Maximizing Tandem Mass Spectrometry Acquisition Rates for Shotgun Proteomics
- University of Wisconsin, Madison, WI (United States). Dept. of Chemistry
- University of Wisconsin, Madison, WI (United States). Great Lakes Bioenergy Research Center
- University of Wisconsin, Madison, WI (United States). Dept. of Chemistry, and Dept. of Biomolecular Chemistry
Advances in tandem mass spectrometry (MS/MS) acquisition rate have steadily led to increased performance in shotgun proteomics experiments. To that end, contemporary mass spectrometers are outfitted with multiple analyzers allowing for the simultaneous collection of survey (MS1) and MS/MS spectra. In the latest generation Orbitrap hybrid, MS/MS scans can be acquired at a high rate using the dual cell linear ion trap analyzer, all while the next precursor is being dissociated in a collision cell and a MS1 scan is occurring in the Orbitrap. Often overlooked in these experiments is that the ion trap scan duration is highly variable and dependent upon precursor mass. Here, we examine the use of various static mass-to-charge ratio scan ranges for ion trap MS/MS acquisition and determine performance relative to conventional dynamic mass-to-charge ratio range scanning. We demonstrate that a fixed mass-to-charge ratio scan range can generate 12% more MS/MS scans and more unique peptide identifications as compared to the standard dynamic approach, respectively.
- Research Organization:
- University of Wisconsin, Madison, WI (United States)
- Sponsoring Organization:
- USDOE Office of Science - SC, Biological and Environmental Research (BER) (United States)
- DOE Contract Number:
- SC0018409
- OSTI ID:
- 23129552
- Report Number(s):
- OSTIID--1569267
- Journal Information:
- Analytical Chemistry, Journal Name: Analytical Chemistry Journal Issue: 20 Vol. 91; ISSN 0003-2700
- Country of Publication:
- United States
- Language:
- English
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