Skip to main content
Log in

A-to-I and C-to-U editing within transfer RNAs

  • Review
  • Published:
Biochemistry (Moscow) Aims and scope Submit manuscript

Abstract

A significant number of post-transcriptional changes occur during the generation of mature transfer RNAs (tRNAs). These changes within precursor-tRNA molecules include the processing of 5′ and 3′ termini, the introduction of modifications, and also RNA editing. In this review, we will detail the reported cases of A-to-I and C-to-U tRNA editing. The most widespread example is the A-to-I conversion of the tRNA anticodon wobble base mediated by TadA in prokaryotes and the heterodimeric ADAT2-ADAT3 complex in eukaryotes. Recently, the plant chloroplast adenosine-to-inosine tRNA editing enzyme has been discovered. The editing of C-to-U is much less prevalent within tRNA and is currently only known to occur in few organellar tRNA species and the cytoplasmic threonyl-tRNA in trypanosomatids. The responsible editing enzyme remains to be identified. Finally, an unusually widespread C-to-U editing scenario was discovered in the archaeon Methanopyrus kandleri. This editing is mediated by CDAT8, which is responsible for the restoration of the proper folding of thirty different tRNA species. The evolution of CDAT8 will be discussed.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Similar content being viewed by others

References

  1. Felsenfeld, G., and Cantoni, G. L. (1964) Proc. Natl. Acad. Sci. USA, 51, 818–826.

    Article  PubMed  CAS  Google Scholar 

  2. Kim, S. H., Quigley, G. J., Suddath, F. L., McPherson, A., Sneden, D., Kim, J. J., Weinzierl, J., and Rich, A. (1973) Science, 179, 285–288.

    Article  PubMed  CAS  Google Scholar 

  3. Ibba, M., and Soll, D. (2004) Genes Dev., 18, 731–738.

    Article  PubMed  CAS  Google Scholar 

  4. Ibba, M., and Soll, D. (1999) Science, 286, 1893–1897.

    Article  PubMed  CAS  Google Scholar 

  5. Agris, P. F., Vendeix, F. A., and Graham, W. D. (2007) J. Mol. Biol., 366, 1–13.

    Article  PubMed  CAS  Google Scholar 

  6. Li, H. (2007) Curr. Opin. Struct. Biol., 17, 293–301.

    Article  PubMed  CAS  Google Scholar 

  7. Hartmann, R. K., Gossringer, M., Spath, B., Fischer, S., and Marchfelder, A. (2009) Prog. Mol. Biol. Transl. Sci., 85, 319–368.

    Article  PubMed  CAS  Google Scholar 

  8. Soll, D. (1971) Science, 173, 293–299.

    Article  PubMed  CAS  Google Scholar 

  9. Fujishima, K., Sugahara, J., Kikuta, K., Hirano, R., Sato, A., Tomita, M., and Kanai, A. (2009) Proc. Natl. Acad. Sci. USA, 106, 2683–2687.

    Article  PubMed  CAS  Google Scholar 

  10. Randau, L., Calvin, K., Hall, M., Yuan, J., Podar, M., Li, H., and Soll, D. (2005) Proc. Natl. Acad. Sci. USA, 102, 17934–17939.

    Article  PubMed  CAS  Google Scholar 

  11. Randau, L., Munch, R., Hohn, M. J., Jahn, D., and Soll, D. (2005) Nature, 433, 537–541.

    Article  PubMed  CAS  Google Scholar 

  12. Maruyama, S., Sugahara, J., Kanai, A., and Nozaki, H. (2010) Mol. Biol. Evol., 27, 1070–1076.

    Article  PubMed  CAS  Google Scholar 

  13. Soma, A., Onodera, A., Sugahara, J., Kanai, A., Yachie, N., Tomita, M., Kawamura, F., and Sekine, Y. (2007) Science, 318, 450–453.

    Article  PubMed  CAS  Google Scholar 

  14. Lavrov, D. V., Brown, W. M., and Boore, J. L. (2000) Proc. Natl. Acad. Sci. USA, 97, 13738–13742.

    Article  PubMed  CAS  Google Scholar 

  15. Price, D. H., and Gray, M. W. (1999) RNA, 5, 302–317.

    Article  PubMed  CAS  Google Scholar 

  16. Byrne, E. M., and Gott, J. M. (2004) Mol. Cell. Biol., 24, 7821–7828.

    Article  PubMed  CAS  Google Scholar 

  17. Juhling, F., Morl, M., Hartmann, R. K., Sprinzl, M., Stadler, P. F., and Putz, J. (2009) Nucleic Acids Res., 37, D159–162.

