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PMID: 1870980 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, P.H.S.

Detection of triple-helix related structures adopted by poly(dG)-poly(dC) sequences in supercoiled plasmid DNA.

Nucleic acids research ·Vol. 19 ·No. 15 ·1991-08-11 ·Pages 4267-71

Kohwi-Shigematsu T, Kohwi Y

Abstract

Negative superhelical strain induces the poly(dG)-poly(dC) sequence to adopt two totally different types of triple-helices, either a dG.dG.dC triplex in the presence of Mg(+)+ at both neutral and acidic pHs or a protonated dC+.dG.dC triplex in the absence of Mg(+)+ ions at acidic pH (1). To examine whether there are still other types of non-B DNA structures formed by the same sequence, we constructed supercoiled plasmid DNAs harboring varying lengths of the poly(dG) tract, and the structures adopted by each supercoiled plasmid DNA were studied with a chemical probe, chloroacetaldehyde. The potential of a poly(dG)-poly(dC) sequence to adopt non-B DNA structures depends critically on the length of the tract. Furthermore, in the presence of Mg(+)+ and at a mildly acidic pH, in addition to the expected dG.dG.dC triplex detected for the poly(dG) tracts of 14 to 30 base pairs (bp), new structures were also detected for the tracts longer than 35 bp. The structure formed by a poly(dG) tract of 45 bp revealed chemical reaction patterns consistent with a dG.dG.dC triplex and protonated dC+.dG.dC triple-helices fused together. This structure lacks single-stranded stretches typical of intramolecular triplexes.

MeSH Terms
Acetaldehyde/analogs & derivatives,chemistry Base Sequence DNA, Superhelical/chemistry Hydrogen-Ion Concentration Magnesium/chemistry Molecular Sequence Data Nucleic Acid Conformation Plasmids/genetics Polydeoxyribonucleotides/chemistry
Chemicals
DNA, Superhelical Polydeoxyribonucleotides poly(dG).poly(dC) chloroacetaldehyde Acetaldehyde Magnesium
Authors & Affiliations
2 authors, click to expand affiliations / ORCID
Kohwi-Shigematsu T
La Jolla Cancer Research Foundation, CA 92037.
Kohwi Y
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29 references, click to expand
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Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
0305-1048
DOI
10.1093/nar/19.15.4267
Published
1991-08-11
Pages
4267-71
Language
English
Region
England
NLM ID
0411011
PMCID
PMC328572
Subset
IM
Grants
NCI NIH HHS · R01-CA39681 · United States
NCI NIH HHS · R01-CA51377 · United States
External Links
PubMed source DOI: 10.1093/nar/19.15.4267 PMC Full Text View journal details
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