Contribution of various long non-coding RNAs and microRNAs in osteogenic pathways
The contribution of various long non-coding RNAs and microRNAs in osteogenic pathways. Numerous lncRNAs and miRNAs have been shown to engage in different osteogenic pathways including BMP, transforming growth factor-β (TGF-β), and Wnt/β-catenin cascades, leading osteogenic differentiation in BMSCs. The binding between BMP and TGF-β with receptors activates SMAD-dependent and SMAD-independent cascades. SMAD2/3 (R-SMAD) is phosphorylated through the TGF-β SMAD-dependent signaling pathway. R-SMAD (phosphorylated) potentially interacts with SMAD4 and enters the nucleus. Further, R-SMAD and SMAD4 with CBP and P300 co-activators influence RUNX2 expression. Within the nucleus, R-SMAD interacts with HDAC4/5 and inhibits RUNX2 expression. Interestingly, non-phosphorylated R-SMAD is broken down by ubiquitination. Several ncRNAs including lncH19-miR-675 and lncH19-miR-675 positively regulate TGF-β SMAD-dependent pathways while lncHOTAIR-miR-17-5p regulates negatively. Significantly, Smurf1/2 and SMAD6/7 express inhibitory action in the BMP SMAD-dependent cascade (R-SMAD and SMAD1/5/8). Specifically, ncRNAs including lncKCNQ1OT1-miR-320a, lncKCNQ1OT1-miR-214, lncNEAT1-miR-29b-3p, and lncLOC103691336-miR138-5p are associated with BMSC growth and differentiation. Moreover, the SMAD-independent signaling event encourages the phosphorylation of RUNX2, DLX5, and OSX. The phosphorylation of RUNX2, DLX5, and OSX is significantly favored by lncHULC-miR-195, lncH19-miR-188, lncMALAT1-miR-143, and lncMALAT1-miR-34c axes. The Wnt/β-catenin pathway induces osteogenic differentiation in BMSCs through β-catenin transportation into the nucleus and following target gene expression. The Wnt/β-catenin pathway is positively regulated by lncLINC00707-miR-370-3p, lncH19-miR-141, lncHULC-miR-195, lncLINC00707-miR-145, lncLINC-ROR- miR-138, lncFAM83H-AS1-miR-541-3p, and miR-145. In RUNX2, lncXIXT-miRNA-30a-5p, and lncDGCR5-miR-30d-5p are the positive regulators while lncMEG3-miR-133a-3p inhibits RUNX2 expression.

Publication
Differential Expression of Non-Coding RNAs in Stem Cell Development and Therapeutics of Bone Disorders (2023) Anurag Mishra, et al. Cells. 2023 Apr;12(8). Figure: F1.Organism | Group | Word | Match | Source | NCBI Symbol | NCBI ID |
---|---|---|---|---|---|---|
Homo sapiens | Primates | TGF-B | TGFB | ncbigene_synonym | TGFB1 | 7040 |
Homo sapiens | Primates | TGF-B | TGFB | famplex_relations | TGFB2 | 7042 |
Homo sapiens | Primates | TGF-B | TGFB | famplex_relations | TGFB3 | 7043 |
Homo sapiens | Primates | BMP | BMP | famplex_relations | BMP1 | 649 |
Homo sapiens | Primates | BMP | BMP | famplex_relations | BMP2 | 650 |
Homo sapiens | Primates | BMP | BMP | famplex_relations | BMP3 | 651 |
Homo sapiens | Primates | BMP | BMP | famplex_relations | BMP4 | 652 |
Homo sapiens | Primates | BMP | BMP | famplex_relations | BMP5 | 653 |
Homo sapiens | Primates | BMP | BMP | famplex_relations | BMP6 | 654 |
