tRNA modifications and tRNA-derived small RNAs: new insights of tRNA in human disease

Albers S, Allen EC, Bharti N, Davyt M, Joshi D, Perez-Garcia CG, Santos L, Mukthavaram R, Delgado-Toscano MA, Molina B, Kuakini K, Alayyoubi M, Park KJ, Acharya G, Gonzalez JA, Sagi A, Birket SE, Tearney GJ, Rowe SM, Manfredi C, Hong JS, Tachikawa K, Karmali P, Matsuda D, Sorscher EJ, Chivukula P, Ignatova Z. Engineered tRNAs suppress nonsense mutations in cells and in vivo. Nature. 2023;618(7966):842–8. https://doi.org/10.1038/s41586-023-06133-1.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Angelova MT, Dimitrova DG, Da Silva B, Marchand V, Jacquier C, Achour C, Brazane M, Goyenvalle C, Bourguignon-Igel V, Shehzada S, Khouider S, Lence T, Guerineau V, Roignant JY, Antoniewski C, Teysset L, Bregeon D, Motorin Y, Schaefer MR, Carré C. tRNA 2’-O-methylation by a duo of TRM7/FTSJ1 proteins modulates small RNA silencing in Drosophila. Nucleic Acids Res. 2020;48(4):2050–72. https://doi.org/10.1093/nar/gkaa002.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Balatti V, Rizzotto L, Miller C, Palamarchuk A, Fadda P, Pandolfo R, Rassenti LZ, Hertlein E, Ruppert AS, Lozanski A, Lozanski G, Kipps TJ, Byrd JC, Croce CM, Pekarsky Y. TCL1 targeting miR-3676 is codeleted with tumor protein p53 in chronic lymphocytic leukemia. Proc Natl Acad Sci U S A. 2015;112(7):2169–74. https://doi.org/10.1073/pnas.1500010112.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Balatti V, Nigita G, Veneziano D, Drusco A, Stein GS, Messier TL, Farina NH, Lian JB, Tomasello L, Liu CG, Palamarchuk A, Hart JR, Bell C, Carosi M, Pescarmona E, Perracchio L, Diodoro M, Russo A, Antenucci A, Visca P, Ciardi A, Harris CC, Vogt PK, Pekarsky Y, Croce CM. tsRNA signatures in cancer. Proc Natl Acad Sci U S A. 2017;114(30):8071–6. https://doi.org/10.1073/pnas.1706908114.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Barbieri I, Kouzarides T. Role of RNA modifications in cancer. Nat Rev Cancer. 2020;20(6):303–22. https://doi.org/10.1038/s41568-020-0253-2.

Article  PubMed  CAS  Google Scholar 

Baxter-Roshek JL, Petrov AN, Dinman JD. Optimization of ribosome structure and function by rRNA base modification. PLoS ONE. 2007;2(1):e174. https://doi.org/10.1371/journal.pone.0000174.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Behrens A, Rodschinka G, Nedialkova DD. High-resolution quantitative profiling of tRNA abundance and modification status in eukaryotes by mim-tRNAseq. Mol Cell. 2021;81(8):1802-1815.e7. https://doi.org/10.1016/j.molcel.2021.01.028.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Berg MD, Brandl CJ. Transfer RNAs: diversity in form and function. RNA Biol. 2021;18(3):316–39. https://doi.org/10.1080/15476286.2020.1809197.

Article  PubMed  CAS  Google Scholar 

Blanco S, Dietmann S, Flores JV, Hussain S, Kutter C, Humphreys P, Lukk M, Lombard P, Treps L, Popis M, Kellner S, Hölter SM, Garrett L, Wurst W, Becker L, Klopstock T, Fuchs H, Gailus-Durner V, Hrabĕ de Angelis M, Káradóttir RT, Helm M, Ule J, Gleeson JG, Odom DT, Frye M. Aberrant methylation of tRNAs links cellular stress to neuro-developmental disorders. EMBO J. 2014;33(18):2020–39. https://doi.org/10.15252/embj.201489282.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Blanco S, Bandiera R, Popis M, Hussain S, Lombard P, Aleksic J, Sajini A, Tanna H, Cortés-Garrido R, Gkatza N, Dietmann S, Frye M. Stem cell function and stress response are controlled by protein synthesis. Nature. 2016;534(7607):335–40. https://doi.org/10.1038/nature18282.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Boccaletto P, Machnicka MA, Purta E, Piatkowski P, Baginski B, Wirecki TK, de Crécy-Lagard V, Ross R, Limbach PA, Kotter A, Helm M, Bujnicki JM. MODOMICS: a database of RNA modification pathways. 2017 update. Nucleic Acids Res. 2018;46(D1):D303–7. https://doi.org/10.1093/nar/gkx1030.

