TY - JOUR
T1 - Suppression of electrophoretic anomaly of bent DNA segments by the structural property that causes rapid migration
AU - Ohyama, Takashi
AU - Tsujibayashi, Hiromi
AU - Tagashira, Hideki
AU - Inano, Koichi
AU - Ueda, Takayuki
AU - Hirota, Yoshiko
AU - Hashimoto, Koichiro
N1 - Funding Information:
We wish to thank Junko Ohyama for help in preparing the manuscript. This study was partly supported by a Grant-in-Aid for Scientific Research (No. 09680681) from the Ministry of Education, Science, Sports and Culture of Japan to T.O.
PY - 1998/11/1
Y1 - 1998/11/1
N2 - 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.
AB - 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.
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U2 - 10.1093/nar/26.21.4811
DO - 10.1093/nar/26.21.4811
M3 - Article
C2 - 9776739
AN - SCOPUS:0032213283
SN - 0305-1048
VL - 26
SP - 4811
EP - 4817
JO - Nucleic acids research
JF - Nucleic acids research
IS - 21
ER -