| Literature DB >> 29176935 |
Jaekyung Shin1, Hyun Geun Shim2, Taeyoung Hwang3, Hyungsin Kim4, Shin-Hyuk Kang4, Yun-Sik Dho5, Sung-Hye Park6, Sang Jeong Kim2, Chul-Kee Park5.
Abstract
BACKGROUND: Glioblastoma multiforme (GBM) is known as one of the most fatal forms of cancer. MicroRNAs have been widely implicated in the regulation of mammalian development and pathogenesis. The brain-enriched miR-29 subfamilies are known to be exclusively expressed in the developing brain, and they are aberrantly down-regulated in GBM. This study aims to elucidate the role of miR-29b in GBM development and the feasibility of therapeutic targeting using conjugated nanoparticles.Entities:
Keywords: Anti-cancer effect; Glioblastoma; Nanoparticle; miR-29b
Year: 2017 PMID: 29176935 PMCID: PMC5693545 DOI: 10.1186/s12935-017-0476-9
Source DB: PubMed Journal: Cancer Cell Int ISSN: 1475-2867 Impact factor: 5.722
A total of 76 differentially expressed microRNAs with significantly lower expression in glioblastoma (GBM) compared to non-tumour brain tissues
| No. | MicroRNA | log2(FC) | log2(FC-standard error) | z-statistic | p value | FDR |
|---|---|---|---|---|---|---|
| 1 | hsa-miR-124 | 7.5068 | 1.0387 | 7.2270 | 0.0000 | 0.0000 |
| 2 | hsa-miR-218 | 6.6782 | 0.9775 | 6.8322 | 0.0000 | 0.0000 |
| 3 | hsa-miR-873 | 5.4139 | 1.0405 | 5.2031 | 0.0000 | 0.0000 |
| 4 | hsa-miR-7 | 4.7696 | 0.7774 | 6.1350 | 0.0000 | 0.0000 |
| 5 | hsa-miR-1912 | 4.5089 | 1.8598 | 2.4243 | 0.0153 | 0.0429 |
| 6 | hsa-miR-129star | 4.5065 | 0.7294 | 6.1782 | 0.0000 | 0.0000 |
| 7 | hsa-miR-139-3p | 4.3718 | 0.8802 | 4.9666 | 0.0000 | 0.0000 |
| 8 | hsa-miR-383 | 4.1483 | 1.0614 | 3.9083 | 0.0001 | 0.0007 |
| 9 | hsa-miR-495 | 4.0638 | 0.9937 | 4.0894 | 0.0000 | 0.0004 |
| 10 | hsa-miR-139-5p | 3.8873 | 0.9888 | 3.9314 | 0.0001 | 0.0007 |
| 11 | hsa-miR-138 | 3.7940 | 0.8260 | 4.5930 | 0.0000 | 0.0001 |
| 12 | hsa-miR-485-5p | 3.6911 | 0.7200 | 5.1262 | 0.0000 | 0.0000 |
| 13 | hsa-miR-323-3p | 3.5294 | 0.6566 | 5.3754 | 0.0000 | 0.0000 |
| 14 | hsa-miR-487b | 3.5207 | 0.7118 | 4.9464 | 0.0000 | 0.0000 |
| 15 | hsa-miR-485-3p | 3.4738 | 0.7005 | 4.9591 | 0.0000 | 0.0000 |
| 16 | hsa-miR-1286 | 3.4257 | 0.9717 | 3.5256 | 0.0004 | 0.0025 |
| 17 | hsa-miR-1224-5p | 3.3436 | 0.7768 | 4.3045 | 0.0000 | 0.0002 |
| 18 | hsa-miR-132 | 3.3423 | 0.6392 | 5.2287 | 0.0000 | 0.0000 |
| 19 | hsa-miR-543 | 3.2264 | 0.6293 | 5.1272 | 0.0000 | 0.0000 |
| 20 | hsa-miR-490-3p | 3.1761 | 0.7582 | 4.1889 | 0.0000 | 0.0003 |
| 21 | hsa-miR-490-5p | 3.1672 | 0.8236 | 3.8454 | 0.0001 | 0.0009 |
| 22 | hsa-miR-410 | 3.0772 | 0.8013 | 3.8405 | 0.0001 | 0.0009 |
| 23 | hsa-miR-668 | 3.0100 | 0.7603 | 3.9588 | 0.0001 | 0.0006 |
| 24 | hsa-miR-323b-3p | 2.9812 | 0.8378 | 3.5582 | 0.0004 | 0.0023 |
| 25 | hsa-miR-212 | 2.8464 | 0.6536 | 4.3552 | 0.0000 | 0.0002 |
| 26 | hsa-miR-628-5p | 2.8262 | 0.5173 | 5.4638 | 0.0000 | 0.0000 |
| 27 | hsa-miR-124star | 2.8005 | 0.8573 | 3.2666 | 0.0011 | 0.0055 |
| 28 | hsa-miR-136 | 2.7895 | 0.7544 | 3.6977 | 0.0002 | 0.0014 |
