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J Biomol Tech. 2010 September; 21(3 Suppl): S38.
PMCID: PMC2918194

Pushing toward to Next Generation Ion-Trap-MS with Improved Ion Formation, Transfer and Trapping

M. Lubeck,2 R. Hartmer,2 C. Gebhardt,2 and A. Schneider2
1Bruker Daltonics Inc., Fremont, CA, United States;
2Bruker Daltonik GmbH, Bremen, Germany



Ion traps have achieved a leading position in life science applications. This is mainly due to their flexibility, robustness, the extraordinary multiple MS/MS capabilities and to the unmatched MS/MS sensitivity at high duty cycle. The commercial availability of ETD strongly increased their use in detailed structure elucidation of proteins and peptides. Especially for these applications there is a strong demand to resolve the isotopic structure of highly charged ions over a large seamless m/z-range at analytical feasible scan-speed and sensitivity. Preparing Ion-Traps for the expanding ultra-fast chromatography, for the requirements of top-down ETD/PTR workflows and to sharpen their position with respect to alternative techniques it is crucial to push the limits of their key performance factors. Presented here is technology and performance of the Bruker amazon ion trap. Its two-stage funnel ion guide results in a substantially increased ion flux and MS/MS sensitivity. The improved control of the non-linear ejection process and the trap environment supports faster scan modes as well as a higher mass resolution. The increased spectral rate can even be maintained during positive/negative ion mode switching due to a novel zero-dead time ion inlet system. The performance factors (sensitivity, resolution, scan rate and polarity switching) have been investigated systematically in several applications: peptide identification in complex matrices, clinical screening applications, and top down ETD/PTR workflows.

Articles from Journal of Biomolecular Techniques : JBT are provided here courtesy of The Association of Biomolecular Resource Facilities