An overview of the data obtained during the validation of an optimized MALDI-TOF MS Biotyper database for the identification of anaerobic bacteria

Abstract

This data in brief article presents the data obtained during the validation of the optimized Biotyper Matrix Assisted Laser Desorption Ionization Time-of-Flight Mass Spectrometry (MALDI-TOF MS) database. The validation was performed by the different expertise laboratories, collaborating within the European Network for the Rapid Identification of Anaerobes (ENRIA) project, using 6309 human clinical anaerobic bacterial strains.Different databases were compared with each other; the db 5989 database (V5 database); the V5 database complimented with Main Spectral Profiles (MSPs) of ENRIA strains added to the next update of the database; and the V5 database complimented with the MSPs of all anaerobic clinical isolates collected within the ENRIA project. For a comprehensive discussion of the full dataset, please see the research article that accompanies this data article (Veloo et al., 2018) [1]

Parabacteroides distasonis: intriguing aerotolerant gut anaerobe with emerging antimicrobial resistance and pathogenic and probiotic roles in human health

“…In a study by Veloo et al , 35 P. distasonis was the most commonly identified Parabacteroides species in human clinical specimens when using MALDI-TOF MS. The role of the MALDI-TOF MS system in correctly identifying emerging species that are either rare or difficult to grow in vitro is influenced by several factors that impair our ability to identify and correctly assign a pathogenic role to clinical specimens for such emergent species 1 .…”

How MALDI-TOF mass spectrometry can aid the diagnosis of hard-to-identify pathogenic bacteria – the rare and the unknown

“…In particular, species missing completely or which were represented with less than five strains in the reference database were targeted by the ENRIA collection [57,58]. To ensure a high-quality standard for the MALDI-TOF MS references, the collected strains were identified by classical methods as well as 16S rRNA gene sequencing.…”

“…The validation of the ENRIA database development was performed with 6309 independent anaerobic strains isolated from human clinical specimens over a period of 6 months. The validation collection comprised species from 61 different common and rare anaerobic genera [57,58]. Compared to the standard database the initial ENRIA database extension allowed an increase in identifications at the high confidence species level from 71.1% to 74.8%.…”

“…Overall, 35.2% of the isolates yielded higher score values with the database extension. This could be accomplished not only for less frequent isolates (such as Solobacter moorei, Bacteroides massiliensis, Bacteroides clarus, Bacteroides cellulosilyticus, Prevotella salivae, or Prevotella timonensis), but also for more commonly occurring species of Bacteroides, Prevotella, Fusobacterium, or GPAC [58].…”

“…Moreover, the ENRIA database extension also enabled identification of several recently described and rare species from different genera, e.g. Dielma fastidiosa, Moryella indoligenes, Fenollaria massiliensis, Filifactor alocis, and Odoribacter splanchnicus, providing routine laboratories the capability to assess their potential clinical importance [57,58]. Nonetheless, there were still 458 (7.3%) strains which could not be identified even with the ENRIA database extension.…”