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. 1977 Feb;4(2):445–455. doi: 10.1093/nar/4.2.445

On the mechanism of oligonucleotide-primed RNA synthesis. II. Synthesis of specific primer-initiated RNA copies suitable for DNA sequence analysis.

C F Van Kreijl, R H Beelen, P Borst
PMCID: PMC342444  PMID: 320560

Abstract

The effect of temperature and primer concentration on oligonucleotide-primed transcription has been studied using the separated strands of a well-defined natural DNA as template. Results were similar to those obtained in the homopolymer-directed model systems. At high temperature and excess primer concentration mainly primer-initiated RNA copies are synthesized. Omission of one ribonucleoside triphosphate also makes the termination specific. The unique RNA fragments thus obtained have been used to determine the perfectly-repeated sequence of 68 base pairs in this DNA.

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Selected References

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

  1. Air G. M., Blackburn E. H., Sanger F., Coulson A. R. The nucleotide and amino acid sequences of the N (5') terminal region of gene G of bacteriophage phiphiX 174. J Mol Biol. 1975 Aug 25;96(4):703–719. doi: 10.1016/0022-2836(75)90147-3. [DOI] [PubMed] [Google Scholar]
  2. Barrell B. G., Weith H. L., Donelson J. E., Robertson H. D. Sequence analysis of the ribosome-protected bacteriophase phiX174 DNA fragment containing the gene G initiation site. J Mol Biol. 1975 Mar 5;92(3):377–393. doi: 10.1016/0022-2836(75)90287-9. [DOI] [PubMed] [Google Scholar]
  3. Blackburn E. H. Transcription by Escherichia coli RNA polymerase of a single-stranded fragment by bacteriophage phiX174 DNA 48 residues in length. J Mol Biol. 1975 Apr 15;93(3):367–374. doi: 10.1016/0022-2836(75)90283-1. [DOI] [PubMed] [Google Scholar]
  4. Dahlberg J. E., Blattner F. R. Sequence of the promoter-operator proximal region of the major leftward RNA of bacteriophage lambda. Nucleic Acids Res. 1975 Sep;2(9):1441–1458. doi: 10.1093/nar/2.9.1441. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Darlix J. L., Dausse J. P. Localization of Escherichia coli RNA polymerase initiation sites in T7 DNA early promoter region. FEBS Lett. 1975 Feb 1;50(2):214–218. doi: 10.1016/0014-5793(75)80491-1. [DOI] [PubMed] [Google Scholar]
  6. Downey K. M., Jurmark B. S., So A. G. Determination of nucleotide sequences at promoter regions by the use of dinucleotides. Biochemistry. 1971 Dec 21;10(26):4970–4975. doi: 10.1021/bi00802a021. [DOI] [PubMed] [Google Scholar]
  7. Gilbert W., Maxam A. The nucleotide sequence of the lac operator. Proc Natl Acad Sci U S A. 1973 Dec;70(12):3581–3584. doi: 10.1073/pnas.70.12.3581. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Hoffman D. J., Niyogi S. K. Differential effects of sigma factor, ionic strength, and ribonucleoside triphosphate concentration on the transcription of phage T4 DNA with ribonucleic acid polymerase of Escherichia coli. Biochim Biophys Acta. 1973 Apr 11;299(4):588–595. doi: 10.1016/0005-2787(73)90231-1. [DOI] [PubMed] [Google Scholar]
  9. Hoffman D. J., Niyogi S. K. RNA initiation with dinucleoside monophosphates during transcription of bacteriophage T4 DNA with RNA polymerase of Escherichia coli. Proc Natl Acad Sci U S A. 1973 Feb;70(2):574–578. doi: 10.1073/pnas.70.2.574. [DOI] [PMC free article] [PubMed] [Google Scholar]
  10. Hollenberg C. P., Borst P., Flavell R. A., van Kreijl C. F., van Bruggen E. F., Arnberg A. C. The unusual properties of mtDNA from a "low-density" petite mutant of yeast. Biochim Biophys Acta. 1972 Aug 16;277(1):44–58. doi: 10.1016/0005-2787(72)90350-4. [DOI] [PubMed] [Google Scholar]
  11. Kovac L., Groot G. S., Racker E. Translocation of protons and potassium ions across the mitochondrial membrane of respiring and respiration-deficient yeasts. Biochim Biophys Acta. 1972 Jan 21;256(1):55–65. doi: 10.1016/0005-2728(72)90162-4. [DOI] [PubMed] [Google Scholar]
