Skip to main content
NCBI home page
Nucleic Acids Research logoLink to Nucleic Acids Research
. 1981 May 11;9(9):2121–2139. doi: 10.1093/nar/9.9.2121

Nucleotide sequence of an Escherichia coli tRNA (Leu 1) operon and identification of the transcription promoter signal.

G Duester, R K Campen, W M Holmes
PMCID: PMC326830  PMID: 6272226

Abstract

Fourteen different DNA fragments containing Escherichia coli tRNA genes have been cloned using the vector pBR322. We report the methods of cloning, the identification of specific tRNA genes, and the presence or absence of rRNA genes on these cloned DNA fragments. In particular, one chimeric plasmid contains a 17.0 kilobase pair EcoRI fragment bearing tRNA(Leu 1) sequences. Using nucleotide sequence analysis we have identified a cluster of three tandem tRNA(Leu 1) genes separated by intergenic spacers of 27 and 34 base pairs, respectively. The nucleotide sequence upstream of the first gene contains a transcription promoter site. A G-C rich sequence (5'-CGCCTCC-3') found between the Pribnow box and initiation site is very similar to the corresponding sequence found in other genes which are under stringent control.

Full text

PDF
2121

Images in this article

2128Image
on p.2128
2131Image
on p.2131
2132Image
on p.2132
2134Image
on p.2134

Selected References

These references are in PubMed. This may not be the complete list of references from this article.

