title: A comprehensive repertoire of prokaryotic species identified in human beings.
abstract: The compilation of the complete prokaryotic repertoire associated with human beings as commensals or pathogens is a major goal for the scientific and medical community. The use of bacterial culture techniques remains a crucial step to describe new prokaryotic species. The large number of officially acknowledged bacterial species described since 1980 and the recent increase in the number of recognised pathogenic species have highlighted the absence of an exhaustive compilation of species isolated in human beings. By means of a thorough investigation of several large culture databases and a search of the scientific literature, we built an online database containing all human-associated prokaryotic species described, whether or not they had been validated and have standing in nomenclature. We list 2172 species that have been isolated in human beings. They were classified in 12 different phyla, mostly in the Proteobacteria, Firmicutes, Actinobacteria, and Bacteroidetes phyla. Our online database is useful for both clinicians and microbiologists and forms part of the Human Microbiome Project, which aims to characterise the whole human microbiota and help improve our understanding of the human predisposition and susceptibility to infectious agents.
authors: Aix-Marseille Université, Unité de Recherche sur les Maladies Infectieuses et Tropicales Émergentes, UM63, CNRS 7278, IRD 198, INSERM 1095, Marseille, France.
authors: Perrine
authors: P
authors: Hugon
authors: Assistance Publique des Hôpitaux de Marseille, BioSTIC, Pôle de Santé Publique, Marseille, France; Aix-Marseille Université, UMR912 SESSTIM (AMU-INSERM-IRD), Marseille, France.
authors: Jean-Charles
authors: JC
authors: Dufour
authors: Aix-Marseille Université, Unité de Recherche sur les Maladies Infectieuses et Tropicales Émergentes, UM63, CNRS 7278, IRD 198, INSERM 1095, Marseille, France.
authors: Philippe
authors: P
authors: Colson
authors: Aix-Marseille Université, Unité de Recherche sur les Maladies Infectieuses et Tropicales Émergentes, UM63, CNRS 7278, IRD 198, INSERM 1095, Marseille, France.
authors: Pierre-Edouard
authors: PE
authors: Fournier
authors: Aix-Marseille Université, UMR912 SESSTIM (AMU-INSERM-IRD), Marseille, France.
authors: Kankoe
authors: K
authors: Sallah
authors: Aix-Marseille Université, Unité de Recherche sur les Maladies Infectieuses et Tropicales Émergentes, UM63, CNRS 7278, IRD 198, INSERM 1095, Marseille, France; Special Infectious Agents Unit, King Fahd Medical Research Center, King Abdulaziz University, Jeddah, Saudi Arabia. Electronic address: didier.raoult@gmail.com.
authors: Didier
authors: D
authors: Raoult
mesh_terms: D001105:Archaea / Q000145:classification* / Q000302:isolation & purification*; D001419:Bacteria / Q000145:classification* / Q000302:isolation & purification*; D001424:Bacterial Infections / Q000382:microbiology*; D002353:Carrier State / Q000382:microbiology*; D016208:Databases, Factual; D006801:Humans; D064307:Microbiota