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Proteomics

Proteomics

A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
Proteomics is the study of proteomes' function. It involves the large-scale systematic study of the proteome to denote the protein complement expressed by a genome. Scientist Mark Wilkins coined the term...

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Related Experiment Video

Updated: Sep 19, 2025

An Aquatic Microbial Metaproteomics Workflow: From Cells to Tryptic Peptides Suitable for Tandem Mass Spectrometry-based Analysis

An Aquatic Microbial Metaproteomics Workflow: From Cells to Tryptic Peptides Suitable for Tandem Mass Spectrometry-based Analysis

Published on: September 15, 2015

The microbiologist's guide to metaproteomics.

Tim Van Den Bossche^1,2, Jean Armengaud³, Dirk Benndorf^4,5,6

¹Department of Biomolecular Medicine, Faculty of Medicine and Health Sciences Ghent University Ghent Belgium.

|June 5, 2025

Summary

This summary is machine-generated.

Metaproteomics analyzes microbial community proteins to reveal ecosystem functions. This review guides researchers on experimental design, methods, and data analysis for metaproteomics studies.

Keywords:

bioinformatics functional dynamics mass spectrometry metaproteomics microbiome

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The MPLEx Protocol for Multi-omic Analyses of Soil Samples

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Last Updated: Sep 19, 2025

An Aquatic Microbial Metaproteomics Workflow: From Cells to Tryptic Peptides Suitable for Tandem Mass Spectrometry-based Analysis

An Aquatic Microbial Metaproteomics Workflow: From Cells to Tryptic Peptides Suitable for Tandem Mass Spectrometry-based Analysis

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The MPLEx Protocol for Multi-omic Analyses of Soil Samples

The MPLEx Protocol for Multi-omic Analyses of Soil Samples

Published on: May 30, 2018

Area of Science:

Microbiology
Proteomics
Ecology

Background:

Microbiomes are crucial in diverse ecosystems.
Proteins are key indicators of microbial activity and function.
Understanding microbial ecology requires integrated omics approaches.

Purpose of the Study:

To provide a practical guide to metaproteomics.
To outline key principles and methodologies in metaproteomics.
To facilitate the integration of metaproteomics with other omics disciplines.

Main Methods:

Experimental design considerations for metaproteomics.
Sample preparation techniques for microbial protein analysis.
Mass spectrometry and data analysis strategies for metaproteomics.

Main Results:

This review synthesizes current metaproteomics methodologies.
It details analytical workflows from sample to data.
It highlights the importance of integrated approaches for comprehensive microbiome understanding.

Conclusions:

Metaproteomics offers powerful insights into microbial community functions.
Standardized approaches are essential for advancing the field.
This guide supports researchers in applying metaproteomics to ecological questions.