A MALDI-TOF MS library for rapid identification of human commensal gut bacteria from the class Clostridia

Microbial isolates from culture can be identified using 16S or whole-genome sequencing which generates substantial costs and requires time and expertise. Protein fingerprinting Matrix-assisted Laser Desorption Ionization-time of flight mass spectrometry (MALDI-TOF MS) is widely used for rapid bacter...

Full description

Saved in:
Bibliographic Details
Published in:Frontiers in microbiology 2023-02, Vol.14, p.1104707-1104707
Main Authors: Asare, Paul Tetteh, Lee, Chi-Hsien, Hürlimann, Vera, Teo, Youzheng, Cuénod, Aline, Akduman, Nermin, Gekeler, Cordula, Afrizal, Afrizal, Corthesy, Myriam, Kohout, Claire, Thomas, Vincent, de Wouters, Tomas, Greub, Gilbert, Clavel, Thomas, Pamer, Eric G, Egli, Adrian, Maier, Lisa, Vonaesch, Pascale
Format: Article
Language:English
Subjects:
anaerobic
bacterial identification
Clostridia
commensal bacteria
human gut microbiota
MALDI-TOF MS
Microbiology
Citations: Items that this one cites
Items that cite this one
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:Microbial isolates from culture can be identified using 16S or whole-genome sequencing which generates substantial costs and requires time and expertise. Protein fingerprinting Matrix-assisted Laser Desorption Ionization-time of flight mass spectrometry (MALDI-TOF MS) is widely used for rapid bacterial identification in routine diagnostics but shows a poor performance and resolution on commensal bacteria due to currently limited database entries. The aim of this study was to develop a MALDI-TOF MS plugin database (CLOSTRI-TOF) allowing for rapid identification of non-pathogenic human commensal gastrointestinal bacteria. We constructed a database containing mass spectral profiles (MSP) from 142 bacterial strains representing 47 species and 21 genera within the class . Each strain-specific MSP was constructed using >20 raw spectra measured on a microflex Biotyper system (Bruker-Daltonics) from two independent cultures. For validation, we used 58 sequence-confirmed strains and the CLOSTRI-TOF database successfully identified 98 and 93% of the strains, respectively, in two independent laboratories. Next, we applied the database to 326 isolates from stool of healthy Swiss volunteers and identified 264 (82%) of all isolates (compared to 170 (52.1%) with the Bruker-Daltonics library alone), thus classifying 60% of the formerly unknown isolates. We describe a new open-source MSP database for fast and accurate identification of the class from the human gut microbiota. CLOSTRI-TOF expands the number of species which can be rapidly identified by MALDI-TOF MS.
ISSN:1664-302X
1664-302X
DOI:10.3389/fmicb.2023.1104707