Homo sapiens | Primates | BMP | BMP | famplex_relations | BMP7 | 655 |
Homo sapiens | Primates | BMP | BMP | famplex_relations | BMP8A | 353500 |
Homo sapiens | Primates | BMP | BMP | famplex_relations | BMP8B | 656 |
Homo sapiens | Primates | BMP | BMP | famplex_relations | BMP10 | 27302 |
Homo sapiens | Primates | BMP | BMP | famplex_relations | BMP15 | 9210 |
Homo sapiens | Primates | BMP | BMP | famplex_relations | GDF1 | 2657 |
Homo sapiens | Primates | BMP | BMP | famplex_relations | GDF2 | 2658 |
Homo sapiens | Primates | BMP | BMP | famplex_relations | GDF3 | 9573 |
Homo sapiens | Primates | BMP | BMP | famplex_relations | GDF5 | 8200 |
Homo sapiens | Primates | BMP | BMP | famplex_relations | GDF6 | 392255 |
Homo sapiens | Primates | BMP | BMP | famplex_relations | GDF7 | 151449 |
Homo sapiens | Primates | miR-145, | MIR-145 | ncbigene_synonym | MIR145 | 406937 |
Homo sapiens | Primates | LRP5 | LRP5 | ncbigene_symbol | LRP5 | 4041 |
Homo sapiens | Primates | LRP5/6 | LRP6 | ncbigene_symbol | LRP6 | 4040 |
Homo sapiens | Primates | WNT | WNT | famplex_relations | WNT1 | 7471 |
Homo sapiens | Primates | WNT | WNT | famplex_relations | WNT2 | 7472 |
Homo sapiens | Primates | WNT | WNT | famplex_relations | WNT2B | 7482 |
Homo sapiens | Primates | WNT | WNT | famplex_relations | WNT3 | 7473 |
Homo sapiens | Primates | WNT | WNT | famplex_relations | WNT3A | 89780 |
Homo sapiens | Primates | WNT | WNT | famplex_relations | WNT4 | 54361 |
Homo sapiens | Primates | WNT | WNT | famplex_relations | WNT6 | 7475 |
Homo sapiens | Primates | WNT | WNT | famplex_relations | WNT7A | 7476 |
Homo sapiens | Primates | WNT | WNT | famplex_relations | WNT7B | 7477 |
Homo sapiens | Primates | WNT | WNT | famplex_relations | WNT8A | 7478 |
Homo sapiens | Primates | WNT | WNT | famplex_relations | WNT8B | 7479 |
Homo sapiens | Primates | WNT | WNT | famplex_relations | WNT9A | 7483 |
Homo sapiens | Primates | WNT | WNT | famplex_relations | WNT9B | 7484 |
Homo sapiens | Primates | WNT | WNT | famplex_relations | WNT10A | 80326 |
Homo sapiens | Primates | WNT | WNT | famplex_relations | WNT10B | 7480 |
Homo sapiens | Primates | WNT | WNT | famplex_relations | WNT11 | 7481 |
Homo sapiens | Primates | WNT | WNT | famplex_relations | WNT16 | 51384 |
Homo sapiens | Primates | WNT | WNT | famplex_relations | WNT5A | 7474 |
Homo sapiens | Primates | WNT | WNT | famplex_relations | WNT5B | 81029 |
Homo sapiens | Primates | Axin | AXIN | ncbigene_synonym | AXIN1 | 8312 |
Homo sapiens | Primates | Axin | AXIN | famplex_relations | AXIN2 | 8313 |
Homo sapiens | Primates | Dsh | DSH | ncbigene_synonym | ADAR | 103 |
Homo sapiens | Primates | Dsh | DSH | ncbigene_synonym | DVL1P1 | 8215 |
Homo sapiens | Primates | Smadé | SMAD | famplex_relations | SMAD1 | 4086 |
Homo sapiens | Primates | Smadé | SMAD | famplex_relations | SMAD4 | 4089 |
Homo sapiens | Primates | Smadé | SMAD | famplex_relations | SMAD5 | 4090 |
Homo sapiens | Primates | Smadé | SMAD | famplex_relations | SMAD6 | 4091 |
Homo sapiens | Primates | Smadé | SMAD | famplex_relations | SMAD7 | 4092 |
