LncRNAs and Their RBPs: How to Influence the Fate of Stem Cells?

Overview

Journal Stem Cell Res Ther

Publisher Biomed Central

Date 2022 May 3

PMID 35505438

Authors

Cong Zhao

Wen Xie

Hecheng Zhu

Ming Zhao

Weidong Liu

Zhaoping Wu

Lei Wang

Bin Zhu

Shasha Li

Yao Zhou

Xingjun Jiang

Qiang Xu

Caiping Ren

Affiliations

Soon will be listed here.

Abstract

Stem cells are distinctive cells that have self-renewal potential and unique ability to differentiate into multiple functional cells. Stem cell is a frontier field of life science research and has always been a hot spot in biomedical research. Recent studies have shown that long non-coding RNAs (lncRNAs) have irreplaceable roles in stem cell self-renewal and differentiation. LncRNAs play crucial roles in stem cells through a variety of regulatory mechanisms, including the recruitment of RNA-binding proteins (RBPs) to affect the stability of their mRNAs or the expression of downstream genes. RBPs interact with different RNAs to regulate gene expression at transcriptional and post-transcriptional levels and play important roles in determining the fate of stem cells. In this review, the functions of lncRNAs and their RBPs in self-renewal and differentiation of stem cell are summarized. We focus on the four regulatory mechanisms by which lncRNAs and their RBPs are involved in epigenetic regulation, signaling pathway regulation, splicing, mRNA stability and subcellular localization and further discuss other noncoding RNAs (ncRNAs) and their RBPs in the fate of stem cells. This work provides a more comprehensive understanding of the roles of lncRNAs in determining the fate of stem cells, and a further understanding of their regulatory mechanisms will provide a theoretical basis for the development of clinical regenerative medicine.

Citing Articles

From the genome's perspective: Bearing somatic retrotransposition to leverage the regulatory potential of L1 RNAs.

Mangoni D, Mazzetti A, Ansaloni F, Simi A, Tartaglia G, Pandolfini L Bioessays. 2024; 47(2):e2400125.

PMID: 39520370 PMC: 11755705. DOI: 10.1002/bies.202400125.

FUS/circZEB1/miR-128-3p/LBH feedback loop contributes to the malignant phenotype of GSCs via TNF-α-mediated NF-κB signaling pathway.

Zhang G, Jiang Y, Wang Z, Guo Z, Hu J, Li X Cancer Cell Int. 2024; 24(1):365.

PMID: 39511561 PMC: 11545228. DOI: 10.1186/s12935-024-03526-8.

Advances in different adult stem cell-derived exosomal non-coding RNAs for the treatment of neurological disorders: a narrative review.

Ke L, Cao Y, Lu Z, Hallajzadeh J Front Cell Dev Biol. 2024; 12:1459246.

PMID: 39450275 PMC: 11500198. DOI: 10.3389/fcell.2024.1459246.

The essential roles of lncRNAs/PI3K/AKT axis in gastrointestinal tumors.

Li P, Ma X, Gu X Front Cell Dev Biol. 2024; 12:1442193.

PMID: 39161590 PMC: 11330846. DOI: 10.3389/fcell.2024.1442193.

RNA-binding proteins in bone pathophysiology.

Maroni P, Pesce N, Lombardi G Front Cell Dev Biol. 2024; 12:1412268.

PMID: 38966428 PMC: 11222650. DOI: 10.3389/fcell.2024.1412268.

References

Chakraborty D, Paszkowski-Rogacz M, Berger N, Ding L, Mircetic J, Fu J . lncRNA Panct1 Maintains Mouse Embryonic Stem Cell Identity by Regulating TOBF1 Recruitment to Oct-Sox Sequences in Early G1. Cell Rep. 2017; 21(11):3012-3021. DOI: 10.1016/j.celrep.2017.11.045. View

Zhao T, Cai M, Liu M, Su G, An D, Moon B . lncRNA 5430416N02Rik Promotes the Proliferation of Mouse Embryonic Stem Cells by Activating Mid1 Expression through 3D Chromatin Architecture. Stem Cell Reports. 2020; 14(3):493-505. PMC: 7066321. DOI: 10.1016/j.stemcr.2020.02.002. View

Belair C, Sim S, Kim K, Tanaka Y, Park I, Wolin S . The RNA exosome nuclease complex regulates human embryonic stem cell differentiation. J Cell Biol. 2019; 218(8):2564-2582. PMC: 6683745. DOI: 10.1083/jcb.201811148. View

Ye J, Blelloch R . Regulation of pluripotency by RNA binding proteins. Cell Stem Cell. 2014; 15(3):271-280. PMC: 4372238. DOI: 10.1016/j.stem.2014.08.010. View

