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. 1983 Jun;80(11):3309–3312. doi: 10.1073/pnas.80.11.3309

Putative introns in tRNA genes of prokaryotes.

B P Kaine, R Gupta, C R Woese
PMCID: PMC394031  PMID: 6304706

Abstract

Sequences of two putative tRNA genes, for serine and leucine, from the archaebacterium Sulfolobus solfataricus contain intervening sequences in the anticodon region. Furthermore, the genes lack encoded CCA 3' termini and are flanked by A + T-rich DNA segments. The introns can both form the same secondary structure, which is a double-helical extension of the anticodon stalk. The resulting structure contains two symmetrically placed 3-base bulge loops, in which are located cleavage sites for the introns. In the one case tested, the gene occurs as a single copy in the genome.

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Selected References

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  1. Abelson J. RNA processing and the intervening sequence problem. Annu Rev Biochem. 1979;48:1035–1069. doi: 10.1146/annurev.bi.48.070179.005131. [DOI] [PubMed] [Google Scholar]
  2. Bolivar F., Rodriguez R. L., Greene P. J., Betlach M. C., Heyneker H. L., Boyer H. W., Crosa J. H., Falkow S. Construction and characterization of new cloning vehicles. II. A multipurpose cloning system. Gene. 1977;2(2):95–113. [PubMed] [Google Scholar]
  3. Breathnach R., Chambon P. Organization and expression of eucaryotic split genes coding for proteins. Annu Rev Biochem. 1981;50:349–383. doi: 10.1146/annurev.bi.50.070181.002025. [DOI] [PubMed] [Google Scholar]
  4. Duester G., Campen R. K., Holmes W. M. Nucleotide sequence of an Escherichia coli tRNA (Leu 1) operon and identification of the transcription promoter signal. Nucleic Acids Res. 1981 May 11;9(9):2121–2139. doi: 10.1093/nar/9.9.2121. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. England T. E., Bruce A. G., Uhlenbeck O. C. Specific labeling of 3' termini of RNA with T4 RNA ligase. Methods Enzymol. 1980;65(1):65–74. doi: 10.1016/s0076-6879(80)65011-3. [DOI] [PubMed] [Google Scholar]
  6. Fox G. E., Stackebrandt E., Hespell R. B., Gibson J., Maniloff J., Dyer T. A., Wolfe R. S., Balch W. E., Tanner R. S., Magrum L. J. The phylogeny of prokaryotes. Science. 1980 Jul 25;209(4455):457–463. doi: 10.1126/science.6771870. [DOI] [PubMed] [Google Scholar]
  7. Gauss D. H., Sprinzl M. Compilation of tRNA sequences. Nucleic Acids Res. 1983 Jan 11;11(1):r1–53. [PMC free article] [PubMed] [Google Scholar]
  8. Grunstein M., Hogness D. S. Colony hybridization: a method for the isolation of cloned DNAs that contain a specific gene. Proc Natl Acad Sci U S A. 1975 Oct;72(10):3961–3965. doi: 10.1073/pnas.72.10.3961. [DOI] [PMC free article] [PubMed] [Google Scholar]
  9. Kessel M., Klink F. Archaebacterial elongation factor is ADP-ribosylated by diphtheria toxin. Nature. 1980 Sep 18;287(5779):250–251. doi: 10.1038/287250a0. [DOI] [PubMed] [Google Scholar]
  10. Loughney K., Lund E., Dahlberg J. E. tRNA genes are found between 16S and 23S rRNA genes in Bacillus subtilis. Nucleic Acids Res. 1982 Mar 11;10(5):1607–1624. doi: 10.1093/nar/10.5.1607. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Maxam A. M., Gilbert W. Sequencing end-labeled DNA with base-specific chemical cleavages. Methods Enzymol. 1980;65(1):499–560. doi: 10.1016/s0076-6879(80)65059-9. [DOI] [PubMed] [Google Scholar]
  12. Nakajima N., Ozeki H., Shimura Y. Organization and structure of an E. coli tRNA operon containing seven tRNA genes. Cell. 1981 Jan;23(1):239–249. doi: 10.1016/0092-8674(81)90288-9. [DOI] [PubMed] [Google Scholar]
  13. Prangishvilli D., Zillig W., Gierl A., Biesert L., Holz I. DNA-dependent RNA polymerase of thermoacidophilic archaebacteria. Eur J Biochem. 1982 Mar 1;122(3):471–477. doi: 10.1111/j.1432-1033.1982.tb06461.x. [DOI] [PubMed] [Google Scholar]
  14. Rich A., RajBhandary U. L. Transfer RNA: molecular structure, sequence, and properties. Annu Rev Biochem. 1976;45:805–860. doi: 10.1146/annurev.bi.45.070176.004105. [DOI] [PubMed] [Google Scholar]
  15. Robinson R. R., Davidson N. Analysis of a drosophila tRNA gene cluster: two tRNALeu genes contain intervening sequences. Cell. 1981 Jan;23(1):251–259. doi: 10.1016/0092-8674(81)90289-0. [DOI] [PubMed] [Google Scholar]
  16. Selker E., Yanofsky C. A phenylalanine tRNA gene from Neurospora crassa: conservation of secondary structure involving an intervening sequence. Nucleic Acids Res. 1980 Mar 11;8(5):1033–1042. doi: 10.1093/nar/8.5.1033. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Southern E. M. Detection of specific sequences among DNA fragments separated by gel electrophoresis. J Mol Biol. 1975 Nov 5;98(3):503–517. doi: 10.1016/s0022-2836(75)80083-0. [DOI] [PubMed] [Google Scholar]
  18. Valenzuela P., Venegas A., Weinberg F., Bishop R., Rutter W. J. Structure of yeast phenylalanine-tRNA genes: an intervening DNA segment within the region coding for the tRNA. Proc Natl Acad Sci U S A. 1978 Jan;75(1):190–194. doi: 10.1073/pnas.75.1.190. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Venegas A., Quiroga M., Zaldivar J., Rutter W. J., Valenzuela P. Isolation of yeast tRNALeu genes. DNA sequence of a cloned tRNALeu3 gene. J Biol Chem. 1979 Dec 25;254(24):12306–12309. [PubMed] [Google Scholar]
  20. Wieslander L. A simple method to recover intact high molecular weight RNA and DNA after electrophoretic separation in low gelling temperature agarose gels. Anal Biochem. 1979 Oct 1;98(2):305–309. doi: 10.1016/0003-2697(79)90145-3. [DOI] [PubMed] [Google Scholar]
  21. 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]

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