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. 1987 Aug 11;15(15):6063–6074. doi: 10.1093/nar/15.15.6063

Unique poly(dA).poly(dT) B'-conformation in cellular and synthetic DNAs.

S Diekmann, D A Zarling
PMCID: PMC306068  PMID: 3627979

Abstract

Poly(dA).poly(dT), but not B-form DNA, is specifically recognized by experimentally induced anti-kinetoplast or anti-poly(dA).poly(dT) immunoglobulins. Antibody binding is completely competed by poly(dA).poly(dT) and poly(dA).poly(dU) but not by other single- or double-stranded DNA sequences in a right-handed B-form. Antibody interaction with poly(dA).poly(dT) depends on immunoglobulin concentration, incubation time and temperature, and is sensitive to elevated ionic strengths. Similar conformations, for example, (dA)4-6 X (dT)4-6, in the kinetoplast DNA of the parasite Leishmania tarentolae are also immunogenic and induce specific anti-poly(dA).poly(dT) antibodies. These antibody probes specifically recognize nuclear and kinetoplast DNA in fixed flagellated kinetoplastid cells as evidenced by immunofluorescence microscopy. Anti-poly(dA).poly(dT) immunofluorescence is DNase-sensitive and competed by poly(dA).poly(dT), but not other classical double-stranded B-DNAs. Thus, these unique cellular B'-DNA helices are immunogenic and structurally similar to synthetic poly(dA).poly(dT) helices in solution.

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Selected References

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

  1. Alexeev D. G., Lipanov A. A., Skuratovskii IYa Poly(dA).poly(dT) is a B-type double helix with a distinctively narrow minor groove. 1987 Feb 26-Mar 4Nature. 325(6107):821–823. doi: 10.1038/325821a0. [DOI] [PubMed] [Google Scholar]
  2. Arnott S., Arnott S. The sequence dependence of circular dichroism spectra of DNA duplexes. Nucleic Acids Res. 1975 Sep;2(9):1493–1502. doi: 10.1093/nar/2.9.1493. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Arnott S., Chandrasekaran R., Hall I. H., Puigjaner L. C. Heteronomous DNA. Nucleic Acids Res. 1983 Jun 25;11(12):4141–4155. doi: 10.1093/nar/11.12.4141. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Arnott S., Hukins D. W. Optimised parameters for A-DNA and B-DNA. Biochem Biophys Res Commun. 1972 Jun 28;47(6):1504–1509. doi: 10.1016/0006-291X(72)90243-4. [DOI] [PubMed] [Google Scholar]
  5. Diekmann S., Wang J. C. On the sequence determinants and flexibility of the kinetoplast DNA fragment with abnormal gel electrophoretic mobilities. J Mol Biol. 1985 Nov 5;186(1):1–11. doi: 10.1016/0022-2836(85)90251-7. [DOI] [PubMed] [Google Scholar]
  6. Koo H. S., Wu H. M., Crothers D. M. DNA bending at adenine . thymine tracts. Nature. 1986 Apr 10;320(6062):501–506. doi: 10.1038/320501a0. [DOI] [PubMed] [Google Scholar]
  7. Kunkel G. R., Martinson H. G. Nucleosomes will not form on double-stranded RNa or over poly(dA).poly(dT) tracts in recombinant DNA. Nucleic Acids Res. 1981 Dec 21;9(24):6869–6888. doi: 10.1093/nar/9.24.6869. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Lacour F., Nahon-Merlin E., Michelson M. Immunological recognition of polynucleotide structure. Curr Top Microbiol Immunol. 1973;62:1–39. doi: 10.1007/978-3-642-65772-6_1. [DOI] [PubMed] [Google Scholar]
  9. Madaio M. P., Hodder S., Schwartz R. S., Stollar B. D. Responsiveness of autoimmune and normal mice to nucleic acid antigens. J Immunol. 1984 Feb;132(2):872–876. [PubMed] [Google Scholar]
  10. Peck L. J., Wang J. C. Sequence dependence of the helical repeat of DNA in solution. Nature. 1981 Jul 23;292(5821):375–378. doi: 10.1038/292375a0. [DOI] [PubMed] [Google Scholar]
  11. Prevelige P. E., Jr, Fasman G. D. Studies on synthetic chromatins containing poly(dA-dT) X poly(dA-dT) and poly(dG-dC) X poly(dG-dC). Biochim Biophys Acta. 1983 Jan 20;739(1):85–96. doi: 10.1016/0167-4781(83)90048-9. [DOI] [PubMed] [Google Scholar]
  12. Prunell A. Nucleosome reconstitution on plasmid-inserted poly(dA) . poly(dT). EMBO J. 1982;1(2):173–179. doi: 10.1002/j.1460-2075.1982.tb01143.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  13. Rhodes D., Klug A. Sequence-dependent helical periodicity of DNA. Nature. 1981 Jul 23;292(5821):378–380. doi: 10.1038/292378a0. [DOI] [PubMed] [Google Scholar]
  14. Rhodes D. Nucleosome cores reconstituted from poly (dA-dT) and the octamer of histones. Nucleic Acids Res. 1979;6(5):1805–1816. doi: 10.1093/nar/6.5.1805. [DOI] [PMC free article] [PubMed] [Google Scholar]
  15. Silberklang M., Gillum A. M., RajBhandary U. L. Use of in vitro 32P labeling in the sequence analysis of nonradioactive tRNAs. Methods Enzymol. 1979;59:58–109. doi: 10.1016/0076-6879(79)59072-7. [DOI] [PubMed] [Google Scholar]
  16. Simpson R. T., Künzler P. Cromatin and core particles formed from the inner histones and synthetic polydeoxyribonucleotides of defined sequence. Nucleic Acids Res. 1979 Apr;6(4):1387–1415. doi: 10.1093/nar/6.4.1387. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Stollar B. D. Doubls-helical polynucleotides: immunochemical recognition of differing conformations. Science. 1970 Aug 7;169(3945):609–611. doi: 10.1126/science.169.3945.609. [DOI] [PubMed] [Google Scholar]
  18. Stollar B. D. The experimental induction of antibodies to nucleic acids. Methods Enzymol. 1980;70(A):70–85. doi: 10.1016/s0076-6879(80)70042-3. [DOI] [PubMed] [Google Scholar]
  19. Stollar B. D. The specificity and applications of antibodies to helical nucleic acids. CRC Crit Rev Biochem. 1975 May;3(1):45–69. doi: 10.3109/10409237509102552. [DOI] [PubMed] [Google Scholar]
  20. Wartell R. M., Harrell J. T. Characteristics and variations of B-type DNA conformations in solution: a quantitative analysis of Raman band intensities of eight DNAs. Biochemistry. 1986 May 6;25(9):2664–2671. doi: 10.1021/bi00357a056. [DOI] [PubMed] [Google Scholar]
  21. Wu H. M., Crothers D. M. The locus of sequence-directed and protein-induced DNA bending. Nature. 1984 Apr 5;308(5959):509–513. doi: 10.1038/308509a0. [DOI] [PubMed] [Google Scholar]
  22. Zarling D. A., Arndt-Jovin D. J., Robert-Nicoud M., McIntosh L. P., Thomae R., Jovin T. M. Immunoglobulin recognition of synthetic and natural left-handed Z DNA conformations and sequences. J Mol Biol. 1984 Jul 5;176(3):369–415. doi: 10.1016/0022-2836(84)90495-9. [DOI] [PubMed] [Google Scholar]

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