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Related Concept Videos

Proteomics01:33

Proteomics

7.7K
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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Updated: Aug 20, 2025

Comprehensive Workflow of Mass Spectrometry-based Shotgun Proteomics of Tissue Samples
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Comprehensive Workflow of Mass Spectrometry-based Shotgun Proteomics of Tissue Samples

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A bottom-up proteomics workflow for a system containing multiple organisms.

Hongxia Bai1, Leonard B Collins2, Marcos Rogério André3,4

  • 1Department of Chemistry, North Carolina State University, Raleigh, North Carolina, USA.

Rapid Communications in Mass Spectrometry : RCM
|November 24, 2022
PubMed
Summary
This summary is machine-generated.

This study details a new proteomics workflow for analyzing multiple organisms, crucial for understanding complex biological interactions. The method, using label-free quantification, is demonstrated with flea-bacteria systems relevant to Cat Scratch Disease.

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Large-scale Top-down Proteomics Using Capillary Zone Electrophoresis Tandem Mass Spectrometry

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Area of Science:

  • Proteomics
  • Microbiology
  • Systems Biology

Background:

  • Discovery proteomics is vital for biological research.
  • Many biological systems involve interactions between multiple organisms.
  • Understanding these multi-organismal interactions requires advanced analytical tools.

Purpose of the Study:

  • To develop and present a robust bottom-up proteomics workflow.
  • To enable the study of multi-organismal systems.
  • To facilitate a deeper understanding of inter-organismal interactions.

Main Methods:

  • A label-free quantification proteomics workflow was established.
  • Nanoscale liquid chromatography coupled to tandem mass spectrometry (nanoLC-MS/MS) was employed.
  • The workflow was applied to study fleas (Ctenocephalides felis felis) infected with Bartonella henselae.

Main Results:

  • Detailed step-by-step instructions are provided for all stages of the proteomics workflow.
  • Procedures cover protein extraction, cleanup, quantification, nanoLC-MS/MS data acquisition, and analysis.
  • The protocol includes comprehensive details to ensure reproducibility and adoption.

Conclusions:

  • A comprehensive proteomics protocol for multi-proteome analysis across different taxonomic lineages is presented.
  • The Cat Scratch Disease model (fleas infected with Bartonella henselae) was used for demonstration.
  • This workflow is adaptable for various label-free proteomics studies involving taxonomically distinct organisms.