Tracts of A·T base pairs retard the electrophoretic mobility of short DNA duplexes

Jung Huei Chen, Nadrian Seeman, Neville R. Kallenbach

Research output: Contribution to journalArticle

Abstract

An investigation of the mobility of short duplexes of DNA -octamers and decamers-on polyacrylamide gels is presented, showing that molecules containing less than one helical turn exhibit sequence dependent mobilities. Analysis of chains with different sequences indicates that any arrangement of two or more adjacent A·T base pairs causes a duplex to move more slowly than does any combination of isolated A·T pairs This behavior appears to be an intrinsic property of these sequences, since the anomaly persists in the absence of magnesium or presence of spermine and is not due to strand dissociation. In two decamers we studied, the position of A·T tracts within a duplex can be shown to influence mobility: the sequence GA4T4C associated with bending or curvature of the helix axis when ligated into polymers migrates more slowly than the corresponding sequence GT4A4C polymers of which migrate as linear B DNA.

Original languageEnglish (US)
Pages (from-to)6803-6811
Number of pages9
JournalNucleic Acids Research
Volume16
Issue number14
DOIs
StatePublished - Jul 25 1988

Fingerprint

Electrophoretic mobility
Base Pairing
Polymers
DNA
Spermine
Polyacrylates
Magnesium
Gels
Molecules
Helix
Anomaly
Arrangement
Adjacent
Curvature
Dependent
polyacrylamide gels

ASJC Scopus subject areas

  • Statistics, Probability and Uncertainty
  • Applied Mathematics
  • Health, Toxicology and Mutagenesis
  • Toxicology
  • Genetics(clinical)
  • Genetics

Cite this

Tracts of A·T base pairs retard the electrophoretic mobility of short DNA duplexes. / Chen, Jung Huei; Seeman, Nadrian; Kallenbach, Neville R.

In: Nucleic Acids Research, Vol. 16, No. 14, 25.07.1988, p. 6803-6811.

Research output: Contribution to journalArticle

Chen, Jung Huei ; Seeman, Nadrian ; Kallenbach, Neville R. / Tracts of A·T base pairs retard the electrophoretic mobility of short DNA duplexes. In: Nucleic Acids Research. 1988 ; Vol. 16, No. 14. pp. 6803-6811.
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