  1. Altman S., Smith J. D. Tyrosine tRNA precursor molecule polynucleotide sequence. Nat New Biol. 1971 Sep 8;233(36):35–39. doi: 10.1038/newbio233035a0. [DOI] [PubMed] [Google Scholar]
  2. Blank H. U., Söll D. The nucleotide sequence of two leucine tRNA species from Escherichia coli K12. Biochem Biophys Res Commun. 1971 Jun 4;43(5):1192–1197. doi: 10.1016/0006-291x(71)90589-4. [DOI] [PubMed] [Google Scholar]
  3. Bruce A. G., Uhlenbeck O. C. Reactions at the termini of tRNA with T4 RNA ligase. Nucleic Acids Res. 1978 Oct;5(10):3665–3677. doi: 10.1093/nar/5.10.3665. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Campen R. K., Duester G. L., Holmes W. M., Young J. M. Organization of transfer ribonucleic acid genes in the Escherichia coli chromosome. J Bacteriol. 1980 Dec;144(3):1083–1093. doi: 10.1128/jb.144.3.1083-1093.1980. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Cashel M., Lazzarini R. A., Kalbacher B. An improved method for thin-layer chromatography of nucleotide mixtures containing 32P-labelled orthophosphate. J Chromatogr. 1969 Mar 11;40(1):103–109. doi: 10.1016/s0021-9673(01)96624-5. [DOI] [PubMed] [Google Scholar]
  6. Clewell D. B. Nature of Col E 1 plasmid replication in Escherichia coli in the presence of the chloramphenicol. J Bacteriol. 1972 May;110(2):667–676. doi: 10.1128/jb.110.2.667-676.1972. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Csordás-Tóth E., Boros I., Venetianer P. Structure of the promoter region for the rrnB gene in Escherichia coli. Nucleic Acids Res. 1979 Dec 20;7(8):2189–2197. doi: 10.1093/nar/7.8.2189. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Dube S. K., Marcker K. A., Yudelevich A. The nucleotide sequence of a leucine transfer RNA from E. coli. FEBS Lett. 1970 Sep 6;9(3):168–170. doi: 10.1016/0014-5793(70)80345-3. [DOI] [PubMed] [Google Scholar]
  9. Duester G. L., Holmes W. M. The distal end of the ribosomal RNA operon rrnD of Escherichia coli contains a tRNA1thr gene, two 5s rRNA genes and a transcription terminator. Nucleic Acids Res. 1980 Sep 11;8(17):3793–3807. doi: 10.1093/nar/8.17.3793. [DOI] [PMC free article] [PubMed] [Google Scholar]
  10. Egan J., Landy A. Structural analysis of the tRNA1Tyr gene of Escherichia coli. A 178 base pair sequence that is repeated 3.14 times. J Biol Chem. 1978 May 25;253(10):3607–3622. [PubMed] [Google Scholar]
  11. Gallant J. A. Stringent control in E. coli. Annu Rev Genet. 1979;13:393–415. doi: 10.1146/annurev.ge.13.120179.002141. [DOI] [PubMed] [Google Scholar]
  12. Gauss D. H., Grüter F., Sprinzl M. Compilation of tRNA sequences. Nucleic Acids Res. 1979 Jan;6(1):r1–r19. [PMC free article] [PubMed] [Google Scholar]
  13. Ikemura T., Ozeki H. Gross map location of Escherichia coli transfer RNA genes. J Mol Biol. 1977 Dec 5;117(2):419–446. doi: 10.1016/0022-2836(77)90136-x. [DOI] [PubMed] [Google Scholar]
  14. Ilgen C., Kirk L. L., Carbon J. Isolation and characterization of large transfer ribonucleic acid precursors from Escherichia coli. J Biol Chem. 1976 Feb 25;251(4):922–929. [PubMed] [Google Scholar]
  15. Klenow H., Overgaard-Hansen K. Proteolytic cleavage of DNA polymerase from Escherichia Coli B into an exonuclease unit and a polymerase unit. FEBS Lett. 1970 Jan 15;6(1):25–27. doi: 10.1016/0014-5793(70)80032-1. [DOI] [PubMed] [Google Scholar]
  16. Küpper H., Sekiya T., Rosenberg M., Egan J., Landy A. A rho-dependent termination site in the gene coding for tyrosine tRNA su3 of Escherichia coli. Nature. 1978 Mar 30;272(5652):423–428. doi: 10.1038/272423a0. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. MARMUR J., DOTY P. Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. J Mol Biol. 1962 Jul;5:109–118. doi: 10.1016/s0022-2836(62)80066-7. [DOI] [PubMed] [Google Scholar]
  18. 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]
  19. Morgan E. A., Ikemura T., Lindahl L., Fallon A. M., Nomura M. Some rRNA operons in E. coli have tRNA genes at their distal ends. Cell. 1978 Feb;13(2):335–344. doi: 10.1016/0092-8674(78)90202-7. [DOI] [PubMed] [Google Scholar]
  20. Morgan E. A. Insertions of Tn 10 into an E. coli ribosomal RNA operon are incompletely polar. Cell. 1980 Aug;21(1):257–265. doi: 10.1016/0092-8674(80)90133-6. [DOI] [PubMed] [Google Scholar]
  21. 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]
  22. Nomura M., Morgan E. A. Genetics of bacterial ribosomes. Annu Rev Genet. 1977;11:297–347. doi: 10.1146/annurev.ge.11.120177.001501. [DOI] [PubMed] [Google Scholar]
  23. Rosenberg M., Court D. Regulatory sequences involved in the promotion and termination of RNA transcription. Annu Rev Genet. 1979;13:319–353. doi: 10.1146/annurev.ge.13.120179.001535. [DOI] [PubMed] [Google Scholar]
  24. Rosenberg M., Court D., Shimatake H., Brady C., Wulff D. L. The relationship between function and DNA sequence in an intercistronic regulatory region in phage lambda. Nature. 1978 Mar 30;272(5652):414–423. doi: 10.1038/272414a0. [DOI] [PubMed] [Google Scholar]
  25. Rossi J. J., Landy A. Structure and organization of the two tRNATyr gene clusters on the E. coli chromosome. Cell. 1979 Mar;16(3):523–534. doi: 10.1016/0092-8674(79)90027-8. [DOI] [PubMed] [Google Scholar]
  26. Sekiya T., Mori M., Takahashi N., Nishimura S. Sequence of the distal tRNA1Asp gene and the transcription termination signal in the Escherichia coli ribosomal RNA operon rrnF(or G). Nucleic Acids Res. 1980 Sep 11;8(17):3809–3827. doi: 10.1093/nar/8.17.3809. [DOI] [PMC free article] [PubMed] [Google Scholar]
  27. Smith H. O., Birnstiel M. L. A simple method for DNA restriction site mapping. Nucleic Acids Res. 1976 Sep;3(9):2387–2398. doi: 10.1093/nar/3.9.2387. [DOI] [PMC free article] [PubMed] [Google Scholar]
  28. Smith J. D. Transcription and processing of transfer RNA precursors. Prog Nucleic Acid Res Mol Biol. 1976;16:25–73. doi: 10.1016/s0079-6603(08)60755-2. [DOI] [PubMed] [Google Scholar]
  29. 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]
  30. Sutcliffe J. G. Complete nucleotide sequence of the Escherichia coli plasmid pBR322. Cold Spring Harb Symp Quant Biol. 1979;43(Pt 1):77–90. doi: 10.1101/sqb.1979.043.01.013. [DOI] [PubMed] [Google Scholar]
  31. Szybalski E. H., Szybalski W. A comprehensive molecular map of bacteriophage lambda. Gene. 1979 Nov;7(3-4):217–270. doi: 10.1016/0378-1119(79)90047-7. [DOI] [PubMed] [Google Scholar]
  32. Tabak H. F., Flavell R. A. A method for the recovery of DNA from agarose gels. Nucleic Acids Res. 1978 Jul;5(7):2321–2332. doi: 10.1093/nar/5.7.2321. [DOI] [PMC free article] [PubMed] [Google Scholar]
  33. Travers A. A. Promoter sequence for stringent control of bacterial ribonucleic acid synthesis. J Bacteriol. 1980 Feb;141(2):973–976. doi: 10.1128/jb.141.2.973-976.1980. [DOI] [PMC free article] [PubMed] [Google Scholar]
  34. Young R. A., Macklis R., Steitz J. A. Sequence of the 16 S-23 s spacer region in two ribosomal RNA operons of Escherichia coli. J Biol Chem. 1979 May 10;254(9):3264–3271. [PubMed] [Google Scholar]
  35. Young R. A., Steitz J. A. Tandem promoters direct E. coli ribosomal RNA synthesis. Cell. 1979 May;17(1):225–234. doi: 10.1016/0092-8674(79)90310-6. [DOI] [PubMed] [Google Scholar]
  36. Young R. A. Transcription termination in the Escherichia coli ribosomal RNA operon rrnC. J Biol Chem. 1979 Dec 25;254(24):12725–12731. [PubMed] [Google Scholar]

Articles from Nucleic Acids Research are provided here courtesy of Oxford University Press

RESOURCES