  12. Lebowitz P., Weissman S. M., Radding C. M. Nucleotide sequence of a ribonucleic acid transcribed in vitro from lambda phage deoxyribonucleic acid. J Biol Chem. 1971 Aug 25;246(16):5120–5139. [PubMed] [Google Scholar]
  13. Maizels N. M. The nucleotide sequence of the lactose messenger ribonucleic acid transcribed from the UV5 promoter mutant of Escherichia coli. Proc Natl Acad Sci U S A. 1973 Dec;70(12):3585–3589. doi: 10.1073/pnas.70.12.3585. [DOI] [PMC free article] [PubMed] [Google Scholar]
  14. Marotta C. A., Lebowitz P., Dhar R., Zain B. S., Weissman S. M. Preparation of RNA transcripts of discrete segments of DNA. Methods Enzymol. 1974;29:254–272. doi: 10.1016/0076-6879(74)29026-8. [DOI] [PubMed] [Google Scholar]
  15. Minkley E. G., Pribnow D. Transcription of the early region of bacteriophage T7: selective initiation with dinucleotides. J Mol Biol. 1973 Jun 25;77(2):255–277. doi: 10.1016/0022-2836(73)90335-5. [DOI] [PubMed] [Google Scholar]
  16. Mol J. N., Borst P., Grosveld F. G., Spencer J. H. The size of the repeating unit of the repetitive mitochondrial DNA from a "low-density" petite mutant of yeast. Biochim Biophys Acta. 1974 Dec 6;374(2):115–128. doi: 10.1016/0005-2787(74)90355-4. [DOI] [PubMed] [Google Scholar]
  17. Pirrotta V. Sequence of the OR operator of phage lambda. Nature. 1975 Mar 13;254(5496):114–117. doi: 10.1038/254114a0. [DOI] [PubMed] [Google Scholar]
  18. Pribnow D. Bacteriophage T7 early promoters: nucleotide sequences of two RNA polymerase binding sites. J Mol Biol. 1975 Dec 15;99(3):419–443. doi: 10.1016/s0022-2836(75)80136-7. [DOI] [PubMed] [Google Scholar]
  19. Reijnders L., Sloof P., Sival J., Borst P. Gel electrophoresis of RNA under denaturing conditions. Biochim Biophys Acta. 1973 Oct 26;324(3):320–333. doi: 10.1016/0005-2787(73)90278-5. [DOI] [PubMed] [Google Scholar]
  20. Sanders J. P., Flavell R. A., Borst P., Mol J. N. Nature of the base sequence conserved in the mitochondrial DNA of a low-density petite. Biochim Biophys Acta. 1973 Jul 13;312(3):441–457. doi: 10.1016/0005-2787(73)90443-7. [DOI] [PubMed] [Google Scholar]
  21. Sanger F., Coulson A. R. A rapid method for determining sequences in DNA by primed synthesis with DNA polymerase. J Mol Biol. 1975 May 25;94(3):441–448. doi: 10.1016/0022-2836(75)90213-2. [DOI] [PubMed] [Google Scholar]
  22. Sugimoto K., Okamoto T., Sugisaki H., Takanami M. The nucleotide sequence of an RNA polymerase binding site on bacteriophage fd DNA. Nature. 1975 Feb 6;253(5491):410–414. doi: 10.1038/253410a0. [DOI] [PubMed] [Google Scholar]
  23. Sugimoto K., Sugisaki H., Okamoto T., Takanami M. Studies on bacteriophage fd DNA. III. Nucleotide sequence preceding the RNA start-site on a promoter-containing fragment. Nucleic Acids Res. 1975 Nov;2(11):2091–2100. doi: 10.1093/nar/2.11.2091. [DOI] [PMC free article] [PubMed] [Google Scholar]
  24. Takanami M., Sugimoto K., Sugisaki H., Okamoto T. Sequence of promoter for coat protein gene of bacteriophage fd. Nature. 1976 Mar 25;260(5549):297–302. doi: 10.1038/260297a0. [DOI] [PubMed] [Google Scholar]
  25. Terao T., Dahlberg J. E., Khorana H. G. Studies on polynucleotides. CXX. On the transcription of a synthetic 29-unit long deoxyribopolynucleotide. J Biol Chem. 1972 Oct 10;247(19):6157–6166. [PubMed] [Google Scholar]
  26. Walz A., Pirrotta V. Sequence of the PR promoter of phage lambda. Nature. 1975 Mar 13;254(5496):118–121. doi: 10.1038/254118a0. [DOI] [PubMed] [Google Scholar]
  27. Wu R., Bambara R., Jay E. Recent advances in DNA sequence analysis. CRC Crit Rev Biochem. 1975 Feb;2(4):455–512. doi: 10.3109/10409237509102550. [DOI] [PubMed] [Google Scholar]
  28. van Kreijl C. F., Borst P., Flavell R. A., Hollenberg C. P. Pyrimidine tract analysis of mtDNA from a "low-density" petite mutant of yeast. Biochim Biophys Acta. 1972 Aug 16;277(1):61–70. doi: 10.1016/0005-2787(72)90352-8. [DOI] [PubMed] [Google Scholar]

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