Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2019 Nov 29:33:100624.
doi: 10.1016/j.nmni.2019.100624. eCollection 2020 Jan.

Taxono-genomics and description of Gordonibacter massiliensis sp. nov., a new bacterium isolated from stool of healthy patient

I I Ngom  1   2 , I Hasni  1   2 , C I Lo  2   3 , S I Traore  1   2 , A Fontanini  1   2 , D Raoult  1   2 , F Fenollar  2   3
Affiliations

Taxono-genomics and description of Gordonibacter massiliensis sp. nov., a new bacterium isolated from stool of healthy patient

I I Ngom et al. New Microbes New Infect. .

Expression of concern in

Abstract

Using the taxono-genomics concept, we describe here a strictly anaerobic Gram-positive bacillus. This strain was isolated from the stool sample of a 50-year-old healthy Bedouin woman. The 16S rRNA gene sequence analysis and the whole-genome sequencing showed that this isolate belonged to the genus Gordonibacter in the family Eggerthellaceae. Based on these criteria, we propose the creation of Gordonibacter massiliensis sp. nov., strain Marseille-P2775T (= CSUR P2775).

Keywords: Culturomics; Gordonibacter massiliensissp. nov.; human gut; stool; taxono-genomics.

PubMed Disclaimer

Figures

Fig. 1
Fig. 1
MALDI-TOF MS reference spectrum generated from the Biotyper 3.0 software. Spectra from 12 individual colonies were compared with the aim to obtain consensual spectrum.
Fig. 2
Fig. 2
Phylogenetic tree showing the position of Gordonibacter massiliensis strain Marseille-P2775T and other phylogenetically close neighbours. The respective GenBank accession numbers for 16S rRNA genes are indicated in parenthesis. Sequences were aligned using Muscle v7.0.26 with default parameters and phylogenetic inferences were obtained using the maximum likelihood method with MEGA 7 software. Numbers at the nodes are percentages of bootstrap values obtained by repeating the analysis 1000 times to generate a majority consensus tree. Only bootstrap values > 70% were retained. The scale bar indicates a 5% nucleotide sequence divergence.
Fig. 3
Fig. 3
Scanning electron micrograph of Gordonibacter massiliensis strain Marseille-P2775T obtained from TM4000 microscope. Scale bar and acquisition settings are shown on the picture.
Fig. 4
Fig. 4
Heatmap generated with OrthoANI values calculated using the OAT software between Gordonibacter massiliensis strain Marseille-P2775T and other closely related species with standing in nomenclature.
See this image and copyright information in PMC

References

    1. Gupta R.S., Chen W.J., Adeolu M., Chai Y. Molecular signatures for the class Coriobacteriia and its different clades; proposal for division of the class Coriobacteriia into the emended order Coriobacteriales, containing the emended family Coriobacteriaceae and Atopobiaceae fam. nov., and Eggerthellales ord. nov., containing the family Eggerthellaceae fam. nov. Int J Syst Evol Microbiol. 2013;63:3379–3397. - PubMed
    1. Selma M.V., Tomás-Barberán F.A., Beltrán D., García-Villalba R., Espín J.C. Gordonibacter urolithinfaciens sp. nov., a urolithin-producing bacterium isolated from the human gut. Int J Syst Evol Microbiol. 2014;64:2346–2352. - PubMed
    1. Selma M.V., Romo-Vaquero M., García-Villalba R., González-Sarrías A., Tomás-Barberán F.A., Espín J.C. The human gut microbial ecology associated with overweight and obesity determines ellagic acid metabolism. Food Funct. 2016;7:1769–1774. - PubMed
    1. Lagier J.-C., Khelaifia S., Alou M.T., Ndongo S., Dione N., Hugon P. Culture of previously uncultured members of the human gut microbiota by culturomics. Nat Microbiol. 2016;1:16203. - PMC - PubMed
    1. Lagier J.-C., Dubourg G., Million M., Cadoret F., Bilen M., Fenollar F. Culturing the human microbiota and culturomics. Nat Rev Microbiol. 2018;16:540–550. - PubMed

LinkOut - more resources