NEW MICROBES IN HUMANS

“Lascolabacillus massiliensis”: a new consent, and the agreement of the National Ethics Committee of Senegal and the local ethics committee of the IFR48 isolated from the human gut (Marseille, France) were obtained under numbers 11-017 and 09-022, respectively. The initial growth was obtained after 10 days of culture in a 5% sheep blood-enriched sheep rumen M. Beye, S. Bakour, S. I. Traore, D. Raoult and P.-E. Fournier medium in aerobic atmosphere at 37°C. The bacterium was Unité de Recherche en Maladies Infectieuses et Tropicales Emergentes, sub-cultured on 5% sheep blood-enriched Columbia agar Institut Hospitalo-Universitaire Méditerranée-Infection, Aix-Marseille (bioMérieux, Marcy l’Etoile, France) and grew in 24 hours at Université, Faculté de Médecine, Marseille cedex 5, France 37°C in both aerobic and anaerobic conditions. Agar-grown colonies were pale grey and 1.5 mm in diameter. Bacterial cells were Gram-negative, rod-shaped and polymorphic, ranginginlengthfrom1.5to10μm. Strain SIT8 was catalase- Abstract and oxidase-negative. The 16S rRNA gene was sequenced using the fD1-rP2 primers as previously described, using a 3130-XL sequencer (Applied Biosciences, Saint Aubin, We report here the main characteristics of “Lascolabacillus France). Strain SIT8 exhibited a 94.14% sequence identity with massiliensis” strain SIT8 (CSUR P1560) that was isolated from the Proteiniphilum acetatigenes strain TB107 (GenBank accession stool of a healthy 28-month-old boy. NR_043154), the phylogenetically closest species with New Microbes and New Infections © 2016 The Authors. Published standing in nomenclature (Fig. 1), which putatively classifies it by Elsevier Ltd on behalf of European Society of Clinical as a member of a new genus within the family Porphyr- Microbiology and Infectious Diseases. omonadaceae in the phylum [3]. Proteiniphilum acetatigenes was described in 2005 [4]. This Keywords: Culturomics, , Lascolabacillus massiliensis, obligately anaerobic bacterium was isolated from a biore- new species actor treating brewery wastewater. The P. acetatigenes cells Original Submission: 4 March 2016; Revised Submission: are Gram-negative rods that do not exhibit oxidase and 10 March 2016; Accepted: 14 March 2016 catalase activities. Another closely related species, Petrimo- Article published online: 19 March 2016 nas sulfuriphila, isolated from a biodegraded oil reservoir, is also an obligately anaerobic Gram-negative rod-shaped bacterium [5].IncontrastwithProteiniphilum acetatigenes Corresponding author: P.-E. Fournier, Unité de Recherche en and Petrimonas sulfuriphila, strain SIT8 is facultatively anaer- Maladies Infectieuses et Tropicales Emergentes (URMITE), UM63, CNRS7278, IRD198, INSERM U1095, Institut Hospitalo-Universitaire obic and associated with humans. However, among the Méditerranée-Infection, Aix-Marseille Université, Faculté de other closely related genera, the genus also Médecine, 27 bd Jean Moulin, 13385 Marseille cedex 5, France contains facultatively anaerobic species such as Dysgonomo- E-mail: [email protected] nas gadei and Dysgonomonas capnocytophagoides (6). These two species are Gram-negative coccobacilli that variably express catalase but not oxidase, and were also obtained In 2015, as part of a culturomics study of the human micro- from human specimens [6]. biome [1], we isolated from the stool of a healthy 28-month- Strain SIT8 exhibiting a 16S rRNA sequence divergence > 5% old Senegalese boy a bacterial strain that could not be iden- with its phylogenetically closest species with standing in tified by our systematic matrix-assisted laser desorption- nomenclature [7], we propose the creation of the new genus ionization time-of-flight screening (http://www.mediterranee- Lascolabacillus gen. nov. in honour of the French bacteriologist infection.com/article.php?laref=256&titre=urms-database)on Bernard La Scola for his contributions to clinical microbiology. a MicroFlex spectrometer (Bruker Daltonics, Bremen, Ger- Strain SIT8 is the type strain of the new species Lascolabacillus many) [2]. The patient’s parents gave informed signed massiliensis gen. nov., sp. nov.

New Microbe and New Infect 2016; 11: 91–92 New Microbes and New Infections © 2016 The Authors. Published by Elsevier Ltd on behalf of European Society of Clinical Microbiology and Infectious Diseases This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/) http://dx.doi.org/10.1016/j.nmni.2016.03.002 92 New Microbes and New Infections, Volume 11 Number C, May 2016 NMNI

FIG. 1. Phylogenetic tree showing the position of Lascolabacillus massiliensis strain SIT8 (underlined) relative to other phylogenetically close members of the family Porphyromonadaceae. GenBank Accession numbers are indicated in parentheses. Sequences were aligned using CLUSTALW, and phylogenetic inferences were obtained using the maximum-likelihood method within the MEGA software. Numbers at the nodes are percentages of bootstrap values obtained by repeating the analysis 500 times to generate a majority consensus tree. Only values >70% were displayed. The scale bar indicates a 2% nucleotide sequence divergence.

Nucleotide sequence accession number. The 16S References rRNA gene sequence was deposited in GenBank under Accession number LN827535. [1] Lagier JC, Hugon P, Khelaifia S, Fournier PE, La Scola B, Raoult D. The Deposit in a culture collection. Strain SIT8 was depos- rebirth of culture in microbiology through the example of culturomics ited in the Collection de Souches de l’Unité des Rickettsies to study human gut microbiota. Clin Microbiol Rev 2015;28:237–64. (CSUR, WDCM 875) under number P1560. [2] Seng P, Abat C, Rolain JM, Colson P, Lagier JC, Gouriet F, et al. Iden- tification of rare pathogenic in a clinical microbiology labora- tory: impact of matrix-assisted laser desorption ionization-time of flight Conflict of Interest mass spectrometry. J Clin Microbiol 2013;51:2182–94. [3] Euzeby J. Validation list N°143. Int J Syst Evol Microbiol 2012;62:1–4. [4] Chen S, Dong X. Proteiniphilum acetatigenes gen. nov., sp. nov., from a UASB reactor treating brewery wastewater. Int J Syst Evol Microbiol fl The authors certify that they do not have any con ict of in- 2005;55:2257–61. terest in relation to this research. [5] Grabowski A, Tindall BJ, Bardin V, Blanchet D, Jeanthon C. Petrimonas sulfuriphila gen. nov., sp. nov., a mesophilic fermentative bacterium isolated from a biodegraded oil reservoir. Int J Syst Evol Microbiol Acknowledgements 2005;55:1113–21. [6] Hofstad T, Olsen I, Eribe ER, Falsen E, Collins MD, Lawson PA. Dysgono- monas gen. nov. to accommodate Dysgonomonas gadei sp. nov., an organism isolated from a human gall bladder, and Dysgonomonas capnocytophagoides This research is funded by the Mediterranée-Infection (formerly CDC group DF-3). Int J Syst Evol Microbiol 2000;50:2189–95. Foundation. [7] Huson DH, Auch AF, Qi J, Schuster SC. MEGAN analysis of meta- genomic data. Genome Res 2007;17:377–86.

New Microbes and New Infections © 2016 The Authors. Published by Elsevier Ltd on behalf of European Society of Clinical Microbiology and Infectious Diseases, NMNI, 11,91–92 This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/)