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Noncontiguous finished genome sequence and description of Weeksella massiliensis sp. nov.

Sankar SA, Lo CI, Fall B, Sambe-Ba B, Mediannikov O, Diallo I, Labas N, Faye N, Wade B, Raoult D, Fournier PE, Fenollar F - New Microbes New Infect (2015)

Bottom Line: The sequenced genome is 2 562 781 bp with one chromosome but no plasmid.It exhibits a G + C content of 35.9% and contains 2390 protein-coding and 56 RNA genes, including a complete rRNA operon.On the basis of these data, we propose the creation of Weeksella massiliensis sp. nov.

View Article: PubMed Central - PubMed

Affiliation: )Aix-Marseille Université, URMITE, UM63, CNRS 7278, IRD 198, Inserm U1095, Faculté de médecine, Marseille, France.

ABSTRACT
Strain FF8(T) (= CSUR P860 = DSM 28259) was isolated in Dakar, Senegal, from the urine of a 65-year-old man with acute cystitis. This strain shows a similarity of sequence of 16S rRNA of 98.38% with Weeksella virosa, and its GenBank accession numbers are HG931340 and CCMH00000000. Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry analysis had a poor score, ranging from 1.32 to 1.56, that did not allow identification of the bacterium. Using a polyphasic study made of phenotypic and genomic analyses, strain FF8(T) was a Gram-negative, aerobic rod and a member of the family Flavobacteriaceae. The sequenced genome is 2 562 781 bp with one chromosome but no plasmid. It exhibits a G + C content of 35.9% and contains 2390 protein-coding and 56 RNA genes, including a complete rRNA operon. On the basis of these data, we propose the creation of Weeksella massiliensis sp. nov.

No MeSH data available.


Related in: MedlinePlus

Gel view comparing Weeksella massiliensis strain FF8T to members of family Flavobacteriaceae. Gel view displays raw spectra of all 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 expressed by grayscale scheme code. Color bar and right y-axis indicate relation between color peak; peak intensity displayed in arbitrary units. Displayed species are indicated at left.
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fig5: Gel view comparing Weeksella massiliensis strain FF8T to members of family Flavobacteriaceae. Gel view displays raw spectra of all 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 expressed by grayscale scheme code. Color bar and right y-axis indicate relation between color peak; peak intensity displayed in arbitrary units. Displayed species are indicated at left.

Mentions: MALDI-TOF protein analysis was performed with a Microflex LT (Bruker Daltonics, Leipzig, Germany), as previously reported [17], [18]. The scores previously established by Bruker allowing validating (or not) the identification of species compared to the database of the instrument were applied. Briefly, a score of ≥ 2.000 with a species with a validly published name provided allows the identification at the species level; a score of ≥ 1.700 and < 2.000 allows the identification at the genus level; and a score of < 1.700 does not allow any identification. We performed 12 distinct deposits from 12 isolated colonies of strain FF8T. Two microliters of matrix solution (saturated solution of α-cyano-4-hydroxycinnamic acid) in 50% acetonitrile and 2.5% trifluoroacetic acid were distributed on each smear and submitted at air drying for 5 minutes. Then the spectra from the 12 different colonies were imported into the MALDI BioTyper software (version 2.0, Bruker) and analysed by standard pattern matching (with default parameter settings) against the main spectra of 6252 bacteria. Scores ranging from 1.32 to 1.56 were obtained for strain FF8T, suggesting that it was not a member of any known species. The reference mass spectrum from strain FF8T was incremented in our database (Fig. 4). The gel view highlighted spectrum differences with other Flaviobacteriaceae species (Fig. 5).


Noncontiguous finished genome sequence and description of Weeksella massiliensis sp. nov.

Sankar SA, Lo CI, Fall B, Sambe-Ba B, Mediannikov O, Diallo I, Labas N, Faye N, Wade B, Raoult D, Fournier PE, Fenollar F - New Microbes New Infect (2015)

Gel view comparing Weeksella massiliensis strain FF8T to members of family Flavobacteriaceae. Gel view displays raw spectra of all 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 expressed by grayscale scheme code. Color bar and right y-axis indicate relation between color peak; peak intensity displayed in arbitrary units. Displayed species are indicated at left.
© Copyright Policy - CC BY-NC-ND
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4644262&req=5

fig5: Gel view comparing Weeksella massiliensis strain FF8T to members of family Flavobacteriaceae. Gel view displays raw spectra of all 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 expressed by grayscale scheme code. Color bar and right y-axis indicate relation between color peak; peak intensity displayed in arbitrary units. Displayed species are indicated at left.
Mentions: MALDI-TOF protein analysis was performed with a Microflex LT (Bruker Daltonics, Leipzig, Germany), as previously reported [17], [18]. The scores previously established by Bruker allowing validating (or not) the identification of species compared to the database of the instrument were applied. Briefly, a score of ≥ 2.000 with a species with a validly published name provided allows the identification at the species level; a score of ≥ 1.700 and < 2.000 allows the identification at the genus level; and a score of < 1.700 does not allow any identification. We performed 12 distinct deposits from 12 isolated colonies of strain FF8T. Two microliters of matrix solution (saturated solution of α-cyano-4-hydroxycinnamic acid) in 50% acetonitrile and 2.5% trifluoroacetic acid were distributed on each smear and submitted at air drying for 5 minutes. Then the spectra from the 12 different colonies were imported into the MALDI BioTyper software (version 2.0, Bruker) and analysed by standard pattern matching (with default parameter settings) against the main spectra of 6252 bacteria. Scores ranging from 1.32 to 1.56 were obtained for strain FF8T, suggesting that it was not a member of any known species. The reference mass spectrum from strain FF8T was incremented in our database (Fig. 4). The gel view highlighted spectrum differences with other Flaviobacteriaceae species (Fig. 5).

Bottom Line: The sequenced genome is 2 562 781 bp with one chromosome but no plasmid.It exhibits a G + C content of 35.9% and contains 2390 protein-coding and 56 RNA genes, including a complete rRNA operon.On the basis of these data, we propose the creation of Weeksella massiliensis sp. nov.

View Article: PubMed Central - PubMed

Affiliation: )Aix-Marseille Université, URMITE, UM63, CNRS 7278, IRD 198, Inserm U1095, Faculté de médecine, Marseille, France.

ABSTRACT
Strain FF8(T) (= CSUR P860 = DSM 28259) was isolated in Dakar, Senegal, from the urine of a 65-year-old man with acute cystitis. This strain shows a similarity of sequence of 16S rRNA of 98.38% with Weeksella virosa, and its GenBank accession numbers are HG931340 and CCMH00000000. Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry analysis had a poor score, ranging from 1.32 to 1.56, that did not allow identification of the bacterium. Using a polyphasic study made of phenotypic and genomic analyses, strain FF8(T) was a Gram-negative, aerobic rod and a member of the family Flavobacteriaceae. The sequenced genome is 2 562 781 bp with one chromosome but no plasmid. It exhibits a G + C content of 35.9% and contains 2390 protein-coding and 56 RNA genes, including a complete rRNA operon. On the basis of these data, we propose the creation of Weeksella massiliensis sp. nov.

No MeSH data available.


Related in: MedlinePlus