Symmetries by base substitutions in the genetic code predict 2′ or 3′ aminoacylation of tRNAs

Journal of Theoretical Biology

Volumn 247, Issue 2, 2007, Pages 391-394

  Jestin, Jean Luc ^a   Soulé, Christophe ^a  

^a CNRS   (France)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID TRANSFER RNA LIGASE; TRANSFER RNA;

AMINOACYLATION; CODON; EVOLUTION; GENE DUPLICATION; GENE MUTATION; GENETIC CODE; LETTER; NUCLEIC ACID BASE SUBSTITUTION; PRIORITY JOURNAL; RNA TRANSLATION; SEQUENCE HOMOLOGY;

AMINO ACID SUBSTITUTION; AMINOACYLATION; ANIMALS; GENETIC CODE; RNA, TRANSFER;

EID: 34249790309     PISSN: 00225193     EISSN: 10958541     Source Type: Journal    
DOI: 10.1016/j.jtbi.2007.03.008     Document Type: Letter

References (34)

1. Arnez, J.G., Moras, D., 1994. Aminoacyl-tRNA Synthetase tRNA Recognition. IRL Press, Oxford, pp. 61-81.
2. Bahi J.M., and Michel C.J. A stochastic gene evolution model with time dependent mutations. Bull. Math. Biol. 66 (2004) 763-778
3. Bashford J.D., Tsohantjis I., and Jarvis P.D. Codon and nucleotide assignments in a supersymmetric model of the genetic code. Phys. Lett. A 233 (1997) 481-488
4. Brooks D.J., and Fresco J.R. Increased frequency of cysteine, tyrosine, and phenylalanine residues since the last universal ancestor. Mol. Cell. Proteomics 1 (2002) 125-131
5. Chechetkin V.R. Genetic code from tRNA point of view. J. Theor. Biol. 242 (2006) 922-934
6. Cusack S. Aminoacyl-tRNA synthetases. Curr. Opin. Struct. Biol. 7 (1997) 881-889
7. Delarue M. An asymmetric underlying rule in the assignment of codons. RNA 13 (2007) 161-169
8. Di Giulio M. The non-monophyletic origin of the tRNA molecule and the origin of genes only after the evolutionary stage of the last universal common ancestor. J. Theor. Biol. 240 (2006) 343-352
9. Di Giulio M., Capobianco M.R., and Medugno M. On the optimization of the physicochemical distances between amino acids in the evolution of the genetic code. J. Theor. Biol. 168 (1994) 43-51
10. Eriani G., Delarue M., Poch O., Gangloff J., and Moras D. Partition of tRNA synthetases into two classes based on mutually exclusive sets of sequence motifs. Nature 347 (1990) 203-206
11. Freeland S.J., Knight R.D., Landweber L.F., and Hurst L.D. Early fixation of an optimal genetic code. Mol. Biol. Evol. 17 (2000) 511-518
12. Goldberg A.L., and Wittes R.E. Genetic code: aspects of organization. Science 153 (1966) 420-424
13. Hornos J.E.M., and Hornos Y.M.M. Algebraic model for the evolution of the genetic code. Phys. Rev. Lett. 71 (1993) 4401-4404
14. Jestin J.L. Degeneracy in the genetic code and its symmetries by base substitutions. C R Biol. 329 (2006) 168-171
15. Jestin J.L., and Kempf A. Chain-termination codons and polymerase-induced frameshift mutations. FEBS Lett. 419 (1997) 153-156
16. Klipcan L., and Safro M. Amino acid biogenesis, evolution of the genetic code and aminoacyl-tRNA synthetases. J. Theor. Biol. 228 (2004) 389-396
17. Klump H.H. Exploring the energy landscape of the genetic code. Arch. Biochem. Biophys. 453 (2006) 87-92
18. Koch A.J., and Lehmann J. About a symmetry of the genetic code. J. Theor. Biol. 189 (1997) 171-174
19. Kyte J., and Doolittle R.F. A simple method for displaying the hydropathic character of a protein. J. Mol. Biol. 157 (1982) 105-132
20. Lehmann J. Physico-chemical constraints connected with the coding properties of the genetic system. J. Theor. Biol. 202 (2000) 129-144
21. Martinez Gimenez J.A., and Tabares Seisdedos R. On the dimerization of the primitive tRNAs: implications in the origin of genetic code. J. Theor. Biol. 217 (2002) 493-498
22. Raszka M., and Mandel M. Is there a physical chemical basis for the present genetic code?. J. Mol. Evol. 2 (1972) 38-43
23. Rodin S.N., and Rodin A.S. Origin of the genetic code: first aminoacyl-tRNA synthetases could replace isofunctional ribozymes when only the second base of codons was established. DNA Cell Biol. 25 (2006) 365-375
24. Rumer Y.B. About the codon's systematization in the genetic code. Proc. Acad. Sci. USSR 167 (1966) 1393-1394
25. Seligmann H., and Pollock D.D. The ambush hypothesis: hidden stop codons prevent off-frame gene reading. DNA Cell Biol. 23 (2004) 701-705
26. Sella G., and Ardell D.H. The coevolution of genes and genetic codes: Crick's frozen accident revisited. J. Mol. Evol. 63 (2006) 297-313
27. Shcherbak V.I. Rumer's rule and transformation in the context of the co-operative symmetry of the genetic code. J. Theor. Biol. 139 (1989) 271-276
28. Shitivelband S., and Hou Y.M. Breaking the stereo barrier of amino acid attachment to tRNA by a single nucleotide. J. Mol. Biol. 348 (2005) 513-521
29. ′-hydroxyl group of the terminal adenosine. Proc. Natl Acad. Sci. USA 72 (1975) 3049-3053
30. Torabi N., Goodarzi H., and Najafabadi H.S. The case of an error minimizing set of coding amino acids. J. Theor. Biol. 244 (2007) 737-744
31. Woese C.R., Olsen G.J., Ibba M., and Soll D. Aminoacyl-tRNA synthetases, the genetic code, and the evolutionary process. Microbiol. Mol. Biol. Rev. 64 (2000) 202-236
32. Wong J.T. Coevolution theory of the genetic code at age thirty. Bioessays 27 (2005) 416-425
33. Yang C.M. On the 28-gon symmetry inherent in the genetic code intertwined with aminoacyl-tRNA synthetases-the Lucas series. Bull. Math. Biol. 66 (2004) 1241-1257
34. Yarus M. Amino acids as RNA ligands: a direct-RNA-template theory for the code's origin. J. Mol. Evol. 47 (1998) 109-117