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Non-contiguous finished genome sequence and description of Brevibacterium senegalense sp. nov.

Kokcha S, Ramasamy D, Lagier JC, Robert C, 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 3,425,960 bp long genome (1 chromosome but no plasmid) contains 3,064 protein-coding and 49 RNA genes.

View Article: PubMed Central - PubMed

Affiliation: Aix-Marseille Université, Faculté de médecine.

ABSTRACT
Brevibacterium senegalense strain JC43(T) sp. nov. is the type strain of Brevibacterium senegalense sp. nov., a new species within the Brevibacterium genus. This strain, whose genome is described here, was isolated from the fecal flora of a healthy Senegalese patient. B. senegalense is an aerobic rod-shaped Gram-positive bacterium. Here we describe the features of this organism, together with the complete genome sequence and annotation. The 3,425,960 bp long genome (1 chromosome but no plasmid) contains 3,064 protein-coding and 49 RNA genes.

No MeSH data available.


Related in: MedlinePlus

Phylogenetic tree highlighting the position of Brevibacterium senegalense strain JC43T relative to other type strains within the genus Brevibacterium. 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 percentages of bootstrap values obtained by repeating 500 times the analysis to generate a majority consensus tree. The dashed-line square shows sequences that exhibit degrees of similarity > 99% with B. senegalense (same species). Asterisks indicate the species for which genome sequences are currently available.
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f1: Phylogenetic tree highlighting the position of Brevibacterium senegalense strain JC43T relative to other type strains within the genus Brevibacterium. 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 percentages of bootstrap values obtained by repeating 500 times the analysis to generate a majority consensus tree. The dashed-line square shows sequences that exhibit degrees of similarity > 99% with B. senegalense (same species). Asterisks indicate the species for which genome sequences are currently available.

Mentions: The strain exhibited 97.1 and 96.7% nucleotide sequence similarities with B. salitolerans (Guan et al. 2010) and B. album (Tang et al. 2008), respectively, the phylogenetically closest validated Brevibacterium species (Figure 1). These values were 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 [2]. In comparison to 16S sequences in the GenBank database [29], strain JC43T also exhibited nucleotide sequence similarities greater than 98.7% with uncultured bacterial clones detected in water-miscible metalworking fluids [30] and on clean room surfaces [31]. These bacteria most likely belong to the same species as strains JC43 (Figure 1).


Non-contiguous finished genome sequence and description of Brevibacterium senegalense sp. nov.

Kokcha S, Ramasamy D, Lagier JC, Robert C, Raoult D, Fournier PE - Stand Genomic Sci (2012)

Phylogenetic tree highlighting the position of Brevibacterium senegalense strain JC43T relative to other type strains within the genus Brevibacterium. 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 percentages of bootstrap values obtained by repeating 500 times the analysis to generate a majority consensus tree. The dashed-line square shows sequences that exhibit degrees of similarity > 99% with B. senegalense (same species). Asterisks indicate the species for which genome sequences are currently available.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3569389&req=5

f1: Phylogenetic tree highlighting the position of Brevibacterium senegalense strain JC43T relative to other type strains within the genus Brevibacterium. 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 percentages of bootstrap values obtained by repeating 500 times the analysis to generate a majority consensus tree. The dashed-line square shows sequences that exhibit degrees of similarity > 99% with B. senegalense (same species). Asterisks indicate the species for which genome sequences are currently available.
Mentions: The strain exhibited 97.1 and 96.7% nucleotide sequence similarities with B. salitolerans (Guan et al. 2010) and B. album (Tang et al. 2008), respectively, the phylogenetically closest validated Brevibacterium species (Figure 1). These values were 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 [2]. In comparison to 16S sequences in the GenBank database [29], strain JC43T also exhibited nucleotide sequence similarities greater than 98.7% with uncultured bacterial clones detected in water-miscible metalworking fluids [30] and on clean room surfaces [31]. These bacteria most likely belong to the same species as strains JC43 (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 3,425,960 bp long genome (1 chromosome but no plasmid) contains 3,064 protein-coding and 49 RNA genes.

View Article: PubMed Central - PubMed

Affiliation: Aix-Marseille Université, Faculté de médecine.

ABSTRACT
Brevibacterium senegalense strain JC43(T) sp. nov. is the type strain of Brevibacterium senegalense sp. nov., a new species within the Brevibacterium genus. This strain, whose genome is described here, was isolated from the fecal flora of a healthy Senegalese patient. B. senegalense is an aerobic rod-shaped Gram-positive bacterium. Here we describe the features of this organism, together with the complete genome sequence and annotation. The 3,425,960 bp long genome (1 chromosome but no plasmid) contains 3,064 protein-coding and 49 RNA genes.

No MeSH data available.


Related in: MedlinePlus