Homo sapiens | Primates | Smadé | SMAD | famplex_relations | SMAD9 | 4093 |
Homo sapiens | Primates | Smadé | SMAD | famplex_relations | SMAD2 | 4087 |
Homo sapiens | Primates | Smadé | SMAD | famplex_relations | SMAD3 | 4088 |
Homo sapiens | Primates | TAK1 | TAK1 | ncbigene_synonym | MAP3K7 | 6885 |
Homo sapiens | Primates | TAK1 | TAK1 | ncbigene_synonym | NR2C2 | 7182 |
Homo sapiens | Primates | TAB1 | TAB1 | ncbigene_symbol | TAB1 | 10454 |
Homo sapiens | Primates | Smad1/5/8 | SMAD1 | ncbigene_synonym | GARS1 | 2617 |
Homo sapiens | Primates | Smurf2 | SMURF2 | ncbigene_symbol | SMURF2 | 64750 |
Homo sapiens | Primates | MKKS | MKKS | ncbigene_symbol | MKKS | 8195 |
Homo sapiens | Primates | RUNX2 | RUNX2 | ncbigene_symbol | RUNX2 | 860 |
Homo sapiens | Primates | CBP | CBP | ncbigene_synonym | CREBBP | 1387 |
Homo sapiens | Primates | CBP | CBP | ncbigene_synonym | EIF4E | 1977 |
Homo sapiens | Primates | CBP | CBP | ncbigene_synonym | OPN1LW | 5956 |
Homo sapiens | Primates | CBP | CBP | ncbigene_synonym | PAG1 | 55824 |
Homo sapiens | Primates | CBP | CBP | ncbigene_synonym | PCBP4 | 57060 |
Homo sapiens | Primates | P300 | P300 | ncbigene_synonym | EP300 | 2033 |
Homo sapiens | Primates | HDAC4 | HDAC4 | ncbigene_symbol | HDAC4 | 9759 |
Homo sapiens | Primates | ERK | ERK | ncbigene_synonym | EPHB2 | 2048 |
Homo sapiens | Primates | ERK | ERK | ncbigene_synonym | MAPK1 | 5594 |
Homo sapiens | Primates | ERK | ERK | famplex_relations | MAPK3 | 5595 |
Homo sapiens | Primates | p38 | P38 | ncbigene_synonym | CRK | 1398 |
Homo sapiens | Primates | p38 | P38 | ncbigene_synonym | MAPK14 | 1432 |
Homo sapiens | Primates | p38 | P38 | ncbigene_synonym | AIMP2 | 7965 |
Homo sapiens | Primates | p38 | P38 | ncbigene_synonym | GRAP2 | 9402 |
Homo sapiens | Primates | p38 | P38 | ncbigene_synonym | AHSA1 | 10598 |
Homo sapiens | Primates | p38 | P38 | ncbigene_synonym | POLDIP2 | 26073 |
Homo sapiens | Primates | p38 | P38 | famplex_relations | MAPK11 | 5600 |
Homo sapiens | Primates | p38 | P38 | famplex_relations | MAPK12 | 6300 |
Homo sapiens | Primates | p38 | P38 | famplex_relations | MAPK13 | 5603 |
Homo sapiens | Primates | OSX | OSX | ncbigene_synonym | MID1 | 4281 |
Homo sapiens | Primates | OSX | OSX | ncbigene_synonym | SP7 | 121340 |
Homo sapiens | Primates | DLX5 | DLX5 | ncbigene_symbol | DLX5 | 1749 |
Homo sapiens | Primates | Smurf1 | SMURF1 | ncbigene_symbol | SMURF1 | 57154 |
Homo sapiens | Primates | APC | APC | ncbigene_symbol | APC | 324 |
Homo sapiens | Primates | APC | APC | ncbigene_synonym | PROC | 5624 |
Homo sapiens | Primates | B-catenin | CTNNB1 | ncbigene_symbol | CTNNB1 | 1499 |
Homo sapiens | Primates | TCF/LEF | TCF | ncbigene_synonym | HNF4A | 3172 |
Word | Match | MeSH | Name | ChEBI |
---|---|---|---|---|
Nucleus | nucleus | nucleus | chebi:33252 | |
BMP | BMP | chebi:60815 | ||
Dsh | DSH | 2-hydroxy-3,5-dinitrobenzohydrazide | chebi:189548 |
Disease mentions
Word | Match | MeSH | Name | DOID |
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