    Article  PubMed  Google Scholar 

  18. Holley, R. W., Everett, G. A., Madison, J. T., and Zamir, A. (1965) J. Biol. Chem., 240, 2122–2128.

    PubMed  CAS  Google Scholar 

  19. Grosjean, H., Auxilien, S., Constantinesco, F., Simon, C., Corda, Y., Becker, H. F., Foiret, D., Morin, A., Jin, Y. X., Fournier, M., and Fourrey, J. L. (1996) Biochimie, 78, 488–501.

    Article  PubMed  CAS  Google Scholar 

  20. Gerber, A., Grosjean, H., Melcher, T., and Keller, W. (1998) EMBO J., 17, 4780–4789.

    Article  PubMed  CAS  Google Scholar 

  21. Maas, S., Gerber, A. P., and Rich, A. (1999) Proc. Natl. Acad. Sci. USA, 96, 8895–8900.

    Article  PubMed  CAS  Google Scholar 

  22. Hundley, H. A., and Bass, B. L. (2010) Trends Biochem. Sci., 35, 377–383.

    Article  PubMed  CAS  Google Scholar 

  23. Macbeth, M. R., Schubert, H. L., Vandemark, A. P., Lingam, A. T., Hill, C. P., and Bass, B. L. (2005) Science, 309, 1534–1539.

    Article  PubMed  CAS  Google Scholar 

  24. Gerber, A. P., and Keller, W. (1999) Science, 286, 1146–1149.

    Article  PubMed  CAS  Google Scholar 

  25. Berman, H., Henrick, K., and Nakamura, H. (2003) Nat. Struct. Biol., 10, 980.

    Article  PubMed  CAS  Google Scholar 

  26. Yamaizumi, Z., Ihara, M., Kuchino, Y., Gupta, R., Woese, C. R., and Nishimura, S. (1982) Nucleic Acids Symp. Ser., 209–213.

  27. Wolf, J., Gerber, A. P., and Keller, W. (2002) EMBO J., 21, 3841–3851.

    Article  PubMed  CAS  Google Scholar 

  28. Elias, Y., and Huang, R. H. (2005) Biochemistry, 44, 12057–12065.

    Article  PubMed  CAS  Google Scholar 

  29. Kuratani, M., Ishii, R., Bessho, Y., Fukunaga, R., Sengoku, T., Shirouzu, M., Sekine, S., and Yokoyama, S. (2005) J. Biol. Chem., 280, 16002–16008.

    Article  PubMed  CAS  Google Scholar 

  30. Lee, W. H., Kim, Y. K., Nam, K. H., Priyadarshi, A., Lee, E. H., Kim, E. E., Jeon, Y. H., Cheong, C., and Hwang, K. Y. (2007) Proteins, 68, 1016–1019.

    Article  PubMed  CAS  Google Scholar 

  31. Losey, H. C., Ruthenburg, A. J., and Verdine, G. L. (2006) Nat. Struct. Mol. Biol., 13, 153–159.

    Article  PubMed  CAS  Google Scholar 

  32. Karcher, D., and Bock, R. (2009) RNA, 15, 1251–1257.

    Article  PubMed  CAS  Google Scholar 

  33. Delannoy, E., Le Ret, M., Faivre-Nitschke, E., Estavillo, G. M., Bergdoll, M., Taylor, N. L., Pogson, B. J., Small, I., Imbault, P., and Gualberto, J. M. (2009) Plant Cell, 21, 2058–2071.

    Article  PubMed  CAS  Google Scholar 

  34. Binder, S., Marchfelder, A., and Brennicke, A. (1994) Mol. Gen. Genet., 244, 67–74.

    Article  PubMed  CAS  Google Scholar 

  35. Fey, J., Weil, J. H., Tomita, K., Cosset, A., Dietrich, A., Small, I., and Marechal-Drouard, L. (2001) Acta Biochim. Pol., 48, 383–389.

    PubMed  CAS  Google Scholar 

  36. Fey, J., Weil, J. H., Tomita, K., Cosset, A., Dietrich, A., Small, I., and Marechal-Drouard, L. (2002) Gene, 286, 21–24.

