Proteomic analysis of endoscopically (endoscopic pancreatic function test) collected gastroduodenal fluid using in-gel tryptic digestion followed by LC-MS/MS

Joao A. Paulo, Linda S. Lee, Bechien Wu, Kathryn Repas, Peter A. Banks, Darwin L. Conwell, Hanno Steen

Research output: Contribution to journalArticlepeer-review

19 Scopus citations

Abstract

Purpose: Proteomic analysis of gastroduodenal fluid offers an alternative strategy to study diseases, such as peptic ulcer disease and gastric cancer. We use in-gel tryptic digestion followed by LC-MS/MS (GeLC-MS/MS) to profile the proteome of gastroduodenal fluid collected during the endoscopic pancreatic function test (ePFT). Experimental design: Gastroduodenal fluid specimens collected during ePFT from six patients with upper abdominal pain were subjected to proteomic analysis. We extracted proteins using three chemical precipitation reagents (acetone, ethanol, and trichloroacetic acid) and analyzed each sample by SDS-PAGE and GeLC-MS/MS for protein identification. Cellular origin and molecular function of the identified proteins were determined via gene ontology analysis. Results: All three precipitation techniques successfully extracted protein from gastroduodenal fluid, with acetone resulting in excellent resolution and minimal protein degradation compared with the other methods. A total of 134 unique proteins were found in our GeLC-MS/MS analysis of ePFT-collected gastroduodenal fluid samples. Sixty-seven proteins were identified in at least two of the three samples. Gene ontology analysis classified these proteins mainly as being peptidases and localized extracellularly. Conclusions and clinical relevance: ePFT, followed by acetone precipitation, and coupled with LC-MS/MS, can be used to safely collect gastroduodenal fluid from the upper gastrointestinal tract for MS-based proteomic analysis.

Original languageEnglish
Pages (from-to)715-725
Number of pages11
JournalProteomics - Clinical Applications
Volume4
Issue number8-9
DOIs
StatePublished - Sep 2010

Keywords

  • Biomarkers
  • Digestive diseases
  • Gastric cancer
  • Gastrointestinal tract
  • Pancreatic function test

ASJC Scopus subject areas

  • Clinical Biochemistry

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