Article  PubMed  CAS  Google Scholar 

Bönnemann CG, Belluscio BA, Braun S, Morris C, Singh T, Muntoni F. Dystrophin immunity after gene therapy for Duchenne’s muscular dystrophy. N Engl J Med. 2023;388(24):2294–6. https://doi.org/10.1056/NEJMc2212912.

Article  PubMed  Google Scholar 

Borchardt EK, Martinez NM, Gilbert WV. Regulation and function of RNA pseudouridylation in human cells. Annu Rev Genet. 2020;23(54):309–36. https://doi.org/10.1146/annurev-genet-112618-043830.

Article  CAS  Google Scholar 

Bordeira-Carriço R, Ferreira D, Mateus DD, Pinheiro H, Pêgo AP, Santos MA, Oliveira C. Rescue of wild-type E-cadherin expression from nonsense-mutated cancer cells by a suppressor-tRNA. Eur J Hum Genet. 2014;22(9):1085–92. https://doi.org/10.1038/ejhg.2013.292.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Bray F, Ferlay J, Soerjomataram I, Siegel RL, Torre LA, Jemal A. Global cancer statistics 2018: GLOBOCAN estimates of incidence and mortality worldwide for 36 cancers in 185 countries. CA Cancer J Clin. 2018;68(6):394–424. https://doi.org/10.3322/caac.21492.

Article  PubMed  Google Scholar 

Buvoli M, Buvoli A, Leinwand LA. Suppression of nonsense mutations in cell culture and mice by multimerized suppressor tRNA genes. Mol Cell Biol. 2000;20(9):3116–24. https://doi.org/10.1128/MCB.20.9.3116-3124.2000.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Carollo PS, Tutone M, Culletta G, Fiduccia I, Corrao F, Pibiri I, Di Leonardo A, Zizzo MG, Melfi R, Pace A, Almerico AM, Lentini L. Investigating the inhibition of FTSJ1, a tryptophan tRNA-specific 2’-O-Methyltransferase by NV TRIDs, as a mechanism of readthrough in nonsense mutated CFTR. Int J Mol Sci. 2023;24(11):9609. https://doi.org/10.3390/ijms24119609.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Chan PP, Lowe TM. GtRNAdb 2.0: an expanded database of transfer RNA genes identified in complete and draft genomes. Nucleic Acids Res. 2016;44(D1):D184-9. https://doi.org/10.1093/nar/gkv1309.

Article  PubMed  CAS  Google Scholar 

Chan CM, Zhou C, Huang RH. Reconstituting bacterial RNA repair and modification in vitro. Science. 2009;326(5950):247. https://doi.org/10.1126/science.1179480.

Article  PubMed  CAS  Google Scholar 

Chan C, Pham P, Dedon PC, Begley TJ. Lifestyle modifications: coordinating the tRNA epitranscriptome with codon bias to adapt translation during stress responses. Genome Biol. 2018;19(1):228. https://doi.org/10.1186/s13059-018-1611-1.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Chen Q, Yan M, Cao Z, Li X, Zhang Y, Shi J, Feng GH, Peng H, Zhang X, Zhang Y, Qian J, Duan E, Zhai Q, Zhou Q. Sperm tsRNAs contribute to intergenerational inheritance of an acquired metabolic disorder. Science. 2016a;351(6271):397–400. https://doi.org/10.1126/science.aad7977.

Article  PubMed  CAS  Google Scholar 

Chen Q, Yan W, Duan E. Epigenetic inheritance of acquired traits through sperm RNAs and sperm RNA modifications. Nat Rev Genet. 2016b;17(12):733–43. https://doi.org/10.1038/nrg.2016.106.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Chen Z, Qi M, Shen B, Luo G, Wu Y, Li J, Lu Z, Zheng Z, Dai Q, Wang H. Transfer RNA demethylase ALKBH3 promotes cancer progression via induction of tRNA-derived small RNAs. Nucleic Acids Res. 2019;47(5):2533–45. https://doi.org/10.1093/nar/gky1250.

Article  PubMed  CAS  Google Scholar 

Chen Z, Zhu W, Zhu S, Sun K, Liao J, Liu H, Dai Z, Han H, Ren X, Yang Q, Zheng S, Peng B, Peng S, Kuang M, Lin S. METTL1 promotes hepatocarcinogenesis via m7G tRNA modification-dependent translation control. Clin Transl Med. 2021;11(12):e661. https://doi.org/10.1002/ctm2.661.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Chen B, Jiang W, Huang Y, Zhang J, Yu P, Wu L, Peng H. N7-methylguanosine tRNA modification promotes tumorigenesis and chemoresistance through WNT/β-catenin pathway in nasopharyngeal carcinoma. Oncogene. 2022;41(15):2239–53. https://doi.org/10.1038/s41388-022-02250-9.

Article  PubMed 

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