Suppression of electrophoretic anomaly of bent DNA segments by the structural property that causes rapid migration

Takashi Ohyama, Hiromi Tsujibayashi, Hideki Tagashira, Koichi Inano, Takayuki Ueda, Yoshiko Hirota, Koichiro Hashimoto

Research output: Contribution to journalArticle

20 Citations (Scopus)

Abstract

Intrinsic DNA curvature is speculated to be a common feature of all satellite DNA sequences and may aid in the tight winding of DNA in constitutive heterochromatin. Several satellite DNAs, however, show unusually rapid migration in non-denaturing polyacrylamide gels, which is just the opposite behavior of that shown by curved DNA structures. Employing bovine satellite I DNA monomer, we attempted to understand the molecular mechanism of 'rapid migration'. The phenomenon of rapid migration was temperature-dependent and to a small extent polyacrylamide-concentration-dependent. Physiological or near-physiological concentrations of Mg2+ and Ca2+ ions bent the rapid migrating DNA segment. Predominance of purine-purine base stacking over purine-pyrimidine in nucleotide sequence was strongly indicated to be the cause of the rapid migration. Furthermore, they seemed to be implicated in the formation of induced DNA bend. We also found that the satellite I monomer contains an intrinsic DNA curvature as do many other satellites. Heretofore, the rapid migration property has concealed the presence of curvature.

Original languageEnglish
Pages (from-to)4811-4817
Number of pages7
JournalNucleic acids research
Volume26
Issue number21
DOIs
Publication statusPublished - 1998 Nov 1
Externally publishedYes

ASJC Scopus subject areas

  • Genetics

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