Transfer RNA-Derived Small Non-Coding RNA: Dual Regulator of Protein Synthesis

Overview

Journal Mol Cells

Publisher Elsevier

Specialties Cell Biology
Molecular Biology

Date 2019 Oct 28

PMID 31656062

Citations 20

Authors

Hak Kyun Kim

Affiliations

Soon will be listed here.

Abstract

Transfer RNA-derived small RNAs (tsRNAs) play a role in various cellular processes. Accumulating evidence has revealed that tsRNAs are deeply implicated in human diseases, such as various cancers and neurological disorders, suggesting that tsRNAs should be investigated to develop novel therapeutic intervention. tsRNAs provide more complexity to the physiological role of transfer RNAs by repressing or activating protein synthesis with distinct mechanisms. Here, we highlight the detailed mechanism of tsRNA-mediated dual regulation in protein synthesis and discuss the necessity of novel sequencing technology to learn more about tsRNAs.

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References

Goodarzi H, Liu X, Nguyen H, Zhang S, Fish L, Tavazoie S . Endogenous tRNA-Derived Fragments Suppress Breast Cancer Progression via YBX1 Displacement. Cell. 2015; 161(4):790-802. PMC: 4457382. DOI: 10.1016/j.cell.2015.02.053. View

Fu H, Feng J, Liu Q, Sun F, Tie Y, Zhu J . Stress induces tRNA cleavage by angiogenin in mammalian cells. FEBS Lett. 2008; 583(2):437-42. DOI: 10.1016/j.febslet.2008.12.043. View

Zheng G, Qin Y, Clark W, Dai Q, Yi C, He C . Efficient and quantitative high-throughput tRNA sequencing. Nat Methods. 2015; 12(9):835-837. PMC: 4624326. DOI: 10.1038/nmeth.3478. View

Nekrasov M, Ivshina M, Chernov K, Kovrigina E, Evdokimova V, Thomas A . The mRNA-binding protein YB-1 (p50) prevents association of the eukaryotic initiation factor eIF4G with mRNA and inhibits protein synthesis at the initiation stage. J Biol Chem. 2003; 278(16):13936-43. DOI: 10.1074/jbc.M209145200. View

Cozen A, Quartley E, Holmes A, Hrabeta-Robinson E, Phizicky E, Lowe T . ARM-seq: AlkB-facilitated RNA methylation sequencing reveals a complex landscape of modified tRNA fragments. Nat Methods. 2015; 12(9):879-84. PMC: 4553111. DOI: 10.1038/nmeth.3508. View

Phizicky E, Hopper A . tRNA biology charges to the front. Genes Dev. 2010; 24(17):1832-60. PMC: 2932967. DOI: 10.1101/gad.1956510. View

Kumar P, Anaya J, Mudunuri S, Dutta A . Meta-analysis of tRNA derived RNA fragments reveals that they are evolutionarily conserved and associate with AGO proteins to recognize specific RNA targets. BMC Biol. 2014; 12:78. PMC: 4203973. DOI: 10.1186/s12915-014-0078-0. View

Zheng L, Xu W, Liu S, Sun W, Li J, Wu J . tRF2Cancer: A web server to detect tRNA-derived small RNA fragments (tRFs) and their expression in multiple cancers. Nucleic Acids Res. 2016; 44(W1):W185-93. PMC: 4987945. DOI: 10.1093/nar/gkw414. View

Kumar P, Mudunuri S, Anaya J, Dutta A . tRFdb: a database for transfer RNA fragments. Nucleic Acids Res. 2014; 43(Database issue):D141-5. PMC: 4383946. DOI: 10.1093/nar/gku1138. View

10.

Fricker R, Brogli R, Luidalepp H, Wyss L, Fasnacht M, Joss O . A tRNA half modulates translation as stress response in Trypanosoma brucei. Nat Commun. 2019; 10(1):118. PMC: 6328589. DOI: 10.1038/s41467-018-07949-6. View

11.

Panas M, Ivanov P, Anderson P . Mechanistic insights into mammalian stress granule dynamics. J Cell Biol. 2016; 215(3):313-323. PMC: 5100297. DOI: 10.1083/jcb.201609081. View

12.

Emara M, Ivanov P, Hickman T, Dawra N, Tisdale S, Kedersha N . Angiogenin-induced tRNA-derived stress-induced RNAs promote stress-induced stress granule assembly. J Biol Chem. 2010; 285(14):10959-68. PMC: 2856301. DOI: 10.1074/jbc.M109.077560. View

13.

Kim H, Fuchs G, Wang S, Wei W, Zhang Y, Park H . A transfer-RNA-derived small RNA regulates ribosome biogenesis. Nature. 2017; 552(7683):57-62. PMC: 6066594. DOI: 10.1038/nature25005. View

14.

Thompson D, Lu C, Green P, Parker R . tRNA cleavage is a conserved response to oxidative stress in eukaryotes. RNA. 2008; 14(10):2095-103. PMC: 2553748. DOI: 10.1261/rna.1232808. View

15.

Jochl C, Rederstorff M, Hertel J, Stadler P, Hofacker I, Schrettl M . Small ncRNA transcriptome analysis from Aspergillus fumigatus suggests a novel mechanism for regulation of protein synthesis. Nucleic Acids Res. 2008; 36(8):2677-89. PMC: 2377427. DOI: 10.1093/nar/gkn123. View

16.

Lee S, Collins K . Starvation-induced cleavage of the tRNA anticodon loop in Tetrahymena thermophila. J Biol Chem. 2005; 280(52):42744-9. DOI: 10.1074/jbc.M510356200. View

17.

Lyons S, Gudanis D, Coyne S, Gdaniec Z, Ivanov P . Identification of functional tetramolecular RNA G-quadruplexes derived from transfer RNAs. Nat Commun. 2017; 8(1):1127. PMC: 5655342. DOI: 10.1038/s41467-017-01278-w. View

18.

Levitz R, Chapman D, Amitsur M, Green R, Snyder L, Kaufmann G . The optional E. coli prr locus encodes a latent form of phage T4-induced anticodon nuclease. EMBO J. 1990; 9(5):1383-9. PMC: 551823. DOI: 10.1002/j.1460-2075.1990.tb08253.x. View

19.

Telonis A, Loher P, Honda S, Jing Y, Palazzo J, Kirino Y . Dissecting tRNA-derived fragment complexities using personalized transcriptomes reveals novel fragment classes and unexpected dependencies. Oncotarget. 2015; 6(28):24797-822. PMC: 4694795. DOI: 10.18632/oncotarget.4695. View

20.

Ivanov P, ODay E, Emara M, Wagner G, Lieberman J, Anderson P . G-quadruplex structures contribute to the neuroprotective effects of angiogenin-induced tRNA fragments. Proc Natl Acad Sci U S A. 2014; 111(51):18201-6. PMC: 4280610. DOI: 10.1073/pnas.1407361111. View