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. 1983 Aug 25;11(16):5433–5442. doi: 10.1093/nar/11.16.5433

Sequences of halobacterial tRNAs and the paucity of U in the first position of their anticodons.

X R Gu, K Nicoghosian, R J Cedergren, J T Wong
PMCID: PMC326288  PMID: 6571697

Abstract

The sequence of three tRNAs from Halobacterium cutirubrum have been determined. The sequences of tRNAValGAC and tRNAValCAC differ by only one nucleotide which is in the 5' terminal anticodon position. These tRNAs as well as that of tRNAAlaCGC are compared to other known halobacterial tRNAs. An observed paucity (or absence) of U in the first anticodon position is unique to archaebacterial tRNAs and may be indicative of unusual decoding properties of these organisms.

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Selected References

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  1. Barrell B. G., Anderson S., Bankier A. T., de Bruijn M. H., Chen E., Coulson A. R., Drouin J., Eperon I. C., Nierlich D. P., Roe B. A. Different pattern of codon recognition by mammalian mitochondrial tRNAs. Proc Natl Acad Sci U S A. 1980 Jun;77(6):3164–3166. doi: 10.1073/pnas.77.6.3164. [DOI] [PMC free article] [PubMed] [Google Scholar]
  2. Beauchemin N., Larue B., Cedergren R. J. The characterization of the RNAs and aminoacyl-tRNA synthetases of the blue-green alga, Anacystis nidulans. Arch Biochem Biophys. 1973 May;156(1):17–25. doi: 10.1016/0003-9861(73)90336-6. [DOI] [PubMed] [Google Scholar]
  3. Bonitz S. G., Berlani R., Coruzzi G., Li M., Macino G., Nobrega F. G., Nobrega M. P., Thalenfeld B. E., Tzagoloff A. Codon recognition rules in yeast mitochondria. Proc Natl Acad Sci U S A. 1980 Jun;77(6):3167–3170. doi: 10.1073/pnas.77.6.3167. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Borer P. N., Dengler B., Tinoco I., Jr, Uhlenbeck O. C. Stability of ribonucleic acid double-stranded helices. J Mol Biol. 1974 Jul 15;86(4):843–853. doi: 10.1016/0022-2836(74)90357-x. [DOI] [PubMed] [Google Scholar]
  5. Cedergren R. J. An evaluation of mitochondrial tRNA gene evolution and its relation to the genetic code. Can J Biochem. 1982 Apr;60(4):475–479. doi: 10.1139/o82-056. [DOI] [PubMed] [Google Scholar]
  6. Cedergren R. J., LaRue B., Sankoff D., Lapalme G., Grosjean H. Convergence and minimal mutation criteria for evaluating early events in tRNA evolution. Proc Natl Acad Sci U S A. 1980 May;77(5):2791–2795. doi: 10.1073/pnas.77.5.2791. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Cedergren R. J., Sankoff D., LaRue B., Grosjean H. The evolving tRNA molecule. CRC Crit Rev Biochem. 1981;11(1):35–104. doi: 10.3109/10409238109108699. [DOI] [PubMed] [Google Scholar]
  8. Chen E. Y., Roe B. A. Sequence studies on human placenta tRNAVal : comparison with the mouse myeloma tRNAVal. Biochem Biophys Res Commun. 1977 Sep 23;78(2):631–640. doi: 10.1016/0006-291x(77)90226-1. [DOI] [PubMed] [Google Scholar]
  9. Crick F. H. Codon--anticodon pairing: the wobble hypothesis. J Mol Biol. 1966 Aug;19(2):548–555. doi: 10.1016/s0022-2836(66)80022-0. [DOI] [PubMed] [Google Scholar]
  10. Donis-Keller H., Maxam A. M., Gilbert W. Mapping adenines, guanines, and pyrimidines in RNA. Nucleic Acids Res. 1977 Aug;4(8):2527–2538. doi: 10.1093/nar/4.8.2527. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Dunn R., McCoy J., Simsek M., Majumdar A., Chang S. H., Rajbhandary U. L., Khorana H. G. The bacteriorhodopsin gene. Proc Natl Acad Sci U S A. 1981 Nov;78(11):6744–6748. doi: 10.1073/pnas.78.11.6744. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Fukada K., Abelson J. DNA sequence of a T4 transfer RNA gene cluster. J Mol Biol. 1980 May 25;139(3):377–391. doi: 10.1016/0022-2836(80)90136-9. [DOI] [PubMed] [Google Scholar]
  13. Grosjean H. J., de Henau S., Crothers D. M. On the physical basis for ambiguity in genetic coding interactions. Proc Natl Acad Sci U S A. 1978 Feb;75(2):610–614. doi: 10.1073/pnas.75.2.610. [DOI] [PMC free article] [PubMed] [Google Scholar]
  14. Grosjean H., Cedergren R. J., McKay W. Structure in tRNA data. Biochimie. 1982 Jun;64(6):387–397. doi: 10.1016/s0300-9084(82)80576-2. [DOI] [PubMed] [Google Scholar]
