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Proteomic Analysis of Tears and Conjunctival Cells Collected with Schirmer Strips Using timsTOF Pro: Preanalytical Considerations

This study aimed to investigate the human proteome profile of samples collected from whole (W) Schirmer strips (ScS) and their two parts—the bulb (B) and the rest of the strip (R)—with a comprehensive proteomic approach using a trapped ion mobility mass spectrometer, the timsTOF Pro. Eight ScS were...

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Autores principales: Akkurt Arslan, Murat, Kolman, Ioannis, Pionneau, Cédric, Chardonnet, Solenne, Magny, Romain, Baudouin, Christophe, Brignole-Baudouin, Françoise, Kessal, Karima
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8778087/
https://www.ncbi.nlm.nih.gov/pubmed/35050124
http://dx.doi.org/10.3390/metabo12010002
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author Akkurt Arslan, Murat
Kolman, Ioannis
Pionneau, Cédric
Chardonnet, Solenne
Magny, Romain
Baudouin, Christophe
Brignole-Baudouin, Françoise
Kessal, Karima
author_facet Akkurt Arslan, Murat
Kolman, Ioannis
Pionneau, Cédric
Chardonnet, Solenne
Magny, Romain
Baudouin, Christophe
Brignole-Baudouin, Françoise
Kessal, Karima
author_sort Akkurt Arslan, Murat
collection PubMed
description This study aimed to investigate the human proteome profile of samples collected from whole (W) Schirmer strips (ScS) and their two parts—the bulb (B) and the rest of the strip (R)—with a comprehensive proteomic approach using a trapped ion mobility mass spectrometer, the timsTOF Pro. Eight ScS were collected from two healthy subjects at four different visits to be separated into three batches, i.e., 4W, 4B, and 4R. In total, 1582 proteins were identified in the W, B, and R batches. Among all identified proteins, binding proteins (43.4%) and those with catalytic activity (42.2%) constituted more than 80% of the molecular functions. The most represented biological processes were cellular processes (31.2%), metabolic processes (20.8%), and biological regulation (13.1%). Enzymes were the most represented protein class (41%), consisting mainly of hydrolases (47.5%), oxidoreductases (22.1%), and transferases (16.7%). The bulb (B), which is in contact with the conjunctiva, might collect both tear and cell proteins and therefore promote the identification of more proteins. Processing B and R separately before mass spectrometry (MS) analysis, combined with the high data acquisition speed and the addition of ion-mobility-based separation in the timsTOF Pro, can bring a new dimension to biomarker investigations of a limited sample such as tear fluid.
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spelling pubmed-87780872022-01-22 Proteomic Analysis of Tears and Conjunctival Cells Collected with Schirmer Strips Using timsTOF Pro: Preanalytical Considerations Akkurt Arslan, Murat Kolman, Ioannis Pionneau, Cédric Chardonnet, Solenne Magny, Romain Baudouin, Christophe Brignole-Baudouin, Françoise Kessal, Karima Metabolites Article This study aimed to investigate the human proteome profile of samples collected from whole (W) Schirmer strips (ScS) and their two parts—the bulb (B) and the rest of the strip (R)—with a comprehensive proteomic approach using a trapped ion mobility mass spectrometer, the timsTOF Pro. Eight ScS were collected from two healthy subjects at four different visits to be separated into three batches, i.e., 4W, 4B, and 4R. In total, 1582 proteins were identified in the W, B, and R batches. Among all identified proteins, binding proteins (43.4%) and those with catalytic activity (42.2%) constituted more than 80% of the molecular functions. The most represented biological processes were cellular processes (31.2%), metabolic processes (20.8%), and biological regulation (13.1%). Enzymes were the most represented protein class (41%), consisting mainly of hydrolases (47.5%), oxidoreductases (22.1%), and transferases (16.7%). The bulb (B), which is in contact with the conjunctiva, might collect both tear and cell proteins and therefore promote the identification of more proteins. Processing B and R separately before mass spectrometry (MS) analysis, combined with the high data acquisition speed and the addition of ion-mobility-based separation in the timsTOF Pro, can bring a new dimension to biomarker investigations of a limited sample such as tear fluid. MDPI 2021-12-21 /pmc/articles/PMC8778087/ /pubmed/35050124 http://dx.doi.org/10.3390/metabo12010002 Text en © 2021 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Akkurt Arslan, Murat
Kolman, Ioannis
Pionneau, Cédric
Chardonnet, Solenne
Magny, Romain
Baudouin, Christophe
Brignole-Baudouin, Françoise
Kessal, Karima
Proteomic Analysis of Tears and Conjunctival Cells Collected with Schirmer Strips Using timsTOF Pro: Preanalytical Considerations
title Proteomic Analysis of Tears and Conjunctival Cells Collected with Schirmer Strips Using timsTOF Pro: Preanalytical Considerations
title_full Proteomic Analysis of Tears and Conjunctival Cells Collected with Schirmer Strips Using timsTOF Pro: Preanalytical Considerations
title_fullStr Proteomic Analysis of Tears and Conjunctival Cells Collected with Schirmer Strips Using timsTOF Pro: Preanalytical Considerations
title_full_unstemmed Proteomic Analysis of Tears and Conjunctival Cells Collected with Schirmer Strips Using timsTOF Pro: Preanalytical Considerations
title_short Proteomic Analysis of Tears and Conjunctival Cells Collected with Schirmer Strips Using timsTOF Pro: Preanalytical Considerations
title_sort proteomic analysis of tears and conjunctival cells collected with schirmer strips using timstof pro: preanalytical considerations
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8778087/
https://www.ncbi.nlm.nih.gov/pubmed/35050124
http://dx.doi.org/10.3390/metabo12010002
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