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. 2019 Feb 22:29:100520.
doi: 10.1016/j.nmni.2019.100520. eCollection 2019 May.

Genome sequence and description of Traorella massiliensis gen. nov., sp. nov., a new bacterial genus isolated from human left colon

M Bonnet  1 , M Mailhe  1 , D Ricaboni  1   2 , N Labas  1 , M Richez  1 , V Vitton  3 , A Benezech  3 , P-E Fournier  1   4   3   2 , M Million  1 , D Raoult  1   4 , S Khelaifia  4
Affiliations

Genome sequence and description of Traorella massiliensis gen. nov., sp. nov., a new bacterial genus isolated from human left colon

M Bonnet et al. New Microbes New Infect. .

Expression of concern in

Abstract

A strictly anaerobic, motile, non-spore-forming, Gram-negative, rod-shaped bacterium designated Marseille-P3110T was isolated from the left colon cleansing of a 76-year-old Frenchwoman. Its 16S ribosomal RNA (rRNA) gene showed a 93.2% similarity level with the 16S rRNA of Dielma fastidiosa strain JC13, the closest species with a validly published name. The genome of Marseille-P3110T is 2 607 061 bp long with 35.99% G+C content. Of the 2642 predicted genes, 2582 were protein-coding genes and 60 were RNAs, including five 16S rRNA genes.

Keywords: Culturomics; Traorella massiliensis; genome; gut microbiota; taxonogenomics.

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Figures

Fig. 1
Fig. 1
Phylogenetic tree highlighting position of Traorella massiliensis strain Marseille-P3110T relative to other close strains. GenBank accession numbers of each 16S rRNA are noted in parentheses. Sequences were aligned using Muscle version 3.8.31 with default parameters, and phylogenetic inferences were obtained using neighbour-joining method with 500 bootstrap replicates within MEGA6 software. Only bootstraps >95% are shown. Scale bar represents 0.02% nucleotide sequence divergence.
Fig. 2
Fig. 2
(A) Reference mass spectrum from Traorella massiliensis strain Marseille-P3110T. (B) Gel view comparing Traorella massiliensis strain Marseille-P3110T to other species within genera Erysipelotrix, Dielma, Holdemanella, Holdemania and Solobacterium. Gel view displays raw spectra of loaded spectrum files arranged in pseudo–gel-like look. X-axis records m/z value; left y-axis displays running spectrum number originating from subsequent spectra loading. Peak intensity is expressed by greyscale scheme code. Right y-axis indicates relation between colour of peak and its intensity in arbitrary units. Displayed species are indicated at left.
Fig. 3
Fig. 3
Gram staining of Traorella massiliensis strain Marseille-P3110T.
Fig. 4
Fig. 4
Transmission electron microscopy of Traorella massiliensis strain Marseille-P3110T using Morgagni 268D (Philips) transmission electron microscope operated at 80 keV. Scale bar represents 500 nm.
Fig. 5
Fig. 5
Graphical circular map of chromosome. From outside to centre, genes on forward strain coloured by COGs categories (only gene assigned to COGs), RNA genes (tRNAs green, rRNAs red), G+C content and G+C skew. COGs, Clusters of Orthologous Groups database; rRNA, ribosomal RNA; tRNA, transfer RNA.
Fig. 6
Fig. 6
Distribution of functional classes of predicted genes according to clusters of orthologous groups of proteins.
See this image and copyright information in PMC

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