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Rapid and Reproducible MALDI-TOF-Based Method for the Detection of Vancomycin-Resistant Enterococcus faecium Using Classifying Algorithms

Vancomycin-resistant Enterococcus faecium represents a health threat due to its ability to spread and cause outbreaks. MALDI-TOF MS has demonstrated its usefulness for E. faecium identification, but its implementation for antimicrobial resistance detection is still under evaluation. This study asses...

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Autores principales: Candela, Ana, Arroyo, Manuel J., Sánchez-Molleda, Ángela, Méndez, Gema, Quiroga, Lidia, Ruiz, Adrián, Cercenado, Emilia, Marín, Mercedes, Muñoz, Patricia, Mancera, Luis, Rodríguez-Temporal, David, Rodríguez-Sánchez, Belén
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8871047/
https://www.ncbi.nlm.nih.gov/pubmed/35204419
http://dx.doi.org/10.3390/diagnostics12020328
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author Candela, Ana
Arroyo, Manuel J.
Sánchez-Molleda, Ángela
Méndez, Gema
Quiroga, Lidia
Ruiz, Adrián
Cercenado, Emilia
Marín, Mercedes
Muñoz, Patricia
Mancera, Luis
Rodríguez-Temporal, David
Rodríguez-Sánchez, Belén
author_facet Candela, Ana
Arroyo, Manuel J.
Sánchez-Molleda, Ángela
Méndez, Gema
Quiroga, Lidia
Ruiz, Adrián
Cercenado, Emilia
Marín, Mercedes
Muñoz, Patricia
Mancera, Luis
Rodríguez-Temporal, David
Rodríguez-Sánchez, Belén
author_sort Candela, Ana
collection PubMed
description Vancomycin-resistant Enterococcus faecium represents a health threat due to its ability to spread and cause outbreaks. MALDI-TOF MS has demonstrated its usefulness for E. faecium identification, but its implementation for antimicrobial resistance detection is still under evaluation. This study assesses the repeatability of MALDI-TOF MS for peak analysis and its performance in the discrimination of vancomycin-susceptible (VSE) from vancomycin-resistant isolates (VRE). The study was carried out on protein spectra from 178 E. faecium unique clinical isolates—92 VSE, 31 VanA VRE, 55 VanB VRE-, processed with Clover MS Data Analysis software. Technical and biological repeatability were assayed. Unsupervised (principal component analysis, (PCA)) and supervised algorithms (support vector machine (SVM), random forest (RF) and partial least squares–discriminant analysis (PLS-DA)) were applied. The repeatability assay was performed with 18 peaks common to VSE and VRE with intensities above 1.0% of the maximum peak intensity. It showed lower variability for normalized data and for the peaks within the 3000–9000 m/z range. It was found that 80.9%, 79.2% and 77.5% VSE vs. VRE discrimination was achieved by applying SVM, RF and PLS-DA, respectively. Correct internal differentiation of VanA from VanB VRE isolates was obtained by SVM in 86.6% cases. The implementation of MALDI-TOF MS and peak analysis could represent a rapid and effective tool for VRE screening. However, further improvements are needed to increase the accuracy of this approach.
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spelling pubmed-88710472022-02-25 Rapid and Reproducible MALDI-TOF-Based Method for the Detection of Vancomycin-Resistant Enterococcus faecium Using Classifying Algorithms Candela, Ana Arroyo, Manuel J. Sánchez-Molleda, Ángela Méndez, Gema Quiroga, Lidia Ruiz, Adrián Cercenado, Emilia Marín, Mercedes Muñoz, Patricia Mancera, Luis Rodríguez-Temporal, David Rodríguez-Sánchez, Belén Diagnostics (Basel) Article Vancomycin-resistant Enterococcus faecium represents a health threat due to its ability to spread and cause outbreaks. MALDI-TOF MS has demonstrated its usefulness for E. faecium identification, but its implementation for antimicrobial resistance detection is still under evaluation. This study assesses the repeatability of MALDI-TOF MS for peak analysis and its performance in the discrimination of vancomycin-susceptible (VSE) from vancomycin-resistant isolates (VRE). The study was carried out on protein spectra from 178 E. faecium unique clinical isolates—92 VSE, 31 VanA VRE, 55 VanB VRE-, processed with Clover MS Data Analysis software. Technical and biological repeatability were assayed. Unsupervised (principal component analysis, (PCA)) and supervised algorithms (support vector machine (SVM), random forest (RF) and partial least squares–discriminant analysis (PLS-DA)) were applied. The repeatability assay was performed with 18 peaks common to VSE and VRE with intensities above 1.0% of the maximum peak intensity. It showed lower variability for normalized data and for the peaks within the 3000–9000 m/z range. It was found that 80.9%, 79.2% and 77.5% VSE vs. VRE discrimination was achieved by applying SVM, RF and PLS-DA, respectively. Correct internal differentiation of VanA from VanB VRE isolates was obtained by SVM in 86.6% cases. The implementation of MALDI-TOF MS and peak analysis could represent a rapid and effective tool for VRE screening. However, further improvements are needed to increase the accuracy of this approach. MDPI 2022-01-27 /pmc/articles/PMC8871047/ /pubmed/35204419 http://dx.doi.org/10.3390/diagnostics12020328 Text en © 2022 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
Candela, Ana
Arroyo, Manuel J.
Sánchez-Molleda, Ángela
Méndez, Gema
Quiroga, Lidia
Ruiz, Adrián
Cercenado, Emilia
Marín, Mercedes
Muñoz, Patricia
Mancera, Luis
Rodríguez-Temporal, David
Rodríguez-Sánchez, Belén
Rapid and Reproducible MALDI-TOF-Based Method for the Detection of Vancomycin-Resistant Enterococcus faecium Using Classifying Algorithms
title Rapid and Reproducible MALDI-TOF-Based Method for the Detection of Vancomycin-Resistant Enterococcus faecium Using Classifying Algorithms
title_full Rapid and Reproducible MALDI-TOF-Based Method for the Detection of Vancomycin-Resistant Enterococcus faecium Using Classifying Algorithms
title_fullStr Rapid and Reproducible MALDI-TOF-Based Method for the Detection of Vancomycin-Resistant Enterococcus faecium Using Classifying Algorithms
title_full_unstemmed Rapid and Reproducible MALDI-TOF-Based Method for the Detection of Vancomycin-Resistant Enterococcus faecium Using Classifying Algorithms
title_short Rapid and Reproducible MALDI-TOF-Based Method for the Detection of Vancomycin-Resistant Enterococcus faecium Using Classifying Algorithms
title_sort rapid and reproducible maldi-tof-based method for the detection of vancomycin-resistant enterococcus faecium using classifying algorithms
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8871047/
https://www.ncbi.nlm.nih.gov/pubmed/35204419
http://dx.doi.org/10.3390/diagnostics12020328
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