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PMID: 3185504 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

The repressor gene (c) of the Streptomyces temperate phage phi c31: nucleotide sequence, analysis and functional cloning.

Molecular & general genetics : MGG ·Vol. 213 ·No. 2-3 ·1988-08-00 ·Pages 269-77

Sinclair RB, Bibb MJ

Abstract

The nucleotide sequence of the 3.4 kb SphI-G fragment that contained the repressor gene (c) of the temperate Streptomyces phage phi c31 was determined. Analysis of this sequence revealed a large open reading frame with protein coding character and sequence changes in c gene point and deletion mutants identified this as the coding region of the repressor. Two of the mutants studied had undergone deletions of 1.1 kb and 1.4 kb that had occurred across short direct repeats of 6 bp and 11 bp, respectively. Coupled in vitro transcription-translation experiments using the cloned SphI-G fragment and Streptomyces lividans cell free extracts identified a protein product of approximately 72 kDa, in close agreement with that predicted from the nucleotide sequence. A strongly predicted helix-turn-helix motif that may be involved in DNA binding occurred towards the carboxy-terminus of the amino acid sequence. Initial attempts to clone the SphI-G fragment in Streptomyces failed; using information gained from the sequence analysis a smaller segment of this DNA fragment was cloned in S. lividans and conferred immunity to a clear plaque mutant (c1) of phi c31.

