MetaPep: A core peptide database for faster human gut metaproteomics database searches
Zhongzhi Sun1,2, Zhibin Ning1, Kai Cheng1
1School of Pharmaceutical Sciences, Faculty of Medicine, University of Ottawa, Ottawa, ON K1H 8M5, Canada.
Computational and Structural Biotechnology Journal
|September 11, 2023
Summary
MetaPep accelerates human gut metaproteomics by providing a core peptide database. This resource enhances peptide identification accuracy and speed in large-scale microbiome studies.
Area of Science:
- Microbiology
- Proteomics
- Bioinformatics
Background:
- Metaproteomics analyzes functional changes in the human gut microbiome.
- Peptide identification is crucial but challenged by large search spaces in metaproteomics.
- Large-scale projects (100-1000 microbiomes) exacerbate database search difficulties.
Purpose of the Study:
- To develop MetaPep, a core peptide database to accelerate and improve peptide identification in human gut metaproteomics.
- To create a generic workflow for metaproteomics using a core peptide database.
Main Methods:
- Constructed MetaPep by re-analyzing raw files from fifteen human gut metaproteomics projects.
- Included both peptide sequences and tandem mass spectrometry (MS) spectra in the database.
- Validated MetaPep for rapid and accurate peptide identification.
Main Results:
- MetaPep significantly accelerates peptide identification in human gut metaproteomics.
- The database provides a large collection of identified peptides and spectra from published datasets.
- Demonstrated the effectiveness of a core peptide database for metaproteomics workflows.
Conclusions:
- MetaPep is a valuable resource for current human gut metaproteomics research.
- The study validates the use of a core peptide database as a generic metaproteomics workflow.
- MetaPep is poised to support future research, including data-independent acquisition (DIA) analysis.
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