Nucleic Acids Research, Vol 25, Issue 11 2041-2046, Copyright © 1997 by Oxford University Press
R Miassod, SV Razin and R Hancock
The pattern of sites for cleavage mediated by topoisomerase II was
determined in 830 kb of cloned DNA from the Drosophila X chromosome, with
the objectives of comparing it with mapped structural and functional
landmarks and examining if the correlations with such landmarks reported in
individual loci can be generalized to a region approximately 100 times
longer. The relative frequencies of topoisomerase II cleavage sites in 247
restriction fragments from 67 clones were quantified by hybridization with
probes prepared from DNA fragments which abutted all cleavage sites in each
clone, selected through the covalently bound topoisomerase II subunit; the
specificity and quantitative nature of this method were demonstrated using
a plasmid DNA model. The 12 restriction fragments with strong nuclear
scaffold attachment (SAR) activity, of which seven possess autonomous
replication (ARS) activity, show statistically strong coincidence or
contiguity ( P </=0.11) with regions of high topoisomerase II cleavage
site frequency. These regions show no correlation with repetitive sequence
or A/T or C/G content and some extend over >10 kb; their sensitivity is
therefore unlikely to be due to alternating purine- pyrimidine repeats or
regions of Z conformation, which are preferred motifs. The hypothesis that
they possess intrinsic curvature is consistent with the similarity of their
length and spacing to regions of predicted curvature in the 315 kb DNA of
Saccharomyces cerevisiae chromosome III and with the reported strong
binding preference of topoisomerase II for curved DNA. The topoisomerase II
cleavage pattern in this DNA further shows that its relationships to
functional properties seen in individual loci, especially to MAR/SAR and
ARS activity and to the restricted accessibility of DNA to topoisomerase II
in vivo, can be generalized to much longer regions of the genome.
ARTICLES
Distribution of topoisomerase II-mediated cleavage sites and relation to structural and functional landmarks in 830 kb of Drosophila DNA
Laboratoire de Genetique et Physiologie du Developpement, Centre National de la Recherche Scientifique, Case 907, 13288 Marseille, France.
CiteULike 
Connotea 
Del.icio.us What's this?
This article has been cited by other articles:
|
|
 |
|
  F. Mueller-Planitz and D. Herschlag DNA topoisomerase II selects DNA cleavage sites based on reactivity rather than binding affinity Nucleic Acids Res., June 28, 2007; 35(11): 3764 - 3773. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
K. Lemke, M. Wojciechowski, W. Laine, C. Bailly, P. Colson, M. Baginski, A. K. Larsen, and A. Skladanowski Induction of unique structural changes in guanine-rich DNA regions by the triazoloacridone C-1305, a topoisomerase II inhibitor with antitumor activities Nucleic Acids Res., October 27, 2005; 33(18): 6034 - 6047. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 L. D. Mesner, J. L. Hamlin, and P. A. Dijkwel The matrix attachment region in the Chinese hamster dihydrofolate reductase origin of replication may be required for local chromatid separation PNAS, March 18, 2003; 100(6): 3281 - 3286. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 D. A. Burden and N. Osheroff In Vitro Evolution of Preferred Topoisomerase II DNA Cleavage Sites J. Biol. Chem., February 19, 1999; 274(8): 5227 - 5235. [Abstract] [Full Text] [PDF]
|
|