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Non contiguous-finished genome sequence and description of Peptoniphilus grossensis sp. nov.

Mishra AK, Hugon P, 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 26-year-old woman suffering from morbid obesity.Here we describe the features of this organism, together with the complete genome sequence and annotation.The 2,101,866-bp long genome (1 chromosome but no plasmid) exhibits a G+C content of 33.9% and contains 2,041 protein-coding and 29 RNA genes, including 3 rRNA genes.

View Article: PubMed Central - PubMed

Affiliation: Unité de Recherche sur les Maladies Infectieuses et Tropicales Emergentes, UMR CNRS 7278.

ABSTRACT
Peptoniphilus grossensis strain ph5(T) sp. nov., is the type strain of Peptoniphilus grossensis sp. nov., a new species within the Peptoniphilus genus. This strain, whose genome is described here, was isolated from the fecal flora of a 26-year-old woman suffering from morbid obesity. P. grossensis strain ph5 is a Gram-positive obligate anaerobic coccus. Here we describe the features of this organism, together with the complete genome sequence and annotation. The 2,101,866-bp long genome (1 chromosome but no plasmid) exhibits a G+C content of 33.9% and contains 2,041 protein-coding and 29 RNA genes, including 3 rRNA genes.

No MeSH data available.


Related in: MedlinePlus

Phylogenetic tree highlighting the position of Peptoniphilus grossensis strain ph5T relative to other type strains within the Peptoniphilus genus. GenBank accession numbers are indicated in parentheses. Sequences were aligned using CLUSTALW, and phylogenetic inferences obtained using the maximum-likelihood method within MEGA program. Numbers at the nodes are percentages of bootstrap values obtained by repeating the analysis 500 times to generate a majority consensus tree. Anaerococcus lactolyticus was used as an outgroup. The scale bar represents a 2% nucleotide sequence divergence.
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f1: Phylogenetic tree highlighting the position of Peptoniphilus grossensis strain ph5T relative to other type strains within the Peptoniphilus genus. GenBank accession numbers are indicated in parentheses. Sequences were aligned using CLUSTALW, and phylogenetic inferences obtained using the maximum-likelihood method within MEGA program. Numbers at the nodes are percentages of bootstrap values obtained by repeating the analysis 500 times to generate a majority consensus tree. Anaerococcus lactolyticus was used as an outgroup. The scale bar represents a 2% nucleotide sequence divergence.

Mentions: A stool sample was collected from a 26-year-old woman living in Marseille, France, who suffered from morbid obesity: BMI=48.2 (118.8 kg, 1.57 meter). At the time of stool sample collection, she was not a drug-user and was not on a diet. The patient gave an informed and signed consent, and the agreement of local ethics committee of the IFR48 (Marseille, France) were obtained under agreement 11-017. The fecal specimen was preserved at -80°C after collection. Strain PH5T (Table 1) was isolated in 2011 by anaerobic cultivation on 5% sheep blood-enriched Columbia agar (BioMerieux, Marcy l’Etoile, France) after 26 days of preincubation of the stool sample in rumen and ship blood bottle culture. This strain exhibited a 96.7% nucleotide sequence similarity with P. harei and occupied an intermediate phylogenetic position between P. gorbachii and P. olsenii (Figure 1). Although sequence similarity of the 16S operon is not uniform across taxa, 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 [3].


Non contiguous-finished genome sequence and description of Peptoniphilus grossensis sp. nov.

Mishra AK, Hugon P, Robert C, Raoult D, Fournier PE - Stand Genomic Sci (2012)

Phylogenetic tree highlighting the position of Peptoniphilus grossensis strain ph5T relative to other type strains within the Peptoniphilus genus. GenBank accession numbers are indicated in parentheses. Sequences were aligned using CLUSTALW, and phylogenetic inferences obtained using the maximum-likelihood method within MEGA program. Numbers at the nodes are percentages of bootstrap values obtained by repeating the analysis 500 times to generate a majority consensus tree. Anaerococcus lactolyticus was used as an outgroup. The scale bar represents a 2% nucleotide sequence divergence.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3569384&req=5

f1: Phylogenetic tree highlighting the position of Peptoniphilus grossensis strain ph5T relative to other type strains within the Peptoniphilus genus. GenBank accession numbers are indicated in parentheses. Sequences were aligned using CLUSTALW, and phylogenetic inferences obtained using the maximum-likelihood method within MEGA program. Numbers at the nodes are percentages of bootstrap values obtained by repeating the analysis 500 times to generate a majority consensus tree. Anaerococcus lactolyticus was used as an outgroup. The scale bar represents a 2% nucleotide sequence divergence.
Mentions: A stool sample was collected from a 26-year-old woman living in Marseille, France, who suffered from morbid obesity: BMI=48.2 (118.8 kg, 1.57 meter). At the time of stool sample collection, she was not a drug-user and was not on a diet. The patient gave an informed and signed consent, and the agreement of local ethics committee of the IFR48 (Marseille, France) were obtained under agreement 11-017. The fecal specimen was preserved at -80°C after collection. Strain PH5T (Table 1) was isolated in 2011 by anaerobic cultivation on 5% sheep blood-enriched Columbia agar (BioMerieux, Marcy l’Etoile, France) after 26 days of preincubation of the stool sample in rumen and ship blood bottle culture. This strain exhibited a 96.7% nucleotide sequence similarity with P. harei and occupied an intermediate phylogenetic position between P. gorbachii and P. olsenii (Figure 1). Although sequence similarity of the 16S operon is not uniform across taxa, 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 [3].

Bottom Line: This strain, whose genome is described here, was isolated from the fecal flora of a 26-year-old woman suffering from morbid obesity.Here we describe the features of this organism, together with the complete genome sequence and annotation.The 2,101,866-bp long genome (1 chromosome but no plasmid) exhibits a G+C content of 33.9% and contains 2,041 protein-coding and 29 RNA genes, including 3 rRNA genes.

View Article: PubMed Central - PubMed

Affiliation: Unité de Recherche sur les Maladies Infectieuses et Tropicales Emergentes, UMR CNRS 7278.

ABSTRACT
Peptoniphilus grossensis strain ph5(T) sp. nov., is the type strain of Peptoniphilus grossensis sp. nov., a new species within the Peptoniphilus genus. This strain, whose genome is described here, was isolated from the fecal flora of a 26-year-old woman suffering from morbid obesity. P. grossensis strain ph5 is a Gram-positive obligate anaerobic coccus. Here we describe the features of this organism, together with the complete genome sequence and annotation. The 2,101,866-bp long genome (1 chromosome but no plasmid) exhibits a G+C content of 33.9% and contains 2,041 protein-coding and 29 RNA genes, including 3 rRNA genes.

No MeSH data available.


Related in: MedlinePlus