From Culturomics to Clinical Microbiology and Forward

Autor: Didier Raoult, Carine Couderc, Grégory Dubourg, Pierre-Edouard Fournier, Frédéric Cadoret, Sophie Alexandra Baron, Jean-Christophe Lagier
Přispěvatelé: Microbes évolution phylogénie et infections (MEPHI), Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Aix Marseille Université (AMU), Biostatistique et technologies de l'information et de la communication (BioSTIC) - [Hôpital de la Timone - APHM] (BiosTIC ), Hôpital de la Timone [CHU - APHM] (TIMONE)-Assistance Publique - Hôpitaux de Marseille (APHM), Vecteurs - Infections tropicales et méditerranéennes (VITROME), Institut de Recherche Biomédicale des Armées (IRBA)-Institut de Recherche pour le Développement (IRD)-Aix Marseille Université (AMU), Institut de Recherche pour le Développement (IRD)-Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS), Assistance Publique - Hôpitaux de Marseille (APHM)- Hôpital de la Timone [CHU - APHM] (TIMONE), Institut de Recherche pour le Développement (IRD)-Aix Marseille Université (AMU)-Institut de Recherche Biomédicale des Armées (IRBA), Institut de Recherche pour le Développement (IRD)-Aix Marseille Université (AMU)-Institut de Recherche Biomédicale des Armées [Brétigny-sur-Orge] (IRBA)
Rok vydání: 2018
Předmět:
0301 basic medicine
Microbiology (medical)
DNA
Bacterial
Epidemiology
030106 microbiology
lcsh:Medicine
Biology
Mass spectrometry
Sensitivity and Specificity
lcsh:Infectious and parasitic diseases
Microbiology
03 medical and health sciences
From Culturomics to Clinical Microbiology and Forward
[SDV.MHEP.MI]Life Sciences [q-bio]/Human health and pathology/Infectious diseases
Humans
MALDI-TOF MS
lcsh:RC109-216
clinical microbiology
Gram-Positive Bacterial Infections
new species
Bacteria
Research
lcsh:R
microbiology
Human microbiome
culturomics
16S ribosomal RNA
Isolation (microbiology)
3. Good health
Bacterial Typing Techniques
culture
Clinical microbiology
Infectious Diseases
Culturomics
Spectrometry
Mass
Matrix-Assisted Laser Desorption-Ionization
Communicable Disease Control
France
Gram-Negative Bacterial Infections
matrix-assisted laser desorption/ionization time-of-flight mass spectrometry
Zdroj: Emerging Infectious Diseases
Emerging Infectious Diseases, Centers for Disease Control and Prevention, 2018, 24 (9), pp.1683-1690. ⟨10.3201/eid2409.170995⟩
Emerging Infectious Diseases, Vol 24, Iss 9, Pp 1683-1690 (2018)
Emerging Infectious Diseases, 2018, 24 (9), pp.1683-1690. ⟨10.3201/eid2409.170995⟩
ISSN: 1080-6059
1080-6040
DOI: 10.3201/eid2409.170995⟩
Popis: International audience; Culturomics has permitted discovery of hundreds of new bacterial species isolated from the human microbiome. Profiles generated by using matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF) mass spectrometry have been added to the mass spectrometer database used in clinical microbiology laboratories. We retrospectively collected raw data from MALDI-TOF mass spectrometry used routinely in our laboratory in Marseille, France, during January 2012-March 2018 and analyzed 16S rDNA sequencing results from misidentified strains. During the study period, 744 species were identified from clinical specimens, of which 21 were species first isolated from culturomics. This collection involved 105 clinical specimens, accounting for 98 patients. In 64 cases, isolation of the bacteria was considered clinically relevant. MALDI-TOF mass spectrometry was able to identify the species in 95.2% of the 105 specimens. While contributing to the extension of the bacterial repertoire associated with humans, culturomics studies also enlarge the spectrum of prokaryotes involved in infectious diseases.
Databáze: OpenAIRE
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