Strain identifier
BacDive ID: 12899
Type strain: 
Species: Pseudomonas putida
Strain Designation: S-313
Strain history: <- A.M. Cook; S-313
NCBI tax ID(s): 303 (species)
version 8.1 (current version)
General
@ref: 2656
BacDive-ID: 12899
DSM-Number: 6884
keywords: Bacteria, mesophilic, human pathogen
description: Pseudomonas putida S-313 is a mesophilic human pathogen that was isolated from industrial sewage plant.
NCBI tax id
- NCBI tax id: 303
- Matching level: species
strain history
- @ref: 2656
- history: <- A.M. Cook; S-313
doi: 10.13145/bacdive12899.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Pseudomonadales
- family: Pseudomonadaceae
- genus: Pseudomonas
- species: Pseudomonas putida
- full scientific name: Pseudomonas putida (Trevisan 1889) Migula 1895 (Approved Lists 1980)
synonyms
@ref synonym 20215 Bacillus putidus 20215 Arthrobacter siderocapsulatus
@ref: 2656
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Pseudomonadales
family: Pseudomonadaceae
genus: Pseudomonas
species: Pseudomonas putida
full scientific name: Pseudomonas putida (Trevisan 1889) Migula 1895
strain designation: S-313
type strain: no
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 2656 | NAPHTHALENE SULFONIC ACID MEDIUM (DSMZ Medium 528) | yes | https://mediadive.dsmz.de/medium/528 | Name: NAPHTHALENE SULFONIC ACID MEDIUM (DSMZ Medium 528) Composition: Na2HPO4 x 2 H2O 3.5 g/l KH2PO4 1.0 g/l NH4Cl 0.31 g/l Glycerol 0.3 g/l Sodium succinate 0.3 g/l Glucose 0.3 g/l MgCl2 x 6 H2O 0.1 g/l Ca(NO3)2 x 4 H2O 0.05 g/l Naphthalene sulfonic acid 0.0069 g/l Na2-EDTA 0.0005 g/l H3BO3 0.0003 g/l CoCl2 x 6 H2O 0.0002 g/l FeSO4 x 7 H2O 0.0002 g/l ZnSO4 x 7 H2O 0.0001 g/l Na2MoO4 x 2 H2O 3e-05 g/l MnCl2 x 4 H2O 3e-05 g/l NiCl2 x 6 H2O 2e-05 g/l CuCl2 x 2 H2O 1e-05 g/l Distilled water |
| 2656 | CASO AGAR (MERCK 105458) (DSMZ Medium 220) | yes | https://mediadive.dsmz.de/medium/220 | Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water |
culture temp
- @ref: 2656
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 68369 | 25115 | malate | + | assimilation |
| 68369 | 17128 | adipate | - | assimilation |
| 68369 | 27689 | decanoate | + | assimilation |
| 68369 | 24265 | gluconate | + | assimilation |
| 68369 | 17306 | maltose | - | assimilation |
| 68369 | 59640 | N-acetylglucosamine | - | assimilation |
| 68369 | 16899 | D-mannitol | + | assimilation |
| 68369 | 16024 | D-mannose | + | assimilation |
| 68369 | 30849 | L-arabinose | - | assimilation |
| 68369 | 17634 | D-glucose | + | assimilation |
| 68369 | 5291 | gelatin | - | hydrolysis |
| 68369 | 4853 | esculin | - | hydrolysis |
| 68369 | 16199 | urea | - | hydrolysis |
| 68369 | 29016 | arginine | + | hydrolysis |
| 68369 | 17634 | D-glucose | - | fermentation |
| 68369 | 27897 | tryptophan | - | energy source |
| 68369 | 17632 | nitrate | - | reduction |
metabolite production
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 68369 | cytochrome oxidase | + | 1.9.3.1 |
| 68369 | gelatinase | - | |
| 68369 | beta-glucosidase | - | 3.2.1.21 |
| 68369 | urease | - | 3.5.1.5 |
| 68369 | arginine dihydrolase | + | 3.5.3.6 |
API 20NE
| @ref | NO3 | TRP | GLU_ Ferm | ADH Arg | URE | ESC | GEL | PNPG | GLU_ Assim | ARA | MNE | MAN | NAG | MAL | GNT | CAP | ADI | MLT | CIT | PAC | OX |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 2656 | - | - | - | + | - | - | - | - | + | - | + | + | - | - | + | + | - | + | + | + | + |
Isolation, sampling and environmental information
isolation
- @ref: 2656
- sample type: industrial sewage plant
- geographic location: Basel
- country: Switzerland
- origin.country: CHE
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Waste | #Industrial wastewater |
| #Engineered | #Waste | #Water treatment plant |
Safety information
risk assessment
- @ref: 2656
- pathogenicity human: yes
- pathogenicity animal: yes
- biosafety level: 2
- biosafety level comment: Risk group (German classification)
Sequence information
GC content
- @ref: 2656
- GC-content: 62.1
External links
@ref: 2656
culture collection no.: DSM 6884
straininfo link
- @ref: 82112
- straininfo: 48315