| 29 | hsa-miR-935 | 2.7497 | 0.7178 | 3.8304 | 0.0001 | 0.0009 |
| 30 | hsa-miR-539 | 2.7319 | 0.9807 | 2.7857 | 0.0053 | 0.0194 |
| 31 | hsa-miR-504 | 2.7238 | 0.8304 | 3.2800 | 0.0010 | 0.0053 |
| 32 | hsa-miR-487a | 2.7167 | 0.7557 | 3.5948 | 0.0003 | 0.0021 |
| 33 | hsa-miR-138-1star | 2.6958 | 0.5442 | 4.9533 | 0.0000 | 0.0000 |
| 34 | hsa-miR-132star | 2.6106 | 0.8890 | 2.9365 | 0.0033 | 0.0145 |
| 35 | hsa-miR-770-5p | 2.5856 | 0.9006 | 2.8711 | 0.0041 | 0.0165 |
| 36 | hsa-miR-433 | 2.5657 | 1.0518 | 2.4394 | 0.0147 | 0.0415 |
| 37 | hsa-miR-4446-3p | 2.5107 | 0.9984 | 2.5147 | 0.0119 | 0.0351 |
| 38 | hsa-miR-154star | 2.5037 | 0.6443 | 3.8859 | 0.0001 | 0.0008 |
| 39 | hsa-miR-375 | 2.4955 | 0.7418 | 3.3642 | 0.0008 | 0.0042 |
| 40 | hsa-miR-431star | 2.4278 | 0.8736 | 2.7791 | 0.0055 | 0.0196 |
| 41 | hsa-miR-411star | 2.3678 | 0.5828 | 4.0629 | 0.0000 | 0.0004 |
| 42 | hsa-miR-342-3p | 2.3513 | 0.6636 | 3.5430 | 0.0004 | 0.0024 |
| 43 | hsa-miR-376astar | 2.3385 | 0.8987 | 2.6022 | 0.0093 | 0.0293 |
| 44 | hsa-miR-431 | 2.3223 | 1.1063 | 2.0991 | 0.0358 | 0.0851 |
| 45 | hsa-miR-496 | 2.2728 | 0.8521 | 2.6672 | 0.0076 | 0.0254 |
| 46 | hsa-miR-7-1star | 2.1583 | 0.8207 | 2.6299 | 0.0085 | 0.0274 |
| 47 | hsa-miR-769-3p | 2.1347 | 0.5331 | 4.0047 | 0.0001 | 0.0005 |
| 48 | hsa-miR-655 | 2.0954 | 0.9282 | 2.2574 | 0.0240 | 0.0606 |
| 49 | hsa-miR-432 | 2.0845 | 0.7328 | 2.8443 | 0.0045 | 0.0175 |
| 50 | hsa-miR-203 | 2.0536 | 0.7244 | 2.8349 | 0.0046 | 0.0175 |
| 51 | hsa-miR-382 | 2.0529 | 0.7358 | 2.7901 | 0.0053 | 0.0193 |
| 52 | hsa-miR-329 | 2.0327 | 0.8035 | 2.5298 | 0.0114 | 0.0344 |
| 53 | hsa-miR-491-5p | 2.0173 | 0.7588 | 2.6586 | 0.0078 | 0.0257 |
| 54 | hsa-miR-221 | 1.9337 | 0.6314 | 3.0623 | 0.0022 | 0.0102 |
| 55 | hsa-miR-379 | 1.9324 | 0.7444 | 2.5961 | 0.0094 | 0.0296 |
| 56 | hsa-miR-369-5p | 1.8083 | 0.7021 | 2.5755 | 0.0100 | 0.0307 |
| 57 | hsa-miR-330-3p | 1.8050 | 0.6517 | 2.7699 | 0.0056 | 0.0199 |
| 58 | hsa-miR-379star | 1.7531 | 0.7448 | 2.3540 | 0.0186 | 0.0502 |
| 59 | hsa-miR-149 | 1.7529 | 0.6027 | 2.9083 | 0.0036 | 0.0153 |
| 60 | hsa-miR-1 | 1.7498 | 0.4676 | 3.7418 | 0.0002 | 0.0012 |
| 61 | hsa-miR-889 | 1.7203 | 0.7117 | 2.4174 | 0.0156 | 0.0435 |
| 62 | hsa-miR-136star | 1.6970 | 0.6581 | 2.5789 | 0.0099 | 0.0306 |
| 63 | hsa-miR-153 | 1.5730 | 0.6368 | 2.4703 | 0.0135 | 0.0392 |
| 64 | hsa-miR-766 | 1.5411 | 0.6396 | 2.4093 | 0.0160 | 0.0438 |
| 65 | hsa-miR-377star | 1.4851 | 0.6731 | 2.2063 | 0.0274 | 0.0678 |
| 66 | hsa-miR-411 | 1.4768 | 0.6314 | 2.3389 | 0.0193 | 0.0513 |
| 67 | hsa-miR-377 | 1.4701 | 0.6668 | 2.2046 | 0.0275 | 0.0678 |
| 68 | hsa-miR-95 | 1.4609 | 0.6567 | 2.2247 | 0.0261 | 0.0656 |
| 69 | hsa-miR-376a | 1.4324 | 0.7042 | 2.0342 | 0.0419 | 0.0972 |
| 70 | hsa-miR-127-5p | 1.3517 | 0.6337 | 2.1329 | 0.0329 | 0.0787 |
| 71 | hsa-miR-29b | 1.3389 | 0.5925 | 2.2597 | 0.0238 | 0.0606 |
| 72 | hsa-miR-425 | 1.3189 | 0.6458 | 2.0421 | 0.0411 | 0.0960 |
| 73 | hsa-let-7d | 1.2599 | 0.5884 | 2.1411 | 0.0323 | 0.0776 |
