The effect of backbone charge on the collision-induced dissociation of oligonucleotides

Journal of Mass Spectrometry : JMS
M G BartlettR H Griffey

Abstract

Knowledge of the effects of structural changes in oligonucleotides on their dissociation reaction is important in the application of mass spectrometry to sequence determination. The effect of backbone charge on the collision-induced dissociation of multiply-charged oligonucleotides produced by electrospray was explored by examination of models in which the normal phosphodiester linkage was partially replaced with an uncharged methylphosphonate (MP) linkage. Three different MP-containing oligonucleotides were studied, designed to represent a concentration of charge on the 5'- and 3'-ends of the molecule and with an even distribution of charge along the backbone, compared with a control molecule containing only phosphodiester linkages. In all MP-containing oligonucleotides charging of over 90% of phosphate groups were observed, compared with typical charging patterns of about 60% in normal all-phosphodiester oligonucleotides. This unexpected effect is attributed to charge stabilization by interactions of charged sites with uncharged residues. Analysis of the collision-induced dissociation mass spectra showed that backbone cleavage occurred at every residue (w and a-base ion series), producing a full set of sequencing ions whether...Continue Reading

Citations

May 23, 2012·International Journal of Analytical Chemistry·Shibdas Banerjee, Shyamalava Mazumdar
Oct 30, 1998·Journal of the American Society for Mass Spectrometry·J S KlassenE R Williams
Sep 7, 2001·Rapid Communications in Mass Spectrometry : RCM·J Ni, K Chan
Sep 25, 2004·Mass Spectrometry Reviews·Steven A HofstadlerJames C Hannis
Jul 15, 2006·Rapid Communications in Mass Spectrometry : RCM·Jan M Tromp, Stefan Schürch
Nov 25, 2014·Angewandte Chemie·Annalisa ArcellaModesto Orozco
Sep 29, 2011·Journal of Chromatography. B, Analytical Technologies in the Biomedical and Life Sciences·A Cary McGinnisMichael G Bartlett
Jul 22, 2014·Bioanalysis·Babak Basiri, Michael G Bartlett
Sep 21, 2016·Journal of the American Society for Mass Spectrometry·Babak BasiriMichael G Bartlett
Oct 4, 2005·Journal of the American Society for Mass Spectrometry·Su PanJeehiun K Lee
May 8, 2014·Journal of the American Society for Mass Spectrometry·Adrien NyakasStefan Schürch
Dec 13, 2017·European Journal of Mass Spectrometry·Stefanie IckertMichael W Linscheid
Apr 10, 2020·Frontiers in Pharmacology·Markus HerktAndreas Pich
Mar 21, 1998·Current Opinion in Biotechnology·P F Crain, J A McCloskey
Dec 31, 2003·Journal of the American Society for Mass Spectrometry·Rambod Daneshfar, John S Klassen
Sep 10, 2002·Journal of the American Society for Mass Spectrometry·Stefan SchürchChristian J Leumann
Jan 18, 2005·Journal of the American Society for Mass Spectrometry·Karin M Keller, Jennifer S Brodbelt
Jun 28, 2005·Journal of the American Society for Mass Spectrometry·Jan M Tromp, Stefan Schürch
Mar 27, 2007·Journal of the American Society for Mass Spectrometry·Selina T M Monn, Stefan Schürch

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