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Metabolism | 8800815 | The assimilation of sulfur from multiple sources and its correlation with expression of the sulfate-starvation-induced stimulon in Pseudomonas putida S-313. | Beil S, Kertesz MA, Leisinger T, Cook AM | Microbiology (Reading) | 10.1099/13500872-142-8-1989 | 1996 | Culture Media, Cysteine/metabolism, Kinetics, Pseudomonas/*growth & development/metabolism, Sulfur/*metabolism, Sulfuric Acids/*metabolism, Thiocyanates/metabolism, Time Factors, Tosyl Compounds/metabolism | Cultivation |
| Metabolism | 10361295 | Genetic organization of sulphur-controlled aryl desulphonation in Pseudomonas putida S-313. | Vermeij P, Wietek C, Kahnert A, Wuest T, Kertesz MA | Mol Microbiol | 10.1046/j.1365-2958.1999.01398.x | 1999 | Amino Acid Sequence, Arylsulfonates/*metabolism, Biodegradation, Environmental, DNA Transposable Elements, *Gene Expression Regulation, Bacterial, *Genes, Bacterial, Molecular Sequence Data, Multigene Family, Mutagenesis, Insertional, Pseudomonas aeruginosa/metabolism, Pseudomonas putida/*genetics/growth & development/*metabolism, Sequence Analysis, DNA, Sulfur/*metabolism | Genetics |
| Metabolism | 10482527 | Pathways of assimilative sulfur metabolism in Pseudomonas putida. | Vermeij P, Kertesz MA | J Bacteriol | 10.1128/JB.181.18.5833-5837.1999 | 1999 | Carbon-Oxygen Lyases/metabolism, Cysteine/biosynthesis/*metabolism, Cysteine Synthase/metabolism, Homoserine/analogs & derivatives/metabolism, Lyases/metabolism, Methionine/biosynthesis/*metabolism, Models, Chemical, Pseudomonas aeruginosa/growth & development/*metabolism, Pseudomonas putida/growth & development/*metabolism, Sulfates/*metabolism, Sulfonic Acids/metabolism, Taurine/metabolism | |
| Metabolism | 10531657 | Bioavailability of water-polluting sulfonoaromatic compounds. | Ruff J, Hitzler T, Rein U, Ritter A, Cook AM | Appl Microbiol Biotechnol | 10.1007/s002530051545 | 1999 | Arylsulfonates/*metabolism, Benzenesulfonates/metabolism, Biodegradation, Environmental, Biological Availability, Industrial Waste, Naphthalenesulfonates/metabolism, Pseudomonas putida/*metabolism, Stilbenes/metabolism, Sulfonic Acids/metabolism, Water Pollutants, Chemical/*metabolism | Biotechnology |
| Metabolism | 10781557 | The ssu locus plays a key role in organosulfur metabolism in Pseudomonas putida S-313. | Kahnert A, Vermeij P, Wietek C, James P, Leisinger T, Kertesz MA | J Bacteriol | 10.1128/JB.182.10.2869-2878.2000 | 2000 | ATP-Binding Cassette Transporters/genetics/metabolism/*physiology, Arylsulfotransferase/metabolism, Base Sequence, Cloning, Molecular, DNA, Bacterial, Gene Expression Regulation, Bacterial, Genes, Bacterial, Hydrolysis, Methionine/metabolism, Molecular Sequence Data, Multigene Family, Mutagenesis, Insertional, NADH, NADPH Oxidoreductases/genetics/metabolism/*physiology, Pseudomonas putida/*genetics/growth & development/metabolism, Sequence Analysis, DNA, Sulfates/metabolism, Sulfur Compounds/*metabolism | Enzymology |
| Metabolism | 10913158 | Characterization of a sulfur-regulated oxygenative alkylsulfatase from Pseudomonas putida S-313. | Kahnert A, Kertesz MA | J Biol Chem | 10.1074/jbc.M005820200 | 2000 | Aldehydes/metabolism, Alkanesulfonates/*metabolism, Amino Acid Sequence, Ascorbic Acid/pharmacology, Catalysis/drug effects, Escherichia coli/genetics, Hydrogen-Ion Concentration, Iron/metabolism, Ketoglutaric Acids/metabolism, Kinetics, Molecular Sequence Data, Molecular Weight, Oxygen/metabolism, Oxygenases/chemistry/genetics/isolation & purification/*metabolism, Protein Structure, Quaternary, Pseudomonas putida/*enzymology/metabolism, Recombinant Proteins/chemistry/metabolism, Sequence Alignment, Sequence Analysis, Protein, Substrate Specificity, Succinates/metabolism, Sulfatases/chemistry/genetics/isolation & purification/*metabolism, Sulfates/metabolism | Enzymology |
| Metabolism | 12010129 | The LysR-type regulator SftR is involved in soil survival and sulphate ester metabolism in Pseudomonas putida. | Kahnert A, Mirleau P, Wait R, Kertesz MA | Environ Microbiol | 10.1046/j.1462-2920.2002.00289.x | 2002 | Arylsulfotransferase/metabolism, Bacterial Proteins/genetics/*metabolism, Esters/*metabolism, Membrane Proteins/metabolism, Molecular Sequence Data, Pseudomonas putida/genetics/*metabolism, Soil Microbiology, Sulfuric Acid Esters/*metabolism, Transcription Factors/metabolism | Genetics |
