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. 1994 Oct;67(4):1678–1681. doi: 10.1016/S0006-3495(94)80641-1

Condensation of supercoiled DNA induced by MnCl2.

C Ma 1, V A Bloomfield 1
PMCID: PMC1225529  PMID: 7819499

Abstract

Multivalent cations condense DNA in vitro, but it had been thought that a valence of at least + 3 was required in aqueous solution. We have found that Mn2+ can produce toroidal condensates of supercoiled plasmid DNA, but not of linearized plasmid. Mg2+ does not cause condensation, and neither MgCl2 nor NaCl can negate the effect of MnCl2, indicating that the condensation mechanism with Mn is not primarily electrostatic. Supercoiled MnDNA is more extensively digested than the linear form by S1 nuclease. Supercoiling appears to cooperate with Mn2+ in stabilizing helix distortions and also provides a "pressure" that enhances lateral association.

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Selected References

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  1. Aboul-ela F., Bowater R. P., Lilley D. M. Competing B-Z and helix-coil conformational transitions in supercoiled plasmid DNA. J Biol Chem. 1992 Jan 25;267(3):1776–1785. [PubMed] [Google Scholar]
  2. Adrian M., ten Heggeler-Bordier B., Wahli W., Stasiak A. Z., Stasiak A., Dubochet J. Direct visualization of supercoiled DNA molecules in solution. EMBO J. 1990 Dec;9(13):4551–4554. doi: 10.1002/j.1460-2075.1990.tb07907.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Arscott P. G., Li A. Z., Bloomfield V. A. Condensation of DNA by trivalent cations. 1. Effects of DNA length and topology on the size and shape of condensed particles. Biopolymers. 1990;30(5-6):619–630. doi: 10.1002/bip.360300514. [DOI] [PubMed] [Google Scholar]
  4. Bednar J., Furrer P., Stasiak A., Dubochet J., Egelman E. H., Bates A. D. The twist, writhe and overall shape of supercoiled DNA change during counterion-induced transition from a loosely to a tightly interwound superhelix. Possible implications for DNA structure in vivo. J Mol Biol. 1994 Jan 21;235(3):825–847. doi: 10.1006/jmbi.1994.1042. [DOI] [PubMed] [Google Scholar]
  5. Bloomfield V. A. Condensation of DNA by multivalent cations: considerations on mechanism. Biopolymers. 1991 Nov;31(13):1471–1481. doi: 10.1002/bip.360311305. [DOI] [PubMed] [Google Scholar]
  6. Boles T. C., White J. H., Cozzarelli N. R. Structure of plectonemically supercoiled DNA. J Mol Biol. 1990 Jun 20;213(4):931–951. doi: 10.1016/S0022-2836(05)80272-4. [DOI] [PubMed] [Google Scholar]
  7. Chattoraj D. K., Gosule L. C., Schellman A. DNA condensation with polyamines. II. Electron microscopic studies. J Mol Biol. 1978 May 25;121(3):327–337. doi: 10.1016/0022-2836(78)90367-4. [DOI] [PubMed] [Google Scholar]
  8. Duguid J., Bloomfield V. A., Benevides J., Thomas G. J., Jr Raman spectroscopy of DNA-metal complexes. I. Interactions and conformational effects of the divalent cations: Mg, Ca, Sr, Ba, Mn, Co, Ni, Cu, Pd, and Cd. Biophys J. 1993 Nov;65(5):1916–1928. doi: 10.1016/S0006-3495(93)81263-3. [DOI] [PMC free article] [PubMed] [Google Scholar]
  9. Egli M., Williams L. D., Gao Q., Rich A. Structure of the pure-spermine form of Z-DNA (magnesium free) at 1-A resolution. Biochemistry. 1991 Dec 3;30(48):11388–11402. doi: 10.1021/bi00112a005. [DOI] [PubMed] [Google Scholar]
  10. Eichhorn G. L., Shin Y. A. Interaction of metal ions with polynucleotides and related compounds. XII. The relative effect of various metal ions on DNA helicity. J Am Chem Soc. 1968 Dec 18;90(26):7323–7328. doi: 10.1021/ja01028a024. [DOI] [PubMed] [Google Scholar]
  11. Gosule L. C., Schellman J. A. Compact form of DNA induced by spermidine. Nature. 1976 Jan 29;259(5541):333–335. doi: 10.1038/259333a0. [DOI] [PubMed] [Google Scholar]
  12. Gruskin E. A., Rich A. B-DNA to Z-DNA structural transitions in the SV40 enhancer: stabilization of Z-DNA in negatively supercoiled DNA minicircles. Biochemistry. 1993 Mar 9;32(9):2167–2176. doi: 10.1021/bi00060a007. [DOI] [PubMed] [Google Scholar]
  13. Izatt R. M., Christensen J. J., Rytting J. H. Sites and thermodynamic quantities associated with proton and metal ion interaction with ribonucleic acid, deoxyribonucleic acid, and their constituent bases, nucleosides, and nucleotides. Chem Rev. 1971 Oct;71(5):439–481. doi: 10.1021/cr60273a002. [DOI] [PubMed] [Google Scholar]
