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Volume 24, Number 9—September 2018
Research

From Culturomics to Clinical Microbiology and Forward

Grégory Dubourg, Sophie Baron, Frédéric Cadoret, Carine Couderc, Pierre-Edouard Fournier, Jean-Christophe Lagier, and Didier RaoultComments to Author 
Author affiliations: Aix Marseille University, Institut de Recherche pour le Développement (IRD), Assistance Publique des Hôpitaux de Marseille (APHM), Microbes, Evolution, Phylogeny and Infections (MEPHI), Institut Hospitalo-Universitaire (IHU) Méditerranée Infection, Marseille, France (G. Dubourg, S. Baron, J.-C. Lagier, D. Raoult); APHM, IHU Méditerranée Infection, Marseille (F. Cadoret, C. Couderc); Aix Marseille University, IRD, APHM, Vecteurs–Infections Tropicales et Méditerranéennes, IHU Méditerranée Infection, Marseille (P.-E. Fournier)

Main Article

Table 1

Main features of the bacteria discovered as part of culturomics studies identified in a clinical microbiology laboratory*

Species Culturomics study CSUR no. Strain GenBank accession no. Date of spectrum implementation No. cases References
Actinomyces bouchesdurhonensis Gut microbiota (storied samples) P2825 Marseille-P2825T LT576385 2017 Apr 3 Unpub. data
Actinomyces ihuae Gut microbiota (HIV) P2006 SD1 LN866997 2015 Jul 17 (6,20)
Actinomyces marseillensis Respiratory microbiota P2818 Marseille-P2818T LT576400 Not added 1 (21)
Alistipes jeddahensis Gut microbiota P1209 AL1 LK021116 2015 Oct 4 (6,22)
Anaerosalibacter massiliensis Gut microbiota (Polynesia) P762 ND1 HG315673 2013 Apr 1 (6,23)
Bacteroides timonensis Gut microbiota (anorexia nervosa) P194 AP1 JX041639 2016 Apr 2 (6,24)
Butyricimonas phocaeensis Gut microbiota (obese) P2478 AT9 LN881597 2015 Nov 1 (6,25)
Clostridium culturomicsense Gut microbiota (Saudian obese) P1184 CL6 LK021117 2014 Sep 1 (6,26)
Clostridium jeddahtimonense Gut microbiota (obese) P1230 CL2 LK021118 2014 Aug 7 (6)
Clostridium massilioamazoniense Gut microbiota (Polynesia) P1360 ND2 HG315672 2013 May 1 (6)
Clostridium saudii Gut microbiota (Saudian obese) P697 JCC HG726039 2014 Aug 11 (6,27)
Corynebacterium ihuae Gut microbiota (antimicrobials) P892 GD6 JX424768 2013 May 3 (6,28)
Corynebacterium lascolaense Urinary microbiota P2174 MC3 LN881612 2013 Sep 6 (6)
Corynebacterium phoceense Urinary microbiota P1905 MC1 LN849777 2015 May 12 (6,29)
Gabonia massiliensis Gut microbiota P1910 GM3 LN849789 2017 Apr 1 (6,30)
Nosocomicoccus massiliensis Gut microbiota (HIV) P246 NP2 JX424771 2012 Feb 1 (6,31)
Peptoniphilus grossensis Gut microbiota (obese) P184 ph5 JN837491 2015 Nov 18 (6,32)
Polynesia massiliensis Gut microbiota (Polynesia) P1280 MS3 HF952920 2013 Mar 1 (6)
Prevotella ihuae Gut microbiota (fresh feces) P3385 Marseille-P3385T LT631517 Not added 1 (33)
Pseudomonas massiliensis Gut microbiota (Polynesia) P1334 CB1 LK985396 2015 Apr 5 (6,34)
Varibaculum timonense Gut microbiota (fresh feces) P3369 Marseille-P3369T LT797538 Not added 1 (33)

*Accession numbers indicate nucleotide sequences. CSUR, Collection de Souches de l’Unité des Rickettsies (an international strain collection).

Main Article

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Page created: August 14, 2018
Page updated: August 14, 2018
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