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A Clinical Metaproteomics Workflow Implemented within Galaxy Bioinformatics Platform to Analyze Host-Microbiome Interactions Underlying Human Disease

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Perspective and Guidelines for Metaproteomics in Microbiome Studies.

Xu Zhang¹, Daniel Figeys¹

¹Ottawa Institute of Systems Biology and Department of Biochemistry, Microbiology and Immunology, Faculty of Medicine , University of Ottawa , Ottawa , Ontario K1H 8M5 , Canada.

Journal of Proteome Research

|April 23, 2019

Summary

Metaproteomics offers functional insights into the human microbiome, crucial for understanding health and disease. This review proposes guidelines to standardize metaproteomic studies of the human microbiome.

Keywords:

bioinformatics guidelines metaproteomics microbiome multiomics post-translational modification standards workflow

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Area of Science:

Microbiology
Human Health
Proteomics

Background:

The human microbiome significantly impacts health, with dysbiosis linked to diseases.
Functional characterization of the microbiome is increasingly important.
Metaproteomics provides direct insights into microbial functions.

Purpose of the Study:

To review recent advancements in human metaproteomics.
To identify challenges and propose future directions.
To establish guidelines for human microbiome metaproteomic studies.

Main Methods:

Review of experimental and bioinformatic approaches in metaproteomics.
Analysis of large-scale human metaproteomic studies.
Development of proposed guidelines for study performance and reporting.

Main Results:

Significant progress in metaproteomic techniques and applications.
Identification of persistent challenges in standardization and methodology.
Proposal of a comprehensive set of guidelines for the field.

Conclusions:

Metaproteomics is a vital tool for functional microbiome research.
Standardized guidelines are necessary for robust and reproducible human microbiome studies.
Adoption of these guidelines will advance the field and its clinical applications.