  14. Lee F. S., Bauer W. R. Temperature dependence of the gel electrophoretic mobility of superhelical DNA. Nucleic Acids Res. 1985 Mar 11;13(5):1665–1682. doi: 10.1093/nar/13.5.1665. [DOI] [PMC free article] [PubMed] [Google Scholar]
  15. Luck G., Zimmer C. Conformational aspects and reactivity of DNA. Effects of manganese and magnesium ions on interaction with DNA. Eur J Biochem. 1972 Sep 25;29(3):528–536. doi: 10.1111/j.1432-1033.1972.tb02018.x. [DOI] [PubMed] [Google Scholar]
  16. Manning G. S. The molecular theory of polyelectrolyte solutions with applications to the electrostatic properties of polynucleotides. Q Rev Biophys. 1978 May;11(2):179–246. doi: 10.1017/s0033583500002031. [DOI] [PubMed] [Google Scholar]
  17. Marquet R., Houssier C. Thermodynamics of cation-induced DNA condensation. J Biomol Struct Dyn. 1991 Aug;9(1):159–167. doi: 10.1080/07391102.1991.10507900. [DOI] [PubMed] [Google Scholar]
  18. Murchie A. I., Lilley D. M. Supercoiled DNA and cruciform structures. Methods Enzymol. 1992;211:158–180. doi: 10.1016/0076-6879(92)11010-g. [DOI] [PubMed] [Google Scholar]
  19. Panyutin I., Klishko V., Lyamichev V. Kinetics of cruciform formation and stability of cruciform structure in superhelical DNA. J Biomol Struct Dyn. 1984 Jun;1(6):1311–1324. doi: 10.1080/07391102.1984.10507522. [DOI] [PubMed] [Google Scholar]
  20. Peck L. J., Wang J. C., Nordheim A., Rich A. Rate of B to Z structural transition of supercoiled DNA. J Mol Biol. 1986 Jul 5;190(1):125–127. doi: 10.1016/0022-2836(86)90082-3. [DOI] [PubMed] [Google Scholar]
  21. Rau D. C., Parsegian V. A. Direct measurement of temperature-dependent solvation forces between DNA double helices. Biophys J. 1992 Jan;61(1):260–271. doi: 10.1016/S0006-3495(92)81832-5. [DOI] [PMC free article] [PubMed] [Google Scholar]
  22. Rau D. C., Parsegian V. A. Direct measurement of the intermolecular forces between counterion-condensed DNA double helices. Evidence for long range attractive hydration forces. Biophys J. 1992 Jan;61(1):246–259. doi: 10.1016/S0006-3495(92)81831-3. [DOI] [PMC free article] [PubMed] [Google Scholar]
  23. Riemer S. C., Bloomfield V. A. Packaging of DNA in bacteriophage heads: some considerations on energetics. Biopolymers. 1978 Mar;17(3):785–794. doi: 10.1002/bip.1978.360170317. [DOI] [PubMed] [Google Scholar]
  24. Schellman J. A., Parthasarathy N. X-ray diffraction studies on cation-collapsed DNA. J Mol Biol. 1984 May 25;175(3):313–329. doi: 10.1016/0022-2836(84)90351-6. [DOI] [PubMed] [Google Scholar]
  25. Shaw S. Y., Wang J. C. Knotting of a DNA chain during ring closure. Science. 1993 Apr 23;260(5107):533–536. doi: 10.1126/science.8475384. [DOI] [PubMed] [Google Scholar]
  26. Singleton C. K., Klysik J., Stirdivant S. M., Wells R. D. Left-handed Z-DNA is induced by supercoiling in physiological ionic conditions. Nature. 1982 Sep 23;299(5881):312–316. doi: 10.1038/299312a0. [DOI] [PubMed] [Google Scholar]
  27. Stigter D. Interactions of highly charged colloidal cylinders with applications to double-stranded. Biopolymers. 1977 Jul;16(7):1435–1448. doi: 10.1002/bip.1977.360160705. [DOI] [PubMed] [Google Scholar]
  28. Thomas T. J., Bloomfield V. A. Toroidal condensation of Z DNA and identification of an intermediate in the B to Z transition of poly(dG-m5dC) X poly(dG-m5dC). Biochemistry. 1985 Jan 29;24(3):713–719. doi: 10.1021/bi00324a026. [DOI] [PubMed] [Google Scholar]
  29. Widom J., Baldwin R. L. Cation-induced toroidal condensation of DNA studies with Co3+(NH3)6. J Mol Biol. 1980 Dec 25;144(4):431–453. doi: 10.1016/0022-2836(80)90330-7. [DOI] [PubMed] [Google Scholar]
  30. Widom J., Baldwin R. L. Monomolecular condensation of lambda-DNA induced by cobalt hexamine. Biopolymers. 1983 Jun;22(6):1595–1620. doi: 10.1002/bip.360220612. [DOI] [PubMed] [Google Scholar]
  31. Wilson R. W., Bloomfield V. A. Counterion-induced condesation of deoxyribonucleic acid. a light-scattering study. Biochemistry. 1979 May 29;18(11):2192–2196. doi: 10.1021/bi00578a009. [DOI] [PubMed] [Google Scholar]

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