An exclusion list based label-free proteome quantification approach using an LTQ Orbitrap.
In: Rapid communications in mass spectrometry : RCM, Jg. 26 (2012-03-30), Heft 6, S. 701-9
Online
academicJournal
Zugriff:
Rationale: Label-based mass spectrometry is a powerful tool for large-scale protein identification and quantification. However, it requires the chemical or metabolic incorporation of the labeled compound(s) which can be difficult to attain, e.g. for non-cultivable organisms or scarce sample, such as biopsies. Therefore, we set out to develop and validate an efficient label-free liquid chromatography/tandem mass spectrometry (LC/MS/MS) workflow based on optimized instrument settings and incremental exclusion lists.
Methods: To increase the number of quantified peptides an incremental exclusion list was incorporated along with optimized instrument settings for the used LTQ Orbitrap. As a proof of concept, label-free quantification data from this optimized approach were compared to the results of control measurements without exclusion lists and of an in vivo metabolic labeling GeLC/MS/MS experiment. The data were drawn from Staphylococcus aureus whole cell lysates of non-stressed and nitric oxide (NO)-stressed cells.
Results: Compared to MS analysis without exclusion lists the new approach resulted in an increased number of identified peptides, enabling label-free quantification of more than 990 S. aureus proteins. With respect to the number of quantified proteins and differences in protein levels between the control and NO-treated samples the results of the new method were consistent with those of the GeLC/MS/MS experiment.
Conclusions: The application of exclusion lists and optimized instrument settings in LC/MS/MS analysis significantly enhances the sensitivity and resolution of label-free protein identification and quantification. Therefore, the new workflow is a powerful alternative to label-based quantification methods.
(Copyright © 2012 John Wiley & Sons, Ltd.)
Titel: |
An exclusion list based label-free proteome quantification approach using an LTQ Orbitrap.
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Autor/in / Beteiligte Person: | Muntel, J ; Hecker, M ; Becher, D |
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Zeitschrift: | Rapid communications in mass spectrometry : RCM, Jg. 26 (2012-03-30), Heft 6, S. 701-9 |
Veröffentlichung: | Chichester : John Wiley And Sons Ltd ; <i>Original Publication</i>: London, UK : Heyden, c1987-, 2012 |
Medientyp: | academicJournal |
ISSN: | 1097-0231 (electronic) |
DOI: | 10.1002/rcm.6147 |
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