Investigation of MALDI-TOF Mass Spectrometry for Assessing the Molecular Diversity of <i>Campylobacter jejuni</i> and Comparison with MLST and cgMLST: A Luxembourg One-Health Study

There is a need for active molecular surveillance of human and veterinary <i>Campylobacter</i> infections. However, sequencing of all isolates is associated with high costs and a considerable workload. Thus, there is a need for a straightforward complementary tool to prioritize isolates...

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Autores principales:	Maureen Feucherolles, Morgane Nennig, Sören L. Becker, Delphine Martiny, Serge Losch, Christian Penny, Henry-Michel Cauchie, Catherine Ragimbeau
Formato:	article
Lenguaje:	EN
Publicado:	MDPI AG 2021
Materias:	<i>Campylobacter</i> MALDI-TOF MS subtyping MLST cgMLST machine learning Medicine (General) R5-920
Acceso en línea:	https://doaj.org/article/8457e621cc0348fcbdb78f2e91cf2dd2
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spelling	oai:doaj.org-article:8457e621cc0348fcbdb78f2e91cf2dd22021-11-25T17:20:09ZInvestigation of MALDI-TOF Mass Spectrometry for Assessing the Molecular Diversity of <i>Campylobacter jejuni</i> and Comparison with MLST and cgMLST: A Luxembourg One-Health Study10.3390/diagnostics111119492075-4418https://doaj.org/article/8457e621cc0348fcbdb78f2e91cf2dd22021-10-01T00:00:00Zhttps://www.mdpi.com/2075-4418/11/11/1949https://doaj.org/toc/2075-4418There is a need for active molecular surveillance of human and veterinary <i>Campylobacter</i> infections. However, sequencing of all isolates is associated with high costs and a considerable workload. Thus, there is a need for a straightforward complementary tool to prioritize isolates to sequence. In this study, we proposed to investigate the ability of MALDI-TOF MS to pre-screen <i>C. jejuni</i> genetic diversity in comparison to MLST and cgMLST. A panel of 126 isolates, with 10 clonal complexes (CC), 21 sequence types (ST) and 42 different complex types (CT) determined by the SeqSphere+ cgMLST, were analysed by a MALDI Biotyper, resulting into one average spectra per isolate. Concordance and discriminating ability were evaluated based on protein profiles and different cut-offs. A random forest algorithm was trained to predict STs. With a 94% similarity cut-off, an AWC of 1.000, 0.933 and 0.851 was obtained for MLST<sub>CC</sub>, MLST<sub>ST</sub> and cgMLST profile, respectively. The random forest classifier showed a sensitivity and specificity up to 97.5% to predict four different STs. Protein profiles allowed to predict <i>C. jejuni</i> CCs, STs and CTs at 100%, 93% and 85%, respectively. Machine learning and MALDI-TOF MS could be a fast and inexpensive complementary tool to give an early signal of recurrent <i>C. jejuni</i> on a routine basis.Maureen FeucherollesMorgane NennigSören L. BeckerDelphine MartinySerge LoschChristian PennyHenry-Michel CauchieCatherine RagimbeauMDPI AGarticle<i>Campylobacter</i>MALDI-TOF MSsubtypingMLSTcgMLSTmachine learningMedicine (General)R5-920ENDiagnostics, Vol 11, Iss 1949, p 1949 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	<i>Campylobacter</i> MALDI-TOF MS subtyping MLST cgMLST machine learning Medicine (General) R5-920
spellingShingle	<i>Campylobacter</i> MALDI-TOF MS subtyping MLST cgMLST machine learning Medicine (General) R5-920 Maureen Feucherolles Morgane Nennig Sören L. Becker Delphine Martiny Serge Losch Christian Penny Henry-Michel Cauchie Catherine Ragimbeau Investigation of MALDI-TOF Mass Spectrometry for Assessing the Molecular Diversity of <i>Campylobacter jejuni</i> and Comparison with MLST and cgMLST: A Luxembourg One-Health Study
description	There is a need for active molecular surveillance of human and veterinary <i>Campylobacter</i> infections. However, sequencing of all isolates is associated with high costs and a considerable workload. Thus, there is a need for a straightforward complementary tool to prioritize isolates to sequence. In this study, we proposed to investigate the ability of MALDI-TOF MS to pre-screen <i>C. jejuni</i> genetic diversity in comparison to MLST and cgMLST. A panel of 126 isolates, with 10 clonal complexes (CC), 21 sequence types (ST) and 42 different complex types (CT) determined by the SeqSphere+ cgMLST, were analysed by a MALDI Biotyper, resulting into one average spectra per isolate. Concordance and discriminating ability were evaluated based on protein profiles and different cut-offs. A random forest algorithm was trained to predict STs. With a 94% similarity cut-off, an AWC of 1.000, 0.933 and 0.851 was obtained for MLST<sub>CC</sub>, MLST<sub>ST</sub> and cgMLST profile, respectively. The random forest classifier showed a sensitivity and specificity up to 97.5% to predict four different STs. Protein profiles allowed to predict <i>C. jejuni</i> CCs, STs and CTs at 100%, 93% and 85%, respectively. Machine learning and MALDI-TOF MS could be a fast and inexpensive complementary tool to give an early signal of recurrent <i>C. jejuni</i> on a routine basis.
format	article
author	Maureen Feucherolles Morgane Nennig Sören L. Becker Delphine Martiny Serge Losch Christian Penny Henry-Michel Cauchie Catherine Ragimbeau
author_facet	Maureen Feucherolles Morgane Nennig Sören L. Becker Delphine Martiny Serge Losch Christian Penny Henry-Michel Cauchie Catherine Ragimbeau
author_sort	Maureen Feucherolles
title	Investigation of MALDI-TOF Mass Spectrometry for Assessing the Molecular Diversity of <i>Campylobacter jejuni</i> and Comparison with MLST and cgMLST: A Luxembourg One-Health Study
title_short	Investigation of MALDI-TOF Mass Spectrometry for Assessing the Molecular Diversity of <i>Campylobacter jejuni</i> and Comparison with MLST and cgMLST: A Luxembourg One-Health Study
title_full	Investigation of MALDI-TOF Mass Spectrometry for Assessing the Molecular Diversity of <i>Campylobacter jejuni</i> and Comparison with MLST and cgMLST: A Luxembourg One-Health Study
title_fullStr	Investigation of MALDI-TOF Mass Spectrometry for Assessing the Molecular Diversity of <i>Campylobacter jejuni</i> and Comparison with MLST and cgMLST: A Luxembourg One-Health Study
title_full_unstemmed	Investigation of MALDI-TOF Mass Spectrometry for Assessing the Molecular Diversity of <i>Campylobacter jejuni</i> and Comparison with MLST and cgMLST: A Luxembourg One-Health Study
title_sort	investigation of maldi-tof mass spectrometry for assessing the molecular diversity of <i>campylobacter jejuni</i> and comparison with mlst and cgmlst: a luxembourg one-health study
publisher	MDPI AG
publishDate	2021
url	https://doaj.org/article/8457e621cc0348fcbdb78f2e91cf2dd2
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Investigation of MALDI-TOF Mass Spectrometry for Assessing the Molecular Diversity of <i>Campylobacter jejuni</i> and Comparison with MLST and cgMLST: A Luxembourg One-Health Study

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