Combining label-free and label-based accurate quantifications with SWATH-MS: comparison with SRM and PRM for the evaluation of bovine muscle type effects.
Fiche publication
Date publication
mars 2021
Journal
Proteomics
Auteurs
Membres identifiés du Cancéropôle Est :
Dr CIANFERANI Sarah, Dr CARAPITO Christine
Tous les auteurs :
Bons J, Husson G, Chion M, Bonnet M, Maumy-Bertrand M, Delalande F, Cianférani S, Bertrand F, Picard B, Carapito C
Lien Pubmed
Résumé
Mass spectrometry has proven to be a valuable tool for the accurate quantification of proteins. In this study, the performances of three targeted approaches, namely Selected Reaction Monitoring (SRM), Parallel Reaction Monitoring (PRM) and Sequential Windowed Acquisition of Theoretical Mass Spectra (SWATH-MS), to accurately quantify ten potential biomarkers of beef meat tenderness or marbling in a cohort of 64 muscle samples were evaluated. Besides and so as to get the most benefit out of the complete MS2 maps that are acquired in SWATH-MS, an original label-free quantification method to estimate protein amounts using an I-spline regression model was developed. Overall, SWATH-MS outperformed SRM in terms of sensitivity and dynamic range, while PRM still performed the best, and all three strategies showed similar quantification accuracies and precisions for the absolute quantification of targets of interest. This targeted picture was extended by 585 additional proteins for which amounts were estimated using the label-free approach on SWATH-MS, thus offering a more global profiling of muscle proteomes and further insights into muscle type effect on candidate biomarkers of beef meat qualities as well as muscle metabolism. This article is protected by copyright. All rights reserved.
Mots clés
Data-Independent Acquisition (DIA), SWATH-MS, beef meat quality, quantitative MS, targeted proteomics
Référence
Proteomics. 2021 Mar 18;:e2000214