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

Roux V, El Karkouri K, Lagier JC, Robert C, Raoult D - Stand Genomic Sci (2012)

Bottom Line: K. massiliensis is a Gram-positive aerobic rod.Here we describe the features of this organism, together with the complete genome sequence and annotation.The 3,199,090 bp long genome contains 3,240 protein-coding genes and 86 RNA genes, including between 3 and 4 rRNA genes.

View Article: PubMed Central - PubMed

Affiliation: Aix Marseille Université, URMITE, Faculté de médecine, Aix-Marseille Université

ABSTRACT
Kurthia massiliensis strain JC30(T) sp. nov. is the type strain of K. massiliensis sp. nov., a new species within the genus Kurthia. This strain, whose genome is described here, was isolated from the fecal flora of a healthy patient. K. massiliensis is a Gram-positive aerobic rod. Here we describe the features of this organism, together with the complete genome sequence and annotation. The 3,199,090 bp long genome contains 3,240 protein-coding genes and 86 RNA genes, including between 3 and 4 rRNA genes.

No MeSH data available.


Related in: MedlinePlus

Phylogenetic tree highlighting the position of Kurthia massiliensis strain JC30T relative to other type strains within the genus Kurthia. Sequences were aligned using CLUSTALX, and phylogenetic inferences obtained using the neighbor-joining method within the MEGA 5 package [20]. Numbers at the nodes are percentages of bootstrap values obtained by repeating the analysis 1,000 times to generate a majority consensus tree. Solibacillus silvestris was used as outgroup. The scale bar represents 0.005 nucleotide change per nucleotide position.
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f1: Phylogenetic tree highlighting the position of Kurthia massiliensis strain JC30T relative to other type strains within the genus Kurthia. Sequences were aligned using CLUSTALX, and phylogenetic inferences obtained using the neighbor-joining method within the MEGA 5 package [20]. Numbers at the nodes are percentages of bootstrap values obtained by repeating the analysis 1,000 times to generate a majority consensus tree. Solibacillus silvestris was used as outgroup. The scale bar represents 0.005 nucleotide change per nucleotide position.

Mentions: A stool sample was collected from a healthy 16-year-old male Senegalese volunteer patient living in Dielmo (a rural village in the Guinean-Sudanian zone in Senegal), who was included in a research protocol. The patient gave an informed and signed consent, and the agreement of the National Ethics Committee of Senegal and the local ethics committee of the IFR48 (Marseille, France) were obtained under agreement 09-022. The fecal specimen was preserved at -80°C after collection and sent to Marseille. Strain JC30 (Table 1) was isolated in January 2011 by aerobic cultivation on 5% sheep blood-enriched Columbia agar (BioMerieux). This strain exhibited a 96.9% nucleotide sequence similarity with K. gibsonii, the phylogenetically closest validated Kurthia species (Figure 1). This value was lower than the 97% 16S rRNA gene sequence threshold to delineate a new species without carrying out DNA-DNA hybridization recommended by the report of the ad hoc committee on reconciliation of approaches to bacterial systematics [2]. Stackebrandt and Ebers proposed to increase this value to 98.7% [21].


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

Roux V, El Karkouri K, Lagier JC, Robert C, Raoult D - Stand Genomic Sci (2012)

Phylogenetic tree highlighting the position of Kurthia massiliensis strain JC30T relative to other type strains within the genus Kurthia. Sequences were aligned using CLUSTALX, and phylogenetic inferences obtained using the neighbor-joining method within the MEGA 5 package [20]. Numbers at the nodes are percentages of bootstrap values obtained by repeating the analysis 1,000 times to generate a majority consensus tree. Solibacillus silvestris was used as outgroup. The scale bar represents 0.005 nucleotide change per nucleotide position.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3569394&req=5

f1: Phylogenetic tree highlighting the position of Kurthia massiliensis strain JC30T relative to other type strains within the genus Kurthia. Sequences were aligned using CLUSTALX, and phylogenetic inferences obtained using the neighbor-joining method within the MEGA 5 package [20]. Numbers at the nodes are percentages of bootstrap values obtained by repeating the analysis 1,000 times to generate a majority consensus tree. Solibacillus silvestris was used as outgroup. The scale bar represents 0.005 nucleotide change per nucleotide position.
Mentions: A stool sample was collected from a healthy 16-year-old male Senegalese volunteer patient living in Dielmo (a rural village in the Guinean-Sudanian zone in Senegal), who was included in a research protocol. The patient gave an informed and signed consent, and the agreement of the National Ethics Committee of Senegal and the local ethics committee of the IFR48 (Marseille, France) were obtained under agreement 09-022. The fecal specimen was preserved at -80°C after collection and sent to Marseille. Strain JC30 (Table 1) was isolated in January 2011 by aerobic cultivation on 5% sheep blood-enriched Columbia agar (BioMerieux). This strain exhibited a 96.9% nucleotide sequence similarity with K. gibsonii, the phylogenetically closest validated Kurthia species (Figure 1). This value was lower than the 97% 16S rRNA gene sequence threshold to delineate a new species without carrying out DNA-DNA hybridization recommended by the report of the ad hoc committee on reconciliation of approaches to bacterial systematics [2]. Stackebrandt and Ebers proposed to increase this value to 98.7% [21].

Bottom Line: K. massiliensis is a Gram-positive aerobic rod.Here we describe the features of this organism, together with the complete genome sequence and annotation.The 3,199,090 bp long genome contains 3,240 protein-coding genes and 86 RNA genes, including between 3 and 4 rRNA genes.

View Article: PubMed Central - PubMed

Affiliation: Aix Marseille Université, URMITE, Faculté de médecine, Aix-Marseille Université

ABSTRACT
Kurthia massiliensis strain JC30(T) sp. nov. is the type strain of K. massiliensis sp. nov., a new species within the genus Kurthia. This strain, whose genome is described here, was isolated from the fecal flora of a healthy patient. K. massiliensis is a Gram-positive aerobic rod. Here we describe the features of this organism, together with the complete genome sequence and annotation. The 3,199,090 bp long genome contains 3,240 protein-coding genes and 86 RNA genes, including between 3 and 4 rRNA genes.

No MeSH data available.


Related in: MedlinePlus