Data-Independent Acquisition Mass Spectrometry-Based Deep Proteome Analysis for Hydrophobic Proteins from Dried Blood Spots Enriched by Sodium Carbonate Precipitation

Dried blood spots (DBS) are widely used for screening molecular profiles, including enzymatic activity. However, hydrophilic proteins present in large amounts in blood inhibit detection of other proteins in DBS by liquid chromatography-mass spectrometry (LC-MS/MS) without preenrichment. Sodium carbo...

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Bibliographic Details
Published inMethods in molecular biology (Clifton, N.J.) Vol. 2420; p. 39
Main Authors Nakajima, Daisuke, Ohara, Osamu, Kawashima, Yusuke
Format Journal Article
LanguageEnglish
Published United States 2022
Subjects
Carbonates
Chromatography, Liquid
Dried Blood Spot Testing
Proteome
Tandem Mass Spectrometry
Newborn screening
Sodium carbonate
Clinical proteomics
Dried blood spots
Data-independent acquisition
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Summary:Dried blood spots (DBS) are widely used for screening molecular profiles, including enzymatic activity. However, hydrophilic proteins present in large amounts in blood inhibit detection of other proteins in DBS by liquid chromatography-mass spectrometry (LC-MS/MS) without preenrichment. Sodium carbonate precipitation (SCP) can concentrate hydrophobic proteins from DBS and effectively remove soluble hydrophilic proteins. Furthermore, SCP combination with data-independent acquisition (DIA) for quantitative LC-MS/MS enhanced the proteome analysis sensitivity and quantification limits. In this protocol, we have described in detail a simple preenrichment method using SCP and a deep proteome analysis method for LC-MS/MS data using DIA.
ISSN:1940-6029
DOI:10.1007/978-1-0716-1936-0_4