Despite the great potential of Dried Blood Spots (DBS) as a source of endogenous proteins for biomarker discovery, the literature relating to non-targeted bottom-up proteomics of DBS is sparse, primarily due to the inherent complexity and very high dynamic range associated with these samples. Here, we present proof-of-concept results in which we have coupled high field asymmetric waveform ion mobility spectrometry (FAIMS) with LC-MS/MS for non-targeted bottom-up proteomics of DBS with the aim of addressing these challenges. We, and others, have previously demonstrated the benefits of FAIMS more generally in proteomics, including improved signal to noise and extended proteome coverage, and the aim of the current work was to extend those benefits specifically to DBS. The DBS samples were either extracted by the more traditional manual punch and elute approach or by an automated liquid surface extraction (LESA) approach prior to trypsin digestion. The resulting samples were analysed by LC-MS/MS and LC-FAIMS-MS/MS analysis. The results show that the total number of proteins identified increased by ~ 50% for the punch and elute samples and ~ 45% for the LESA samples in the LC-FAIMS-MS/MS analysis. For both the punch and elute samples and the LESA samples, ~ 30% of the total proteins identified were observed in both the LC-MS/MS and the LC-FAIMS-MS/MS datasets, illustrating the complementarity of the approaches. Overall, this work demonstrates the benefits of inclusion of FAIMS for non-targeted proteomics of DBS.
- differential ion mobility
- dried blood spots
- endogenous proteins
- high field asymmetric waveform ion mobility spectrometry
ASJC Scopus subject areas
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Data to accompany "High Field Asymmetric Waveform Ion Mobility Spectrometry in Nontargeted Bottom-up Proteomics of Dried Blood Spots 10.1021/acs.jproteome.7b00746"
Cooper, H. (Creator), University of Birmingham, 2018