Analysis of sequence contexts flanking T.G mismatches leads to predictions about reactivity of the mismatched T to osmium tetroxide.
Osmium tetroxide and hydroxylamine are used to detect mutations in DNA and RNA after hybridization of mutant and wild-type DNA. Mismatched T and C bases, respectively, are modified by these reagents and the DNA strand cleaved at the mismatched bases by subsequent treatment with piperidine. This allows detection and location of the mutation. Although most T.G mismatches have been reported to be reactive to osmium tetroxide, some have been reported to be unreactive. The aim of this study was to collect and analyze the reactive and unreactive T.G mismatches. We have collected sequence contexts of all reactive and unreactive T.G mismatches for analysis. This involves 10 unreactive T.G mismatches (plus one T.C) and 19 reactive T.G mismatches. Sequence effects of bases surrounding these mismatches must influence this reactivity. There must be many types of such sequence effects. We postulate that because of the dominance of 5' G bases near the T of unreactive T.G mismatches and the absence of 5' G bases in reactive T.G mismatches that the stacking of the 5' G on the mismatched T is the reason for this lack of reactivity in the majority of the cases studied here.
Cotton
R G
RG
Murdoch Institute, Royal Childrens Hospital, Parkville, Victoria, Australia.
Dahl
H H
HH
Forrest
S
S
Howells
D W
DW
Ramus
S J
SJ
Bishop
R E
RE
Dianzani
I
I
Saleeba
J A
JA
Palombo
E
E
Anderson
M J
MJ
D001483:Base Sequence; D006147:Guanine; D019811:Hydroxylamine; D006898:Hydroxylamines / Q000737:chemistry; D009692:Nucleic Acid Heteroduplexes; D009838:Oligodeoxyribonucleotides; D009993:Osmium Tetroxide / Q000737:chemistry*; D013941:Thymine
D006898:Hydroxylamines; D009692:Nucleic Acid Heteroduplexes; D009838:Oligodeoxyribonucleotides; D019811:Hydroxylamine; D006147:Guanine; D009993:Osmium Tetroxide; D013941:Thymine