Taxonogenomic description of four new Clostridium species isolated from human gut: 'Clostridium amazonitimonense', 'Clostridium merdae', 'Clostridium massilidielmoense' and 'Clostridium nigeriense'

M T Alou; S Ndongo; L Frégère; N Labas; C Andrieu; M Richez; C Couderc; J-P Baudoin; J Abrahão; S Brah; A Diallo; C Sokhna; N Cassir; B La Scola; F Cadoret; D Raoult

doi:10.1016/j.nmni.2017.11.003

Taxonogenomic description of four new Clostridium species isolated from human gut: 'Clostridium amazonitimonense', 'Clostridium merdae', 'Clostridium massilidielmoense' and 'Clostridium nigeriense'

New Microbes New Infect. 2017 Nov 22:21:128-139. doi: 10.1016/j.nmni.2017.11.003. eCollection 2018 Jan.

Authors

M T Alou¹, S Ndongo¹, L Frégère¹, N Labas¹, C Andrieu¹, M Richez¹, C Couderc¹, J-P Baudoin¹, J Abrahão², S Brah³, A Diallo^{1

4}, C Sokhna^{1

4}, N Cassir¹, B La Scola¹, F Cadoret¹, D Raoult^{1

5}

Affiliations

¹ Aix-Marseille Université, Unité de Recherche sur les Maladies Infectieuses et Tropicales Emergentes, UM63, CNRS 7278, IRD 198, INSERM 1095, Marseille, France.
² Laboratório de Vírus, Departamento de Microbiologia, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil.
³ Hopital National de Niamey, BP 247, Niamey, Niger.
⁴ Campus Commun UCAD-IRD of Hann, Route des pères Maristes, Hann Maristes, BP 1386, CP 18524, Dakar, Senegal.
⁵ Special Infectious Agents Unit, King Fahd Medical Research Center, King Abdulaziz University, Jeddah, Saudi Arabia.

Abstract

Culturomics investigates microbial diversity of the human microbiome by combining diversified culture conditions, matrix-assisted laser desorption/ionization time-of-flight mass spectrometry and 16S rRNA gene identification. The present study allowed identification of four putative new Clostridium sensu stricto species: 'Clostridium amazonitimonense' strain LF2^T, 'Clostridium massilidielmoense' strain MT26^T, 'Clostridium nigeriense' strain Marseille-P2414^T and 'Clostridium merdae' strain Marseille-P2953^T, which we describe using the concept of taxonogenomics. We describe the main characteristics of each bacterium and present their complete genome sequence and annotation.

Keywords: culturomics; emerging bacteria; human microbiota; taxonogenomics; ‘Clostridium amazonitimonense’; ‘Clostridium massilidielmoense’; ‘Clostridium merdae’; ‘Clostridium nigeriense’.