Location and base selectivity on fragmentation of brominated oligodeoxynucleotides.
Bromine-modified oligodeoxynucleotides (ODNs) were fragmented in the electrospray source to study the influence of brominated bases on fragmentation. Several 13-mer ODNs containing a brominated pyrimidine base, BrdU (5-bromodeoxyuridine) or BrdC (5-bromodeoxycytidine), were analyzed. Low cone voltage fragmentation yields a loss of the brominated base with a preferential loss for the brominated base closer to the 5'-end (2-position > 4-position > 12-position) as well as a preferential loss of BrdU over BrdC. Higher cone voltage produces backbone fragmentation with complementary a(n)-base and w(m) ions close to the brominated base. On the basis of these observations, we located the brominated base in the sequence for all of the ODNs studied.
Buré
Corinne
C
Centre de Biophysique Moléculaire, CNRS UPR 4301, University of Orléans and INSERM, rue Charles Sadron, 45071 Orléans Cedex 02, France. bure@cnrs-orleans.fr
Castaing
Bertrand
B
Lange
Catherine
C
Delmas
Agnès F
AF
D000465:Algorithms; D001966:Bromine / Q000032:analysis*; D008401:Gas Chromatography-Mass Spectrometry; D007202:Indicators and Reagents; D009841:Oligonucleotides / Q000032:analysis* / Q000528:radiation effects; D011743:Pyrimidines / Q000032:analysis; D014466:Ultraviolet Rays
D007202:Indicators and Reagents; D009841:Oligonucleotides; D011743:Pyrimidines; D001966:Bromine