    Article  PubMed  CAS  Google Scholar 

  37. Janke, A., and Paabo, S. (1993) Nucleic Acids Res., 21, 1523–1525.

    Article  PubMed  CAS  Google Scholar 

  38. Morl, M., Dorner, M., and Paabo, S. (1995) Nucleic Acids Res., 23, 3380–3384.

    Article  PubMed  CAS  Google Scholar 

  39. Alfonzo, J. D., Blanc, V., Estevez, A. M., Rubio, M. A., and Simpson, L. (1999) EMBO J., 18, 7056–7062.

    Article  PubMed  CAS  Google Scholar 

  40. Rubio, M. A., Ragone, F. L., Gaston, K. W., Ibba, M., and Alfonzo, J. D. (2006) J. Biol. Chem., 281, 115–120.

    Article  PubMed  CAS  Google Scholar 

  41. Gaston, K. W., Rubio, M. A., Spears, J. L., Pastar, I., Papavasiliou, F. N., and Alfonzo, J. D. (2007) Nucleic Acids Res., 35, 6740–6749.

    Article  PubMed  CAS  Google Scholar 

  42. Rubio, M. A., Pastar, I., Gaston, K. W., Ragone, F. L., Janzen, C. J., Cross, G. A., Papavasiliou, F. N., and Alfonzo, J. D. (2007) Proc. Natl. Acad. Sci. USA, 104, 7821–7826.

    Article  PubMed  CAS  Google Scholar 

  43. Randau, L., Stanley, B. J., Kohlway, A., Mechta, S., Xiong, Y., and Soll, D. (2009) Science, 324, 657–659.

    Article  PubMed  CAS  Google Scholar 

  44. Takai, K., Nakamura, K., Toki, T., Tsunogai, U., Miyazaki, M., Miyazaki, J., Hirayama, H., Nakagawa, S., Nunoura, T., and Horikoshi, K. (2008) Proc. Natl. Acad. Sci. USA, 105, 10949–10954.

    Article  PubMed  CAS  Google Scholar 

  45. Slesarev, A. I., Mezhevaya, K. V., Makarova, K. S., Polushin, N. N., Shcherbinina, O. V., Shakhova, V. V., Belova, G. I., Aravind, L., Natale, D. A., Rogozin, I. B., Tatusov, R. L., Wolf, Y. I., Stetter, K. O., Malykh, A. G., Koonin, E. V., and Kozyavkin, S. A. (2002) Proc. Natl. Acad. Sci. USA, 99, 4644–4649.

    Article  PubMed  CAS  Google Scholar 

  46. Sterner, T., Jansen, M., and Hou, Y. M. (1995) RNA, 1, 841–851.

    PubMed  CAS  Google Scholar 

  47. Jones, C. N., Jones, C. I., Graham, W. D., Agris, P. F., and Spremulli, L. L. (2008) J. Biol. Chem., 283, 34445–34456.

    Article  PubMed  CAS  Google Scholar 

  48. Mattoccia, E., Baldi, I. M., Gandini-Attardi, D., Ciafre, S., and Tocchini-Valentini, G. P. (1988) Cell, 55, 731–738.

    Article  PubMed  CAS  Google Scholar 

  49. Palmer, J. R., Baltrus, T., Reeve, J. N., and Daniels, C. J. (1992) Biochim. Biophys. Acta, 1132, 315–318.

    PubMed  CAS  Google Scholar 

  50. Burggraf, S., Stetter, K. O., Rouviere, P., and Woese, C. R. (1991) Syst. Appl. Microbiol., 14, 346–351.

    PubMed  CAS  Google Scholar 

  51. Rivera, M. C., and Lake, J. A. (1996) Int. J. Syst. Bacteriol., 46, 348–351.

    Article  PubMed  CAS  Google Scholar 

  52. Brochier, C., Forterre, P., and Gribaldo, S. (2004) Genome Biol., 5, R17.

    Article  PubMed  Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to L. Randau.

Additional information

Published in Russian in Biokhimiya, 2011, Vol. 76, No. 8, pp. 1142–1148.

Electronic supplementary material

Rights and permissions

Reprints and permissions

About this article

Cite this article

Su, A.A.H., Randau, L. A-to-I and C-to-U editing within transfer RNAs. Biochemistry Moscow 76, 932–937 (2011). https://doi.org/10.1134/S0006297911080098

Download citation

  • Received:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1134/S0006297911080098

Key words

Navigation