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Accelerated digestion for high-throughput proteomics analysis of whole bacterial proteomes

Deshusses, J. M.
Zimmermann-Ivol, C. G.
Published in Journal of microbiological methods. 2010, vol. 80, no. 1, p. 56-62
Abstract In bottom-up proteomics, rapid and efficient protein digestion is crucial for data reliability. However, sample preparation remains one of the rate-limiting steps in proteomics workflows. In this study, we compared the conventional trypsin digestion procedure with two accelerated digestion protocols based on shorter reaction times and microwave-assisted digestion for the preparation of membrane-enriched protein fractions of the human pathogenic bacterium Staphylococcus aureus. Produced peptides were analyzed by Shotgun IPG-IEF, a methodology relying on separation of peptides by IPG-IEF before the conventional LC-MS/MS steps of shotgun proteomics. Data obtained on two LC-MS/MS platforms showed that accelerated digestion protocols, especially the one relying on microwave irradiation, enhanced the cleavage specificity of trypsin and thus improved the digestion efficiency especially for hydrophobic and membrane proteins. The combination of high-throughput proteomics with accelerated and efficient sample preparation should enhance the practicability of proteomics by reducing the time from sample collection to obtaining the results.
Keywords Bacterial Proteins/chemistryHigh-Throughput Screening Assays/ methodsHydrolysisMicrowavesProteome/ chemistryProteomics/ methodsStaphylococcus aureus/ chemistryTrypsin/chemistry
PMID: 19913576
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Research group Chimie et protéomique clinique (270)
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VAEZZADEH, Alireza et al. Accelerated digestion for high-throughput proteomics analysis of whole bacterial proteomes. In: Journal of microbiological methods, 2010, vol. 80, n° 1, p. 56-62. doi: 10.1016/j.mimet.2009.10.019 https://archive-ouverte.unige.ch/unige:7622

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Deposited on : 2010-06-21

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