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Nucleic Acids Research, 1981, Vol. 9, No. 19 4967-4980
© 1981

MOLECULAR BIOLOGY

Identification and suppression of secondary structures formed from deoxy-oligonudeotides during electrophoresis in denaturing polyacrylamide-gels

Ronald Frank1, Dieter Müller2 and Carsten Wolff2

1Gesellschaft für Biotechnologische Forschung mbH Mascheroder Weg 1, D-3300 Braunschweig 2Institut für Organische Chemie und Biochemie, Universität Hamburg Martin-Luther-King-Platz 6, D-2000 Hamburg 13, GFR

Received June 30, 1981. Nature and stability of secondary structures formed from DNA-fragments during electrophoresis in urea containing polyacrylamide-gels were investigated. Duplices and especially hairpin loops were found to be surprisingly stable. Polyacrylamide-gels containing high concentrations of formamide effectively melt these structures. Such gels will improve nucleotide sequence analysis in regions of dyad symmetry that often cause ‘band compressions’ under standard electrophoresis conditions.


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