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Evaluating the protein extraction methods for gut metaproteomics

ABSTRACT: Human stool samples were collected, microbial cells were harvested and subjected to protein extraction using different protocols for metaproteomics analyses. The protein extraction methods differ from the usage of different lysis buffer (SDS, urea and commercially available B-Per reagent), bead beating, ultrasonication and heating. The impacts of different protein extraction methods on metaproteomics results were evaluated with multiple criteria including protein yields, peptide identifications, taxonomic compositions and functional compositions.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Human Gut Metagenome

TISSUE(S): Blood

SUBMITTER: Xu Zhang

LAB HEAD: Daniel Figeys

PROVIDER: PXD005969 | Pride | 2017-07-17

REPOSITORIES: Pride

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Assessing the impact of protein extraction methods for human gut metaproteomics.

Zhang Xu X Li Leyuan L Mayne Janice J Ning Zhibin Z Stintzi Alain A Figeys Daniel D

Journal of proteomics 20170710

Metaproteomics is a promising methodology for the functional characterizations of the gut microbiome. However, the performance of metaproteomic analysis is affected by protein extraction protocols in terms of the amount of protein recovered and the relative abundance of different bacteria observed in microbiome. Currently, there is a lack of consistency on protein extraction methods in published metaproteomics studies. Here we evaluated the effects of different protein extraction methods on huma ...[more]

PMID: 28705725

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