MeSH Terms
Bacteriophages/genetics Base Sequence Cloning, Molecular Codon/genetics DNA, Viral/genetics Genes, Regulator Genes, Viral Molecular Sequence Data Mutation Protein Biosynthesis Restriction Mapping Streptomyces/genetics Transcription, Genetic
Chemicals
Codon DNA, Viral
Authors & Affiliations
2 authors, click to expand affiliations / ORCID
Sinclair R B
John Innes Institute, Norwich, UK.
Bibb M J
References (45)
45 references, click to expand
  1. A DNA cloning system for interspecies gene transfer in antibiotic-producing Streptomyces.
    Nature. 1980 Apr 10;284(5756):526-31 PMID: 7366721
  2. [Thermal induction of prophage in germinating spores of Streptomyces coelicolor A3(2) (0C31 ct-1)].
    Mikrobiologiia. 1973 Jul-Aug;42(4):713-8 PMID: 4791162
  3. The structure and evolution of the human beta-globin gene family.
    Cell. 1980 Oct;21(3):653-68 PMID: 6985477
  4. Preferential codon usage in prokaryotic genes: the optimal codon-anticodon interaction energy and the selective codon usage in efficiently expressed genes.
    Gene. 1982 Jun;18(3):199-209 PMID: 6751939
  5. Cleavage of structural proteins during the assembly of the head of bacteriophage T4.
    Nature. 1970 Aug 15;227(5259):680-5 PMID: 5432063
  6. Rapid and efficient cosmid cloning.
    Nucleic Acids Res. 1981 Jul 10;9(13):2989-98 PMID: 6269067
  7. Studies on transformation of Escherichia coli with plasmids.
    J Mol Biol. 1983 Jun 5;166(4):557-80 PMID: 6345791
  8. Structure-independent nucleotide sequence analysis.
    Proc Natl Acad Sci U S A. 1979 May;76(5):2232-5 PMID: 287063
  9. Genetic studies of the lac repressor. VII. On the molecular nature of spontaneous hotspots in the lacI gene of Escherichia coli.
    J Mol Biol. 1978 Dec 25;126(4):847-57 PMID: 370408
  10. Phase variation: evolution of a controlling element.
    Science. 1980 Sep 19;209(4463):1370-4 PMID: 6251543
  11. A new computer method for the storage and manipulation of DNA gel reading data.
    Nucleic Acids Res. 1980 Aug 25;8(16):3673-94 PMID: 7433103
  12. Characterization of temperate actinophage phi C31 isolated from Streptomyces coelicolor A3(2).
    J Virol. 1972 Feb;9(2):258-62 PMID: 5014931
  13. A computer algorithm for testing potential prokaryotic terminators.
    Nucleic Acids Res. 1984 May 25;12(10):4411-27 PMID: 6374619
  14. On codon usage.
    Nature. 1979 Jan 25;277(5694):328 PMID: 368645
  15. Estimate of the genome size by renaturation studies in Streptomyces.
    Appl Microbiol. 1975 Aug;30(2):324-6 PMID: 1164013
  16. The Streptomyces plasmid SCP2*: its functional analysis and development into useful cloning vectors.
    Gene. 1985;35(3):223-35 PMID: 2995202
  17. Automation of the computer handling of gel reading data produced by the shotgun method of DNA sequencing.
    Nucleic Acids Res. 1982 Aug 11;10(15):4731-51 PMID: 7133997
  18. [Genetic mapping and characteristics of the actinophage phi C31 deletion mutants of Streptomyces coelicolor A3(2) incapable of lysogenization].
    Genetika. 1981;17(11):1967-74 PMID: 6947925
  19. Characteristics of the developmental cycle of actinophage phi C31.
    J Gen Microbiol. 1986 Jun;132(6):1695-701 PMID: 3806054
  20. Rapid similarity searches of nucleic acid and protein data banks.
    Proc Natl Acad Sci U S A. 1983 Feb;80(3):726-30 PMID: 6572363
  21. Regulation of diaminopimelate decarboxylase synthesis in Escherichia coli. III. Nucleotide sequence and regulation of the lysR gene.
    J Mol Biol. 1983 Aug 5;168(2):333-50 PMID: 6350602
  22. Rapid and sensitive protein similarity searches.
    Science. 1985 Mar 22;227(4693):1435-41 PMID: 2983426
  23. A transcription terminator in the 5' non-coding region of the tyrosyl tRNA synthetase gene from Bacillus stearothermophilus.
    Eur J Biochem. 1986 Aug 1;158(3):505-10 PMID: 3525162
  24. The relationship between base composition and codon usage in bacterial genes and its use for the simple and reliable identification of protein-coding sequences.
    Gene. 1984 Oct;30(1-3):157-66 PMID: 6096212
  25. Nucleotide sequence of bacteriophage lambda DNA.
    J Mol Biol. 1982 Dec 25;162(4):729-73 PMID: 6221115
  26. Plasmids, recombination and chromosome mapping in Streptomyces lividans 66.
    J Gen Microbiol. 1983 Jul;129(7):2257-69 PMID: 6631413
  27. Unidirectional digestion with exonuclease III creates targeted breakpoints for DNA sequencing.
    Gene. 1984 Jun;28(3):351-9 PMID: 6235151
  28. pUR222, a vector for cloning and rapid chemical sequencing of DNA.
    Nucleic Acids Res. 1981 Aug 25;9(16):4087-98 PMID: 6272193
  29. Codon usage in regulatory genes in Escherichia coli does not reflect selection for 'rare' codons.
    Nucleic Acids Res. 1986 Oct 10;14(19):7737-49 PMID: 3534792
  30. Identification and suppression of secondary structures formed from deoxy-oligonucleotides during electrophoresis in denaturing polyacrylamide-gels.
    Nucleic Acids Res. 1981 Oct 10;9(19):4967-79 PMID: 7312623
  31. [Physical mapping of Streptomyces coelicolor A3(2) actinophage DNA. I. Location of the c-region of actinophage phiC31].
    Mol Biol (Mosk). 1980 Jul-Aug;14(4):910-5 PMID: 6775185
  32. Protein-DNA recognition.
    Annu Rev Biochem. 1984;53:293-321 PMID: 6236744
  33. Determination of the molecular mass of bacterial genomic DNA and plasmid copy number by high-pressure liquid chromatography.
    Appl Environ Microbiol. 1985 Oct;50(4):1007-13 PMID: 4083871
  34. Characterization of translational initiation sites in E. coli.
    Nucleic Acids Res. 1982 May 11;10(9):2971-96 PMID: 7048258
  35. The restriction mapping of c gene deletions in Streptomyces bacteriophage phi C31 and their use in cloning vector development.
    Gene. 1983 May-Jun;22(2-3):167-74 PMID: 6307817
  36. Gel electrophoresis of restriction fragments.
    Methods Enzymol. 1979;68:152-76 PMID: 232210
  37. Multiple copies of iso-insertion sequences of IS1 in Shigella dysenteriae chromosome.
    Nature. 1981 Aug 13;292(5824):640-3 PMID: 6265806
  38. The nucleotide sequence of the malT gene encoding the positive regulator of the Escherichia coli maltose regulon.
    Gene. 1986;42(2):201-8 PMID: 3015733
  39. Genetics and molecular biology of Streptomyces bacteriophages.
    Microbiol Rev. 1980 Jun;44(2):206-29 PMID: 6247632
  40. On the formation of spontaneous deletions: the importance of short sequence homologies in the generation of large deletions.
    Cell. 1982 Jun;29(2):319-28 PMID: 6288254
  41. Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mp18 and pUC19 vectors.
    Gene. 1985;33(1):103-19 PMID: 2985470
  42. Cloning and expression of the tyrosinase gene from Streptomyces antibioticus in Streptomyces lividans.
    J Gen Microbiol. 1983 Sep;129(9):2703-14 PMID: 6313861
  43. DNA sequence of the araC regulatory gene from Escherichia coli B/r.
    Nucleic Acids Res. 1980 Nov 25;8(22):5267-74 PMID: 7008027
  44. Coupled transcription--translation in extracts of Streptomyces lividans.
    Mol Gen Genet. 1984;195(1-2):39-43 PMID: 6593562
  45. The codon preference plot: graphic analysis of protein coding sequences and prediction of gene expression.
    Nucleic Acids Res. 1984 Jan 11;12(1 Pt 2):539-49 PMID: 6694906
Article Info
Journal
Molecular & general genetics : MGG
Abbr.
Mol Gen Genet
ISSN
0026-8925
DOI
10.1007/BF00339591
Published
1988-08-00
Pages
269-77
Language
English
Region
Germany
NLM ID
0125036
Subset
IM
Databases
GENBANK
X12865
External Links
PubMed source DOI: 10.1007/BF00339591
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