| 74 | hsa-miR-191 | 1.1826 | 0.4351 | 2.7181 | 0.0066 | 0.0222 |
| 75 | hsa-miR-598 | 1.1699 | 0.5339 | 2.1911 | 0.0284 | 0.0697 |
| 76 | hsa-miR-769-5p | 1.1113 | 0.4806 | 2.3121 | 0.0208 | 0.0543 |
Whole set of differentially expressed microRNAs between GBM and non-tumor brain tissues are listed in Additional file 1: Table S2. A total of 170 microRNAs were found to be significant after combining open source data from two previous studies comparing GBM (n = 9) and non-tumour brain tissues (n = 6) with miRNA-seq [13, 14]. Log2(FC) indicates log2(fold change of non-tumour brain tissues to GBM)
Fig. 1Comparison of miR-29b expression levels between glioblastoma (GBM, n = 9) and normal brain tissues (Normal, n = 6) showing significant down-regulation of miR-29b in GBM (p = 0.02). A normalized count of miR-29b from open source miRNA-seq data was used [13, 14]
Fig. 2Anticancer effects of miR-29b on the A172 cell line. a Endogenous expression of miR-29b in A172, which is successfully overexpressed after transfection of miR-29b. b Restoration of miR-29b induces apoptosis in more than 50% of cells as shown by FACS analysis with Annexin V staining. c LIVE/DEAD assay showing a decrease in live cells after miR-29b treatment. d Cell cycle analysis by quantitation of the DNA content showing significant S phase arrest (p < 0.05) in miR-29b-treated cells. Error bars indicate the mean ± SEM for n > 3. Significance was determined using Student’s t test. e Effects of miR-29b on cell cycle progression were studied by flow cytometry using the FITC-BrdU/7-AAD assay. Expression of miR-29b significantly induced apoptosis (R4, 19.6%), and S-phase cell cycle arrest (R2, 12.82%) in A172 cells. Insignificant changes were observed in fractions representing G1-phase (R1), and G2/M-phase (R3)
Fig. 3Anticancer effects of miR-29b on glioblastoma tissue slice cultures. a Transmission electron microscopy (TEM) images of cultured tissues showing incorporation of nanoparticles loaded with miR-29b (arrow). b Ki-67 immunostaining on the glioblastoma tissues cultured for 7 days after miR-29b treatment shows a decrease in the proliferative index (2.4%) compared with control siRNA treatment (15.3%). c The apoptosis rate was measured by quantifying the number of apoptotic cells positive for TUNEL. A significant increase in the apoptotic index is observed after miR-29b treatment compared with control siRNA treatment (p < 0.01). Error bars represent the mean ± SEM for n > 3. Significance was determined using Student’s t test
Fig. 4Mediators of the effects of miR-29b on glioblastoma cells. a Volcano plots showing miR-29b targeted genes analysed with a PCR array using naïve- and miR-29b-treated A172 cells. The significant candidate targets (fold change > 20) include COL1A2, COL4A1, COL2A1, ITGA11, MMP24, and SPARC. b Network analysis incorporating genes of interest using Pathway Commons (http://www.pathwaycommons.org) shows relationships among the genes. Direct inhibition of SPARC by miR-29b is annotated with a solid line