Table 2. miRNA with expression changes after 30 minutes and 24 hours of differentiation: changes seen only in cells stably expressing PAX3-FOXO1.
| miR | Target | Gene function | 30 minutes | 24 hours |
|---|---|---|---|---|
| Increased expression at 30 minutes – changed expression at 24 hours | ||||
| *1a-3p | CDCP1 TNS4 EGFR FERMT2 TPM4 LARP4 Tmsb4x FSTL1 G6PD GPD2 PNP |
Receptor expressed a high levels in muscle Tensin – promotes expression of MyHC TKR – down regulation promotes myogenesis Scaffold protein– required for myoblast fusion Tropomyosin – involved in muscle contraction Cell morphology and cytoskeletal organization Chemoattractant – promote muscle regenerate Modulates actions of growth factors Involved in oxidative pentose pathway Involved in glycerol-phosphate shuttle Purine nucleoside phosphorylase |
20.88 | 2.76 |
| 7a-5p | AGO2 TCF4 EGFR |
Involved in miRNA maturation Transcription factor –MyHC expression TKR – down regulation promotes myogenesis |
8.08 | 3.15 |
| 148b-3p | DNMT1 | DNA methyltransferase; promotes myogenesis | 5.89 | 4.26 |
| 328-3p | AGO2 | Involved in miRNA maturation | 3.38 | 2.63 |
| 148a-3p | ROCK1 | Rho kinase that inhibits myogenesis | 3.08 | 1.77 |
| 19a-3p | TNFPTEN | Inhibits myogenesis and MyoD expressionLoss promotes myogenic differentiation | 2.95 | 3.43 |
| 532-5p | 2.90 | 1.89 | ||
| 574-3p | EGFR | TKR – down regulation promotes myogenesis | 2.11 | 3.15 |
| 296-3p | TNFIGF1R | Inhibits myogenesis and MyoD expressionTK receptor that promotes myogenesis | 1.75 | 1.94 |
| 423-3p | 1.68 | −1.45 | ||
| 103-3p | GPD1 NF1 |
Carbohydrate and lipid metabolism RasGAP – loss inhibits myotube formation |
1.17 | 1.75 |
| *125b-5p | PPP1CA TRAF6 |
Phosphatase – energy production in muscle Activity required for myogenesis |
1.09 | −2.27 |
| Increased expression at 30 minutes – minimal change at 24 hours# | ||||
| 676-3p | 3.00 | 1.27 | ||
| 674-3p | 2.74 | 1.24 | ||
| 504-5p | TCF4 VEGFA |
Transcription factor –MyHC expression Growth factor induces myogenesis |
2.60 | 1.02 |
| 34b-5p | 1.68 | 1.08 | ||
| 484 | 1.66 | 1.19 | ||
| 130b-5p | 1.61 | 1.24 | ||
| 1983 | 1.61 | 1.14 | ||
| *222-3p | KIT | TKR that promotes myogenesis from stem cells | 1.48 | 0.77 |
| Decreased expression at 30 minutes – changed expression at 24 hours | ||||
| 27a-3p | RUNX1 PPARG FBXW7 BMP2 BMPR1A |
Promotes myofibrillar disorganization Expression required for myogenesis Ubiquitin ligase targets Notch and Jun Inhibits myogenesis to induce osteogenesis Receptor – promotes satellite cell proliferation |
0.86 | −1.72 |
| 130a-3p | MEOX2 SMAD4 AGO2 |
Transcription factor, activates Myf5 expression Promotes myogenesis and fusion Involved in miRNA maturation |
−1.41 | −2.17 |
| 425-5p | MEF2C | Myogenic transcription factor | −1.42 | −1.67 |
| 30a-5p | TNRC6A EGFR BDNF Snai1 CCNE2 MDM2 TIMP3 |
Downregulation required for myotube fusion Downregulation triggers myogenesis Promotes myogenic differentiation Required for initiation fo myogenesis Proliferative control in G1 Inhibits transcriptional activity of MyoD Blocks myotube formation |
−1.45 | −1.56 |
| 30b-5p | CTGF | Inhibits myogenesis by promoting fibrosis | −1.49 | −1.88 |
| 872-3p | −1.54 | −1.82 | ||
| 301a-3p | PIAS3 NKRF |
Inhibits JAK/STAT – promote myogenesis Repression NFkB – inhibits myogenesis |
−1.56 | 0.81 |
| *181b-5p | TIMP3 | Inhibits MMP and blocks myoblast fusion | −1.61 | 1.30 |
| 872-5p | −1.67 | 1.09 | ||
| 191-5p | MXI1 | Inhibits Myc activity to promote myogenesis | −1.85 | 1.52 |
| 148b-5p | −1.92 | −1.61 | ||
| 708-3p | −2.00 | −1.47 | ||
| *181a-5p | MSX2 | Inhibits myogenic differentiation | −2.00 | −1.92 |
| 22-3p | Cdc25c SIRT1 PPARA |
Phosphatase controls entry into mitosis Stimulates myogenesis by activating Wnt Promotes mitochondrial biogenesis |
−2.04 | −4.54 |
| *181c-5p | −2.17 | −1.75 | ||
| *27b-3p | RUNX1 Mef2C SMAD3 SMAD4 SMAD5 PPARG Cxcl12 |
Prevents myofibrillar disorganization Myogenic marker – promotes myogenesis Inhibits expression of myostatin Important for terminal differentiation Inhibits myogenesis – promotes osteogenesis Expression required for myogenesis Chemokine that promotes myoblast fusion |
−2.22 | −1.61 |
| *24-2-5p | PRKCA | Inhibits cell spreading | −2.22 | −3.33 |
| 541-5p | −2.56 | −2.43 | ||
| 1957a | −2.63 | −1.67 | ||
| *208b-3p | −3.03 | −3.22 | ||
| 148a-5p | −3.57 | −3.44 | ||
| 30d-3p | −3.70 | −5.26 | ||
| 136-5p | NR2F2 | Orphan receptor – activates Myf5 expression | −3.84 | −3.13 |
Fold expression changes indicate the miRNA gene expression at 30 minutes or 24 hours relative to levels seen in proliferating cells. The asterisk indicates microRNAs known to be myomiRs. #Minimal change is considered to be miRNA expression between −1.30 and +1.30 fold change relative to proliferation levels.