genome Atlas data.
| hsa-miR-17-3p
| hsa-miR-145-5p
| hsa-miR-98-5p
| |
|---|---|---|---|
| Clinical characteristics | P-value | P-value | P-value |
| Age (59.44±11.42) | 0.10 | 0.30 | 0.26 |
| Radiation therapy (yes/no) | 0.90 | 0.61 | 6.62×10−3 |
| Neoplasm subdivision (bilateral/left/right) | 0.95 | 0.09 | 0.30 |
| Stage (II/III/IV) | 0.01 | 0.01 | 0.39 |
| Lymphatic invasion (yes/no) | 0.53 | 0.65 | 0.12 |
| Histologic grade (G1-G2/G3-G4) | 0.26 | 0.85 | 0.88 |
| Recurrence (yes/no) | 0.14 | 0.74 | 0.09 |
hsa, homo sapiens; miRNA, microRNA. Data are presented as the mean ± standard deviation. The survival package was used for the statistical analysis.
Prognosis-associated clinical characteristics using data from The Cancer Genome Atlas data.
| Variables | Univariate analysis
| Multivariate analysis
| ||||
|---|---|---|---|---|---|---|
| HR | 95% CI | P-value | HR | 95% CI | P-value | |
| Radiation therapy (yes/no) | 0.84 | 0.53-1.34 | 0.47 | - | - | - |
| Neoplasm subdivision (bilateral/left/right) | 0.99 | 0.80-1.21 | 0.89 | - | - | - |
| Lymphatic invasion (yes/no) | 1.14 | 0.70-1.86 | 0.59 | - | - | - |
| Recurrence (yes/no) | 1.73 | 1.45-2.20 | 0.21 | - | - | - |
| Age (59.44±11.42) | 1.02 | 1.01-1.03 | 3.78×10−3 | 1.02 | 1.01-1.03 | 2.49×10−3 |
| Stage (II/III/IV) | 1.38 | 1.04-1.82 | 0.03 | 1.36 | 1.02-1.83 | 0.04 |
| Histologic grade (G1-G2/G3-G4) | 1.39 | 0.96-2.00 | 0.04 | 1.35 | 0.93-1.95 | 0.04 |
HR, hazard ratio; CI, confidence interval. Data are presented as the mean ± standard deviation. The survival package was used for the statistical analysis.
Figure 4Kaplan-Meier analysis of the associations between the clinical characteristics and survival outcomes of patients with ovarian cancer. (A) Age. (B) Stage. (C) Histological grade.
Figure 5Kaplan-Meier analysis of the associations between the target genes of microR-145-5p and survival outcomes of patients with ovarian cancer. (A) CTGF. (B) MTMR14. (C) PPP3CA. (D) SOCS7. CTGF, connective tissue growth factor; MTMR14, myotubularin-related protein 14; PPP3CA, protein phosphatase 3 catalytic subunit alpha; SOCS7, suppressor of cytokine signaling 7.
Figure 6Pearson’s correlation analysis of the negative correlations between the target genes and miR-145-5p in patients with ovarian cancer. (A) CTGF. (B) MTMR14. (C) PPP3CA. (D) SOCS7. CTGF, connective tissue growth factor; MTMR14, myotubularin-related protein 14; PPP3CA, protein phosphatase 3 catalytic subunit alpha; SOCS7, suppressor of cytokine signaling 7; hsa, homo sapiens; miRNA, microRNA; cor, correlation coefficient.
Functional enrichment for the target genes of microR-145.
| Term | P-value | Genes |
|---|---|---|
| hsa05219:Bladder cancer | 3.91×10−7 | NRAS, CDKN1A, VEGFA, MDM2, CDK4, MYC, MMP1 |
| hsa04550:Signaling pathways regulating | 5.82×10−5 | NRAS, IGF1R, NANOG, POU5F1, SOX2, MYC, FZD7, KLF4 |
| pluripotency of stem cells | ||
| hsa05200:Pathways in cancer | 8.73×10−5 | NRAS, IGF1R, CDKN1A, HDAC2, VEGFA, MDM2, STAT1, |
| CDK4, MYC, FZD7, MMP1, TPM3 | ||
| hsa04151:PI3K-Akt signaling pathway | 1.45×10−4 | NRAS, IGF1R, CDKN1A, EIF4E, ITGB8, IFNB1, VEGFA, |
| MDM2, CDK4, IRS1, MYC | ||
| hsa05220:Chronic myeloid leukemia | 1.57×10−4 | NRAS, CDKN1A, HDAC2, MDM2, CDK4, MYC |
| hsa05205:Proteoglycans in cancer | 5.32×10−4 | NRAS, IGF1R, CDKN1A, NANOG, VEGFA, MDM2, MYC, |
| FZD7 | ||
| hsa05161:Hepatitis B | 5.72×10−4 | NRAS, CDKN1A, IFNB1, TIRAP, STAT1, CDK4, MYC |
| hsa05214:Glioma | 1.19×10−3 | NRAS, IGF1R, CDKN1A, MDM2, CDK4 |
| hsa05202:Transcriptional misregulation in cancer | 1.24×10−3 | IGF1R, ERG, CDKN1A, FLI1, HDAC2, MDM2, MYC |
| hsa04115:p53 signaling pathway | 1.33×10−3 | PPM1D, CDKN1A, SERPINE1, MDM2, CDK4 |
| hsa05218:Melanoma | 1.65×10−3 | NRAS, IGF1R, CDKN1A, MDM2, CDK4 |
| hsa05206:MicroRNAs in cancer | 4.11×10−3 | NRAS, CDKN1A, IRS2, PAK4, VEGFA, MDM2, IRS1, MYC |
| hsa04919:Thyroid hormone signaling pathway | 9.03×10−3 | NRAS, HDAC2, MDM2, STAT1, MYC |
| hsa04110:Cell cycle | 1.20×10−2 | CDKN1A, HDAC2, MDM2, CDK4, MYC |
| hsa04360:Axon guidance | 1.31×10−2 | NRAS, PAK4, ROBO2, PPP3CA, SRGAP1 |
| hsa05216:Thyroid cancer | 1.84×10−2 | NRAS, MYC, TPM3 |
| Shsa04390:Hippo signaling pathway | 2.32×10−2 | CTGF, SOX2, SERPINE1, MYC, FZD7 |
| hsa05215:Prostate cancer | 2.54×10−2 | NRAS, IGF1R, CDKN1A, MDM2 |
| hsa05166:HTLV-I infection | 3.66×10−2 | NRAS, CDKN1A, PPP3CA, CDK4, MYC, FZD7 |
| hsa05169:Epstein-Barr virus infection | 4.78×10−2 | CDKN1A, HDAC2, MDM2, MYC, MAP2K6 |
hsa, homo sapiens; PI3K, phosphoinositide 3-kinase; Akt, protein kinase B; p53, tumor protein 53; HTLV-I, human T-lymphotropic virus type 1.