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Permanent draft genome sequence of sulfoquinovose-degrading Pseudomonas putida strain SQ1.

Felux AK, Franchini P, Schleheck D - Stand Genomic Sci (2015)

Bottom Line: Pseudomonas putida SQ1 was isolated for its ability to utilize the plant sugar sulfoquinovose (6-deoxy-6-sulfoglucose) for growth, in order to define its SQ-degradation pathway and the enzymes and genes involved.Here we describe the features of the organism, together with its draft genome sequence and annotation.The draft genome comprises 5,328,888 bp and is predicted to encode 5,824 protein-coding genes; the overall G + C content is 61.58 %.

View Article: PubMed Central - PubMed

Affiliation: Department of Biology, University of Konstanz, Konstanz, Germany ; Konstanz Research School Chemical Biology, University of Konstanz, Konstanz, Germany.

ABSTRACT
Pseudomonas putida SQ1 was isolated for its ability to utilize the plant sugar sulfoquinovose (6-deoxy-6-sulfoglucose) for growth, in order to define its SQ-degradation pathway and the enzymes and genes involved. Here we describe the features of the organism, together with its draft genome sequence and annotation. The draft genome comprises 5,328,888 bp and is predicted to encode 5,824 protein-coding genes; the overall G + C content is 61.58 %. The genome annotation is being used for identification of proteins that might be involved in SQ degradation by peptide fingerprinting-mass spectrometry.

No MeSH data available.


Related in: MedlinePlus

Phylogenetic tree based on the 16S rRNA gene sequence of P. putida SQ1, and sequences of other strains of the species P. putida, P. aeruginosa and P. fluorescens. The sequences were aligned with the CLUSTAL W program and the tree was built with the neighbor-joining algorithm integrated in the MEGA 6.0 program [31]. The phylogenetic tree was tested with 1000 bootstrap replicates; bootstrap values are shown at each node. The scale bar represents a 0.005 % nucleotide sequence divergence
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Fig2: Phylogenetic tree based on the 16S rRNA gene sequence of P. putida SQ1, and sequences of other strains of the species P. putida, P. aeruginosa and P. fluorescens. The sequences were aligned with the CLUSTAL W program and the tree was built with the neighbor-joining algorithm integrated in the MEGA 6.0 program [31]. The phylogenetic tree was tested with 1000 bootstrap replicates; bootstrap values are shown at each node. The scale bar represents a 0.005 % nucleotide sequence divergence

Mentions: Based on its 16S rRNA gene sequence, strain SQ1 is a member of the genus and species Pseudomonas putida, which is placed in the family Pseudomonadaceae within the order Pseudomonadales of Gammaproteobacteria, as illustrated by a phylogenetic tree shown in Fig. 2. Currently, 1,732 genome sequences of member of the order Pseudomonadales of Gammaproteobacteria, and 707 genome sequences within the family Pseudomonadaceae have been established (IMG JGI, January 2015).Fig. 2


Permanent draft genome sequence of sulfoquinovose-degrading Pseudomonas putida strain SQ1.

Felux AK, Franchini P, Schleheck D - Stand Genomic Sci (2015)

Phylogenetic tree based on the 16S rRNA gene sequence of P. putida SQ1, and sequences of other strains of the species P. putida, P. aeruginosa and P. fluorescens. The sequences were aligned with the CLUSTAL W program and the tree was built with the neighbor-joining algorithm integrated in the MEGA 6.0 program [31]. The phylogenetic tree was tested with 1000 bootstrap replicates; bootstrap values are shown at each node. The scale bar represents a 0.005 % nucleotide sequence divergence
© Copyright Policy - open-access
Related In: Results  -  Collection

License 1 - License 2
Show All Figures
getmorefigures.php?uid=PMC4940961&req=5

Fig2: Phylogenetic tree based on the 16S rRNA gene sequence of P. putida SQ1, and sequences of other strains of the species P. putida, P. aeruginosa and P. fluorescens. The sequences were aligned with the CLUSTAL W program and the tree was built with the neighbor-joining algorithm integrated in the MEGA 6.0 program [31]. The phylogenetic tree was tested with 1000 bootstrap replicates; bootstrap values are shown at each node. The scale bar represents a 0.005 % nucleotide sequence divergence
Mentions: Based on its 16S rRNA gene sequence, strain SQ1 is a member of the genus and species Pseudomonas putida, which is placed in the family Pseudomonadaceae within the order Pseudomonadales of Gammaproteobacteria, as illustrated by a phylogenetic tree shown in Fig. 2. Currently, 1,732 genome sequences of member of the order Pseudomonadales of Gammaproteobacteria, and 707 genome sequences within the family Pseudomonadaceae have been established (IMG JGI, January 2015).Fig. 2

Bottom Line: Pseudomonas putida SQ1 was isolated for its ability to utilize the plant sugar sulfoquinovose (6-deoxy-6-sulfoglucose) for growth, in order to define its SQ-degradation pathway and the enzymes and genes involved.Here we describe the features of the organism, together with its draft genome sequence and annotation.The draft genome comprises 5,328,888 bp and is predicted to encode 5,824 protein-coding genes; the overall G + C content is 61.58 %.

View Article: PubMed Central - PubMed

Affiliation: Department of Biology, University of Konstanz, Konstanz, Germany ; Konstanz Research School Chemical Biology, University of Konstanz, Konstanz, Germany.

ABSTRACT
Pseudomonas putida SQ1 was isolated for its ability to utilize the plant sugar sulfoquinovose (6-deoxy-6-sulfoglucose) for growth, in order to define its SQ-degradation pathway and the enzymes and genes involved. Here we describe the features of the organism, together with its draft genome sequence and annotation. The draft genome comprises 5,328,888 bp and is predicted to encode 5,824 protein-coding genes; the overall G + C content is 61.58 %. The genome annotation is being used for identification of proteins that might be involved in SQ degradation by peptide fingerprinting-mass spectrometry.

No MeSH data available.


Related in: MedlinePlus