Skip to main content
NCBI home page
Nucleic Acids Research logoLink to Nucleic Acids Research
. 1992 Apr 11;20(7):1675–1678. doi: 10.1093/nar/20.7.1675

Parallel analysis of oligodeoxyribonucleotide (oligonucleotide) interactions. I. Analysis of factors influencing oligonucleotide duplex formation.

U Maskos 1, E M Southern 1
PMCID: PMC312255  PMID: 1579458

Abstract

A novel method for the analysis of oligonucleotide-oligonucleotide interactions is described. Oligonucleotides of different sequence are synthesised in situ as stripes on the surface of a glass slide (see accompanying paper). Multiple hybridizations are then carried out on each oligonucleotide simultaneously to determine the dependence of oligonucleotide duplex formation on duplex length, base composition, hybridisation solvent and sequence complexity.

Full text

PDF
1675

Images in this article

1676Image
on p.1676
1676Image
on p.1676

Selected References

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

  1. Astell C. R., Smith M. Synthesis and properties of oligonucleotide--cellulose columns. Biochemistry. 1972 Oct 24;11(22):4114–4120. doi: 10.1021/bi00772a014. [DOI] [PubMed] [Google Scholar]
  2. Chang C. T., Hain T. C., Hutton J. R., Wetmur J. G. Effects of microscopic and macroscopic viscosity on the rate of renaturation of DNA. Biopolymers. 1974;13(9):1847–1858. doi: 10.1002/bip.1974.360130915. [DOI] [PubMed] [Google Scholar]
  3. Jacobs K. A., Rudersdorf R., Neill S. D., Dougherty J. P., Brown E. L., Fritsch E. F. The thermal stability of oligonucleotide duplexes is sequence independent in tetraalkylammonium salt solutions: application to identifying recombinant DNA clones. Nucleic Acids Res. 1988 May 25;16(10):4637–4650. doi: 10.1093/nar/16.10.4637. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Melchior W. B., Jr, Von Hippel P. H. Alteration of the relative stability of dA-dT and dG-dC base pairs in DNA. Proc Natl Acad Sci U S A. 1973 Feb;70(2):298–302. doi: 10.1073/pnas.70.2.298. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Orosz J. M., Wetmur J. G. DNA melting temperatures and renaturation rates in concentrated alkylammonium salt solutions. Biopolymers. 1977 Jun;16(6):1183–1199. doi: 10.1002/bip.1977.360160603. [DOI] [PubMed] [Google Scholar]
  6. Saiki R. K., Gelfand D. H., Stoffel S., Scharf S. J., Higuchi R., Horn G. T., Mullis K. B., Erlich H. A. Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase. Science. 1988 Jan 29;239(4839):487–491. doi: 10.1126/science.2448875. [DOI] [PubMed] [Google Scholar]
  7. Saiki R. K., Walsh P. S., Levenson C. H., Erlich H. A. Genetic analysis of amplified DNA with immobilized sequence-specific oligonucleotide probes. Proc Natl Acad Sci U S A. 1989 Aug;86(16):6230–6234. doi: 10.1073/pnas.86.16.6230. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Shapiro J. T., Stannard B. S., Felsenfeld G. The binding of small cations to deoxyribonucleic acid. Nucleotide specificity. Biochemistry. 1969 Aug;8(8):3233–3241. doi: 10.1021/bi00836a015. [DOI] [PubMed] [Google Scholar]
  9. Van Ness J., Chen L. The use of oligodeoxynucleotide probes in chaotrope-based hybridization solutions. Nucleic Acids Res. 1991 Oct 11;19(19):5143–5151. doi: 10.1093/nar/19.19.5143. [DOI] [PMC free article] [PubMed] [Google Scholar]
  10. Wetmur J. G., Davidson N. Kinetics of renaturation of DNA. J Mol Biol. 1968 Feb 14;31(3):349–370. doi: 10.1016/0022-2836(68)90414-2. [DOI] [PubMed] [Google Scholar]
  11. Wood W. I., Gitschier J., Lasky L. A., Lawn R. M. Base composition-independent hybridization in tetramethylammonium chloride: a method for oligonucleotide screening of highly complex gene libraries. Proc Natl Acad Sci U S A. 1985 Mar;82(6):1585–1588. doi: 10.1073/pnas.82.6.1585. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Zhang Y., Coyne M. Y., Will S. G., Levenson C. H., Kawasaki E. S. Single-base mutational analysis of cancer and genetic diseases using membrane bound modified oligonucleotides. Nucleic Acids Res. 1991 Jul 25;19(14):3929–3933. doi: 10.1093/nar/19.14.3929. [DOI] [PMC free article] [PubMed] [Google Scholar]

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

RESOURCES