ArticleFrontiers in microbiology2019
Evaluation of Sample Preparation Methods for Fast Proteotyping of Microorganisms by Tandem Mass Spectrometry.
Article in Frontiers in microbiology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 44 papers.
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Who cites it
44 citing papers in PubMed.
- Lyophilization Prior to Homogenisation and Extraction Increases Membrane Protein Detection in Gram-Negative Bacterial Proteomic Analyses.Proteomes · 2026Article
- Comparison of In-Gel and SP3 Based Sample Preparation Protocols for LC-MS/MS Based Proteomics.Proteomics · 2026Article
- Article
- From Identification to Insight: Making Full Use of the Diagnostic Potential of MS/MS Proteotyping in Clinical Microbiology Using Efficient Bioinformatics.Journal of proteome research · 2025Review
- DecodingApplied and environmental microbiology · 2025Article
- Phosphate availability modulates the weathering effectiveness and molecular response of Caballeronia mineralivorans PML1(12).BMC microbiology · 2025Article
- P4PP: A Universal Shotgun Proteomics Data Analysis Pipeline for Virus Identification.Molecular & cellular proteomics : MCP · 2025Article
- Proteomic signatures ofBiofilm · 2025Article
- Sample Preparation for Proteogenomics of Aquatic Invertebrates.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Universal Identification of Pathogenic Viruses by Liquid Chromatography Coupled with Tandem Mass Spectrometry Proteotyping.Molecular & cellular proteomics : MCP · 2024Article
- Integrated multi-omics unveil the impact of H-phosphinic analogs of glutamate and α-ketoglutarate on Escherichia coli metabolism.The Journal of biological chemistry · 2024Article
- Benchmarking low- and high-throughput protein cleanup and digestion methods for human fecal metaproteomics.mSystems · 2024Article
- From bottom-up to cell surface proteomics: detergents or no detergents, that is the question.Biochemical Society transactions · 2024Review
- Article
- Exploring Andean High-Altitude Lake Extremophiles through Advanced Proteotyping.Journal of proteome research · 2024Article
- Integrative Metabolomics and Proteomics Allow the Global Intracellular Characterization ofJournal of proteome research · 2024Article
- Article
- Organ-oriented proteogenomics functional atlas of three aquatic invertebrate sentinel species.Scientific data · 2023Article
- Discriminating Susceptibility of Xanthine Oxidoreductase Family to Metals.Microbiology spectrum · 2023Article
- Insights into peculiar fungal LPMO family members holding a short C-terminal sequence reminiscent of phosphate binding motifs.Scientific reports · 2023Article
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Tandem mass spectrometry-based proteotyping allows characterizing microorganisms in terms of taxonomy and is becoming an important tool for investigating microbial diversity from several ecosystems. Fast and automatable sample preparation for obtaining peptide pools amenable to tandem mass spectrometry is necessary for enabling proteotyping as a high-throughput method. First, the protocol to increase the yield of lysis of several representative bacterial and eukaryotic microorganisms was optimized by using a long and drastic bead-beating setting with 0.1 mm silica beads, 0.1 and 0.5 mm glass beads, in presence of detergents. Then, three different methods to obtain greater digestion yield from these extracts were tested and optimized for improve efficiency and reduce application time: denaturing electrophoresis of proteins and in-gel proteolysis, suspension-trapping filter-based approach (S-Trap) and, solid-phase-enhanced sample preparation named SP3. The latter method outperforms the other two in terms of speed and delivers also more peptides and proteins than with the in-gel proteolysis (2.2 fold for both) and S-trap approaches (1.3 and 1.2 fold, respectively). Thus, SP3 directly improves tandem mass spectrometry proteotyping.
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