| Metabolism | 12835925 | Characterization and identification of genes essential for dimethyl sulfide utilization in Pseudomonas putida strain DS1. | Endoh T, Kasuga K, Horinouchi M, Yoshida T, Habe H, Nojiri H, Omori T | Appl Microbiol Biotechnol | 10.1007/s00253-003-1233-7 | 2003 | Base Sequence, Cloning, Molecular, *Genes, Bacterial, Models, Genetic, Oxidation-Reduction, Phenotype, Pseudomonas putida/*genetics/*metabolism, Sequence Analysis, Sulfates/metabolism, Sulfides/*metabolism | Enzymology |
| Enzymology | 15023059 | Crystal structure of the alkylsulfatase AtsK: insights into the catalytic mechanism of the Fe(II) alpha-ketoglutarate-dependent dioxygenase superfamily. | Muller I, Kahnert A, Pape T, Sheldrick GM, Meyer-Klaucke W, Dierks T, Kertesz M, Uson I | Biochemistry | 10.1021/bi035752v | 2004 | Amino Acid Motifs, Apoenzymes/chemistry, Bacterial Proteins/*chemistry, Binding Sites, Carboxylic Acids/chemistry, Catalysis, Cations, Divalent/chemistry, Cations, Monovalent/chemistry, Crystallography, X-Ray, Dimerization, Ferrous Compounds/*chemistry, Humans, Ketoglutaric Acids/*chemistry, Mixed Function Oxygenases/*chemistry, Protein Folding, Protein Structure, Tertiary, Pseudomonas putida/enzymology, Salts/chemistry, Sodium/chemistry, Spectrum Analysis, Structural Homology, Protein, Substrate Specificity, Sulfatases/*chemistry, X-Rays | Pathogenicity |
| Metabolism | 15181108 | The role of soil microbes in plant sulphur nutrition. | Kertesz MA, Mirleau P | J Exp Bot | 10.1093/jxb/erh176 | 2004 | Lycopersicon esculentum/chemistry/microbiology, Models, Biological, Nutritional Physiological Phenomena, Plants/*chemistry/microbiology, Pseudomonas putida/*genetics, Soil/analysis, *Soil Microbiology, Sulfur/*metabolism | |
| Metabolism | 15542595 | Succinate complex crystal structures of the alpha-ketoglutarate-dependent dioxygenase AtsK: steric aspects of enzyme self-hydroxylation. | Muller I, Stuckl C, Wakeley J, Kertesz M, Uson I | J Biol Chem | 10.1074/jbc.M410840200 | 2004 | Bacterial Proteins/chemistry/metabolism, Binding Sites, Crystallography, X-Ray, Dioxygenases/*chemistry/*metabolism, Hydroxylation, Iron/chemistry/metabolism, Ketoglutaric Acids/chemistry/*metabolism, Models, Molecular, Oxygen/chemistry/metabolism, Protein Conformation, Pseudomonas putida/*enzymology, Succinic Acid/chemistry/*metabolism, Tyrosine/chemistry/metabolism | Enzymology |
| Metabolism | 16269683 | Importance of organosulfur utilization for survival of Pseudomonas putida in soil and rhizosphere. | Mirleau P, Wogelius R, Smith A, Kertesz MA | Appl Environ Microbiol | 10.1128/AEM.71.11.6571-6577.2005 | 2005 | Arylsulfonates/metabolism, Colony Count, Microbial, Esters/metabolism, Lycopersicon esculentum/*microbiology, Plant Roots/*microbiology, Pseudomonas putida/genetics/*growth & development/metabolism, Soil/analysis, *Soil Microbiology, Sulfur/*metabolism | |
| 16349317 | Desulfonation of linear alkylbenzenesulfonate surfactants and related compounds by bacteria. | Kertesz MA, Kolbener P, Stockinger H, Beil S, Cook AM | Appl Environ Microbiol | 10.1128/aem.60.7.2296-2303.1994 | 1994 | |||
| Phylogeny | 17222151 | Desulfurization of aromatic sulfonates by rhizosphere bacteria: high diversity of the asfA gene. | Schmalenberger A, Kertesz MA | Environ Microbiol | 10.1111/j.1462-2920.2006.01172.x | 2007 | Arylsulfonates/*metabolism, Bacteria/*genetics/isolation & purification/metabolism, Bacterial Proteins/chemistry/classification/*genetics, Base Sequence, Gene Expression Regulation, Bacterial, *Genetic Variation, Hordeum/*microbiology, Molecular Sequence Data, Oxidoreductases/chemistry/classification/*genetics, Phylogeny, Plant Roots/microbiology | Metabolism |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 2656 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6884) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-6884 | |
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |
| 68369 | Automatically annotated from API 20NE | |||
| 82112 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID48315.1 | StrainInfo: A central database for resolving microbial strain identifiers |