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- Mass Spectrometry (3) (entfernen)
Multiply negatively charged DNA oligonucleotides of small sizes (n=15-40) have been subjected to a comprehensive tandem mass spectrometric study (MS/MS). Collision induced dissociation (CID) mass spectrometry (MS) was applied as a tool to break down isolated DNA oligonucleotides with a defined number of charges. Various lenghts and sequences were analyzed and all of them showed a comparable direct correlation regarding the threshold collision energy for fragmentation and dependence on number of charges on the precursor ions. It was also revealed that the increase in charges and thus Coulomb repulsion results in the transition from a folded, compact form to an elongated structure of the precursor ions.
Tandem MS experiments allow the fast acquisition of spectral datasets with enormous size and unprecedented content of information. The most commonly used method is undoubtedly collision induced dissociation (CID). The relatively young technical adaptation of CID to modern day Orbitrap experiments needs a higher confinement voltage and has accordingly been named higher-energy collisional dissociation HCD. Despite the name the absolute value of transferred energy per collision in HCD is lower than in CID. Since for many proteins CID and HCD result in comparable fragmentation patterns the two techniques are often treated as interchangeable. This approach is, however, not without pitfalls as other classes of biomolecules often exhibit strongly pronounced fragmentation specificity. As an example, MS/MS experiments on several 4-mer oligonucleotides were conducted employing both collision methods and the results were thoroughly compared. It is apparent that not only the total fragment yield but also the identity of the observed fragments differ significantly between the two methods.
Multiply negatively charged DNA oligonucleotides of small sizes (n=15-40 bases) have been subjected to a comprehensive tandem mass spectrometric study (MS/MS). Collision induced dissociation (CID) mass spectrometry (MS) was applied as a tool to break down isolated DNA oligonucleotides with a defined number of charges. Various lenghts and sequences were analyzed unravelling a comparable direct correlation between the threshold collision energy for fragmentation and the charge-per-base density in the precusor ion. It was also revealed that the increase in charges and thus Coulomb repulsion results in the transition from a folded, compact form to an elongated structure of the precusor ions.