  15. Harada F., Peters G. G., Dahlberg J. E. The primer tRNA for Moloney murine leukemia virus DNA synthesis. Nucleotide sequence and aminoacylation of tRNAPro. J Biol Chem. 1979 Nov 10;254(21):10979–10985. [PubMed] [Google Scholar]
  16. Heckman J. E., Sarnoff J., Alzner-DeWeerd B., Yin S., RajBhandary U. L. Novel features in the genetic code and codon reading patterns in Neurospora crassa mitochondria based on sequences of six mitochondrial tRNAs. Proc Natl Acad Sci U S A. 1980 Jun;77(6):3159–3163. doi: 10.1073/pnas.77.6.3159. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Kashdan M. A., Dudock B. S. The gene for a spinach chloroplast isoleucine tRNA has a methionine anticodon. J Biol Chem. 1982 Oct 10;257(19):11191–11194. [PubMed] [Google Scholar]
  18. Kilpatrick M. W., Walker R. T. The nucleotide sequence of the tRNAMMet from the archaebacterium Thermoplasma acidophilum. Nucleic Acids Res. 1981 Sep 11;9(17):4387–4390. doi: 10.1093/nar/9.17.4387. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Kuchino Y., Ihara M., Yabusaki Y., Nishimura S. Initiator tRNAs from archaebacteria show common unique sequence characteristics. Nature. 1982 Aug 12;298(5875):684–685. doi: 10.1038/298684a0. [DOI] [PubMed] [Google Scholar]
  20. Kwok Y., Wong J. T. Evolutionary relationship between Halobacterium cutirubrum and eukaryotes determined by use of aminoacyl-tRNA synthetases as phylogenetic probes. Can J Biochem. 1980 Mar;58(3):213–218. doi: 10.1139/o80-029. [DOI] [PubMed] [Google Scholar]
  21. Lagerkvist U. "Two out of three": an alternative method for codon reading. Proc Natl Acad Sci U S A. 1978 Apr;75(4):1759–1762. doi: 10.1073/pnas.75.4.1759. [DOI] [PMC free article] [PubMed] [Google Scholar]
  22. Lewin R. Repeated DNA still in search of a function. Science. 1982 Aug 13;217(4560):621–623. doi: 10.1126/science.6283639. [DOI] [PubMed] [Google Scholar]
  23. Mikelsaar R. C-A base pairs in transfer ribonucleic acids and codon-anticodon complexes. J Theor Biol. 1981 Sep 21;92(2):163–180. doi: 10.1016/0022-5193(81)90390-8. [DOI] [PubMed] [Google Scholar]
  24. Moore R. L., McCarthy B. J. Characterization of the deoxyribonucleic acid of various strains of halophilic bacteria. J Bacteriol. 1969 Jul;99(1):248–254. doi: 10.1128/jb.99.1.248-254.1969. [DOI] [PMC free article] [PubMed] [Google Scholar]
  25. Munz P., Amstutz H., Kohli J., Leupold U. Recombination between dispersed serine tRNA genes in Schizosaccharomyces pombe. Nature. 1982 Nov 18;300(5889):225–231. doi: 10.1038/300225a0. [DOI] [PubMed] [Google Scholar]
  26. Pang H., Ihara M., Kuchino Y., Nishimura S., Gupta R., Woese C. R., McCloskey J. A. Structure of a modified nucleoside in archaebacterial tRNA which replaces ribosylthymine. 1-Methylpseudouridine. J Biol Chem. 1982 Apr 10;257(7):3589–3592. [PubMed] [Google Scholar]
  27. Peattie D. A. Direct chemical method for sequencing RNA. Proc Natl Acad Sci U S A. 1979 Apr;76(4):1760–1764. doi: 10.1073/pnas.76.4.1760. [DOI] [PMC free article] [PubMed] [Google Scholar]
  28. Sapienza C., Doolittle W. F. Unusual physical organization of the Halobacterium genome. Nature. 1982 Feb 4;295(5848):384–389. doi: 10.1038/295384a0. [DOI] [PubMed] [Google Scholar]
  29. Shindo-Okada N., Kuchino Y., Harada F., Okada N., Nishimura S. Biological and structural differences between tRNAVal species isolated from rat ascites hepatoma cells and normal rat liver. J Biochem. 1981 Aug;90(2):535–544. doi: 10.1093/oxfordjournals.jbchem.a133502. [DOI] [PubMed] [Google Scholar]
  30. Stanley J., Vassilenko S. A different approach to RNA sequencing. Nature. 1978 Jul 6;274(5666):87–89. doi: 10.1038/274087a0. [DOI] [PubMed] [Google Scholar]
  31. Woese C. R., Fox G. E. Phylogenetic structure of the prokaryotic domain: the primary kingdoms. Proc Natl Acad Sci U S A. 1977 Nov;74(11):5088–5090. doi: 10.1073/pnas.74.11.5088. [DOI] [PMC free article] [PubMed] [Google Scholar]
  32. Woese C. R., Magrum L. J., Fox G. E. Archaebacteria. J Mol Evol. 1978 Aug 2;11(3):245–251. doi: 10.1007/BF01734485. [DOI] [PubMed] [Google Scholar]

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