Xie W, Zhu H, Zhao M, Wang L, Li S, Zhao C . Crucial roles of different RNA-binding hnRNP proteins in Stem Cells. Int J Biol Sci. 2021; 17(3):807-817. PMC: 7975692. DOI: 10.7150/ijbs.55120. View

Keppetipola N, Sharma S, Li Q, Black D . Neuronal regulation of pre-mRNA splicing by polypyrimidine tract binding proteins, PTBP1 and PTBP2. Crit Rev Biochem Mol Biol. 2012; 47(4):360-78. PMC: 3422667. DOI: 10.3109/10409238.2012.691456. View

Chen X, Xie R, Gu P, Huang M, Han J, Dong W . Long Noncoding RNA Inhibits Self-Renewal and Chemoresistance of Bladder Cancer Stem Cells through Epigenetic Silencing of SOX2. Clin Cancer Res. 2018; 25(4):1389-1403. DOI: 10.1158/1078-0432.CCR-18-1656. View

Iwakiri J, Hamada M, Asai K . Bioinformatics tools for lncRNA research. Biochim Biophys Acta. 2015; 1859(1):23-30. DOI: 10.1016/j.bbagrm.2015.07.014. View

Shibasaki T, Tokunaga A, Sakamoto R, Sagara H, Noguchi S, Sasaoka T . PTB deficiency causes the loss of adherens junctions in the dorsal telencephalon and leads to lethal hydrocephalus. Cereb Cortex. 2012; 23(8):1824-35. DOI: 10.1093/cercor/bhs161. View

10.

Knoch K, Bergert H, Borgonovo B, Saeger H, Altkruger A, Verkade P . Polypyrimidine tract-binding protein promotes insulin secretory granule biogenesis. Nat Cell Biol. 2004; 6(3):207-14. DOI: 10.1038/ncb1099. View

11.

Guallar D, Wang J . RNA-binding proteins in pluripotency, differentiation, and reprogramming. Front Biol (Beijing). 2015; 9(5):389-409. PMC: 4279953. DOI: 10.1007/s11515-014-1326-y. View

12.

Jain R, Li D, Gupta M, Manderfield L, Ifkovits J, Wang Q . HEART DEVELOPMENT. Integration of Bmp and Wnt signaling by Hopx specifies commitment of cardiomyoblasts. Science. 2015; 348(6242):aaa6071. PMC: 4806339. DOI: 10.1126/science.aaa6071. View

13.

Yu C, Kuo H . The Trans-Spliced Long Noncoding RNA tsRMST Impedes Human Embryonic Stem Cell Differentiation Through WNT5A-Mediated Inhibition of the Epithelial-to-Mesenchymal Transition. Stem Cells. 2016; 34(8):2052-62. DOI: 10.1002/stem.2386. View

14.

Horiuchi T, Aigaki T . Alternative trans-splicing: a novel mode of pre-mRNA processing. Biol Cell. 2006; 98(2):135-40. DOI: 10.1042/BC20050002. View

15.

Lorthongpanich C, Thumanu K, Tangkiettrakul K, Jiamvoraphong N, Laowtammathron C, Damkham N . YAP as a key regulator of adipo-osteogenic differentiation in human MSCs. Stem Cell Res Ther. 2019; 10(1):402. PMC: 6921580. DOI: 10.1186/s13287-019-1494-4. View

16.

Jiapaer Z, Li G, Ye D, Bai M, Li J, Guo X . LincU Preserves Naïve Pluripotency by Restricting ERK Activity in Embryonic Stem Cells. Stem Cell Reports. 2018; 11(2):395-409. PMC: 6092693. DOI: 10.1016/j.stemcr.2018.06.010. View

17.

Hemming S, Cakouros D, Isenmann S, Cooper L, Menicanin D, Zannettino A . EZH2 and KDM6A act as an epigenetic switch to regulate mesenchymal stem cell lineage specification. Stem Cells. 2013; 32(3):802-15. DOI: 10.1002/stem.1573. View

18.

Cho J, Chang H, Kwon S, Kim B, Kim Y, Choe J . LIN28A is a suppressor of ER-associated translation in embryonic stem cells. Cell. 2012; 151(4):765-777. DOI: 10.1016/j.cell.2012.10.019. View

19.

Arduini B, Brivanlou A . Modulation of FOXD3 activity in human embryonic stem cells directs pluripotency and paraxial mesoderm fates. Stem Cells. 2012; 30(10):2188-98. DOI: 10.1002/stem.1200. View

20.

Sun Z, Zhu M, Lv P, Cheng L, Wang Q, Tian P . The Long Noncoding RNA Lncenc1 Maintains Naive States of Mouse ESCs by Promoting the Glycolysis Pathway. Stem Cell Reports. 2018; 11(3):741-755. PMC: 6135739. DOI: 10.1016/j.stemcr.2018.08.001. View