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.
Contribution of various long non-coding RNAs and microRNAs in osteogenic pathways

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.

Gene mentions


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

Chemical mentions

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