Influence of dynamic fluctuations on DNA curvature.
The effect of dynamic fluctuations on physical manifestations of DNA curvature such as electrophoretic retardation, circularization of DNA tracts and nucleosomes positioning is examined. It is shown that in all cases the main features of the processes can be satisfactorily explained by a static curvature model, which appears to be a good representation of time and ensemble averaged superstructures of DNA chains. The dynamic fluctuations around the average curvature appear to influence only the kinetics of these processes. In the case of polyacrylamide gel electrophoretic retardation it is demonstrated that the approximation of the static model holds on the assumption that dynamic fluctuations are independent from intrinsic curvature. The actual validity of the static model we proposed several years ago is satisfactorily demonstrated by the explanation and prediction of different experiments, such as cyclic permutation gel electrophoresis, differential DNAase I cleavage of cyclic versus linear DNA tracts and nucleosome positioning.
De Santis
P
P
Dipartimento di Chimica, Istituto Pasteur, Università di Roma La Sapienza, Italy.
Fuà
M
M
Palleschi
A
A
Savino
M
M
D000818:Animals; D016831:Crithidia fasciculata; D004247:DNA / Q000737:chemistry* / Q000302:isolation & purification; D004272:DNA, Mitochondrial / Q000737:chemistry; D004279:DNA, Viral / Q000737:chemistry; D004591:Electrophoresis, Polyacrylamide Gel; D008433:Mathematics; D008962:Models, Theoretical; D009690:Nucleic Acid Conformation; D010957:Plasmids / Q000737:chemistry; D017354:Point Mutation; D013539:Simian virus 40
D004272:DNA, Mitochondrial; D004279:DNA, Viral; D004247:DNA