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Nucleic Acids Research, 1992, Vol. 20, No. 24 6667-6672
© 1992

METHODS

Effect of glycerol on the separation of nucleosomes and bent DNA in low ionic strength polyacrylamide gel electrophoresis

Sari Pennings1,+, Geert Meersseman1,+ and E.Morton Bradbury1,2,*

1Department of Biological Chemistry, School of Medicine, University of California Davis, CA 95616, USA 2Life Sciences Division, Los Alamos National Laboratory Los Alamos, NM 87545, USA

*To whom correspondence should be addressed

Received August 20, 1992. Revised November 22, 1992. Accepted November 22, 1992.

We report that glycerol changes the separation characteristics of polyacrylamide nucleoprotein gels in which it is included as a stabilizing agent. Polyacrylamide gel electrophoresis fractionates DNA and nucleosomes according to net negative charge, mass and conformation. With glycerol included, fractionation seems to be largely based on particle mass and charge. The conformation factor in separation is progressively lost with increasing glycerol concentrations. Nucleosome positions on the same DNA fragment are no longer resolved, while the difference in electrophoretic mobility between core particles and nucleosomes carrying longer DNA becomes smaller and is eventually lost. The retardation of bent DNA is also much reduced. Using the differences in separation characteristics between glycerol-containing and regular nucleoprotein gels could be a new means to obtain information on macromolecules in solution.

+Present address: Instituut voor Molekulaire Biologie, Vrije Universiteit Brussel, Paardenstraat 65, B-1640 St.Gen.-Rode, Belgium


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