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Non contiguous-finished genome sequence and description of Cellulomonas massiliensis sp. nov.

Lagier JC, Ramasamy D, Rivet R, Raoult D, Fournier PE - Stand Genomic Sci (2012)

Bottom Line: This strain, whose genome is described here, was isolated from the fecal flora of a healthy Senegalese patient.Here we describe the features of this organism, together with the complete genome sequence and annotation.The 3,407,283 bp long genome contains 3,083 protein-coding and 48 RNA genes.

View Article: PubMed Central - PubMed

Affiliation: Aix-Marseille Université, Faculté de médecine, Marseille, France.

ABSTRACT
Cellulomonas massiliensis strain JC225(T) sp. nov. is the type strain of Cellulomonas massiliensis sp., a new species within the genus Cellulomonas. This strain, whose genome is described here, was isolated from the fecal flora of a healthy Senegalese patient. C. massiliensis is an aerobic rod-shaped bacterium. Here we describe the features of this organism, together with the complete genome sequence and annotation. The 3,407,283 bp long genome contains 3,083 protein-coding and 48 RNA genes.

No MeSH data available.


Related in: MedlinePlus

Phylogenetic tree highlighting the position of Cellulomonas massiliensis strain JC225T relative to other type strains within the genus Cellulomonas and other members of the family Cellulomonadaceae. GenBank accession numbers are indicated in parentheses. Sequences were aligned using CLUSTALW, and phylogenetic inferences obtained using the maximum-likelihood method within the MEGA software. Numbers at the nodes are bootstrap values obtained by repeating the analysis 500 times to generate a majority consensus tree. The scale bar indicates a 1% nucleotide sequence divergence.
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f1: Phylogenetic tree highlighting the position of Cellulomonas massiliensis strain JC225T relative to other type strains within the genus Cellulomonas and other members of the family Cellulomonadaceae. GenBank accession numbers are indicated in parentheses. Sequences were aligned using CLUSTALW, and phylogenetic inferences obtained using the maximum-likelihood method within the MEGA software. Numbers at the nodes are bootstrap values obtained by repeating the analysis 500 times to generate a majority consensus tree. The scale bar indicates a 1% nucleotide sequence divergence.

Mentions: Both this study and the assent procedure were approved by the National Ethics Committee of Senegal (CNERS) and the Ethics Committee of the Institut Fédératif de Recherche IFR48, Faculty of Medicine, Marseille, France (agreement numbers 09-022 and 11-017). Several other new bacterial species were isolated from this specimen using various culture conditions, including the recently described Anaerococcus senegalensis, Bacillus timonensis, Alistipes senegalensis, Alistipes timonensis,Clostridium senegalense, Paenibacillus senegalensis and Peptoniphilus timonensis [5-11], thus suggesting that the human digestive flora is far from being fully known. The fecal specimen was preserved at -80°C after collection and sent to Marseille. Strain JC225 (Table 1) was isolated in May 2011 by passive filtration of the stool and aerobic incubation on Brain Heart Infusion agar at 37°C. This strain exhibited a nucleotide sequence similarity of 98.3% with Cellulomonas composti (Kang et al 2007), the phylogenetically closest validated Cellulomonas species (Figure 1) that was cultivated from cattle farm compost [17]. This value was lower than the 98.7% 16S rRNA gene sequence threshold recommended by Stackebrandt and Ebers to delineate a new species without carrying out DNA-DNA hybridization [39]. By comparison to the Genbank database [40] strain JC225T also exhibited a nucleotide sequence similarity greater than 99.5% with Cellulomonas sp. strain 3335BRRJ isolated from clean room environments (Genbank accession number FJ200382). This bacterium is most likely classified within the same species as strain JC225 T (Figure 1).


Non contiguous-finished genome sequence and description of Cellulomonas massiliensis sp. nov.

Lagier JC, Ramasamy D, Rivet R, Raoult D, Fournier PE - Stand Genomic Sci (2012)

Phylogenetic tree highlighting the position of Cellulomonas massiliensis strain JC225T relative to other type strains within the genus Cellulomonas and other members of the family Cellulomonadaceae. GenBank accession numbers are indicated in parentheses. Sequences were aligned using CLUSTALW, and phylogenetic inferences obtained using the maximum-likelihood method within the MEGA software. Numbers at the nodes are bootstrap values obtained by repeating the analysis 500 times to generate a majority consensus tree. The scale bar indicates a 1% nucleotide sequence divergence.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3569388&req=5

f1: Phylogenetic tree highlighting the position of Cellulomonas massiliensis strain JC225T relative to other type strains within the genus Cellulomonas and other members of the family Cellulomonadaceae. GenBank accession numbers are indicated in parentheses. Sequences were aligned using CLUSTALW, and phylogenetic inferences obtained using the maximum-likelihood method within the MEGA software. Numbers at the nodes are bootstrap values obtained by repeating the analysis 500 times to generate a majority consensus tree. The scale bar indicates a 1% nucleotide sequence divergence.
Mentions: Both this study and the assent procedure were approved by the National Ethics Committee of Senegal (CNERS) and the Ethics Committee of the Institut Fédératif de Recherche IFR48, Faculty of Medicine, Marseille, France (agreement numbers 09-022 and 11-017). Several other new bacterial species were isolated from this specimen using various culture conditions, including the recently described Anaerococcus senegalensis, Bacillus timonensis, Alistipes senegalensis, Alistipes timonensis,Clostridium senegalense, Paenibacillus senegalensis and Peptoniphilus timonensis [5-11], thus suggesting that the human digestive flora is far from being fully known. The fecal specimen was preserved at -80°C after collection and sent to Marseille. Strain JC225 (Table 1) was isolated in May 2011 by passive filtration of the stool and aerobic incubation on Brain Heart Infusion agar at 37°C. This strain exhibited a nucleotide sequence similarity of 98.3% with Cellulomonas composti (Kang et al 2007), the phylogenetically closest validated Cellulomonas species (Figure 1) that was cultivated from cattle farm compost [17]. This value was lower than the 98.7% 16S rRNA gene sequence threshold recommended by Stackebrandt and Ebers to delineate a new species without carrying out DNA-DNA hybridization [39]. By comparison to the Genbank database [40] strain JC225T also exhibited a nucleotide sequence similarity greater than 99.5% with Cellulomonas sp. strain 3335BRRJ isolated from clean room environments (Genbank accession number FJ200382). This bacterium is most likely classified within the same species as strain JC225 T (Figure 1).

Bottom Line: This strain, whose genome is described here, was isolated from the fecal flora of a healthy Senegalese patient.Here we describe the features of this organism, together with the complete genome sequence and annotation.The 3,407,283 bp long genome contains 3,083 protein-coding and 48 RNA genes.

View Article: PubMed Central - PubMed

Affiliation: Aix-Marseille Université, Faculté de médecine, Marseille, France.

ABSTRACT
Cellulomonas massiliensis strain JC225(T) sp. nov. is the type strain of Cellulomonas massiliensis sp., a new species within the genus Cellulomonas. This strain, whose genome is described here, was isolated from the fecal flora of a healthy Senegalese patient. C. massiliensis is an aerobic rod-shaped bacterium. Here we describe the features of this organism, together with the complete genome sequence and annotation. The 3,407,283 bp long genome contains 3,083 protein-coding and 48 RNA genes.

No MeSH data available.


Related in: MedlinePlus