Strain identifier
BacDive ID: 12901
Type strain: 
Species: Pseudomonas putida
Strain history: K. Komagata <-- R. Hugh 821 <-- ATCC 11172 <-- NCIMB 8251 <-- W. C. Evans.
NCBI tax ID(s): 303 (species)
version 8.1 (current version)
General
@ref: 2713
BacDive-ID: 12901
DSM-Number: 6521
keywords: 16S sequence, Bacteria, mesophilic, human pathogen
description: Pseudomonas putida DSM 6521 is a mesophilic human pathogen of the family Pseudomonadaceae.
NCBI tax id
- NCBI tax id: 303
- Matching level: species
strain history
| @ref | history |
|---|---|
| 2713 | <- ATCC <- NCIB (Pseudomonas fluorescens) <- W. Evans |
| 67770 | K. Komagata <-- R. Hugh 821 <-- ATCC 11172 <-- NCIMB 8251 <-- W. C. Evans. |
doi: 10.13145/bacdive12901.20230509.8.1
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: 2713
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Pseudomonadales
family: Pseudomonadaceae
genus: Pseudomonas
species: Pseudomonas putida
full scientific name: Pseudomonas putida (Trevisan 1889) Migula 1895
type strain: no
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 2713 | 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 |
| 2713 | MINERAL MEDIUM (BRUNNER) (DSMZ Medium 457) | yes | https://mediadive.dsmz.de/medium/457 | Name: MINERAL MEDIUM (BRUNNER) (DSMZ Medium 457) Composition: Na2HPO4 2.44 g/l KH2PO4 1.52 g/l (NH4)2SO4 0.5 g/l MgSO4 x 7 H2O 0.2 g/l CaCl2 x 2 H2O 0.05 g/l EDTA 0.005 g/l FeSO4 x 7 H2O 0.002 g/l H3BO3 0.0003 g/l CoCl2 x 6 H2O 0.0002 g/l ZnSO4 x 7 H2O 0.0001 g/l MnCl2 x 4 H2O 3e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l NiCl2 x 6 H2O 2e-05 g/l CuCl2 x 2 H2O 1e-05 g/l Distilled water |
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 2713 | positive | growth | 26 | mesophilic |
| 67770 | positive | growth | 30 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 2713 | - | - | - | + | - | - | - | - | + | - | - | - | - | - | + | + | - | + | + | + | + |
| 2713 | - | - | - | + | - | - | - | - | + | - | - | - | - | - | + | + | - | + | + | + | + |
Isolation, sampling and environmental information
taxonmaps
- @ref: 69479
- File name: preview.99_863.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_61;97_89;98_203;99_863&stattab=map
- Last taxonomy: Pseudomonas
- 16S sequence: LC507958
- Sequence Identity:
- Total samples: 1972
- soil counts: 444
- aquatic counts: 421
- animal counts: 802
- plant counts: 305
Safety information
risk assessment
- @ref: 2713
- pathogenicity human: yes
- pathogenicity animal: yes
- biosafety level: 2
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Pseudomonas putida strain ATCC 11172 16S ribosomal RNA gene, partial sequence | AF094745 | 1476 | ena | 303 |
| 20218 | Pseudomonas putida 16S ribosomal RNA gene, strain: ATCC 11172, partial sequence | D85992 | 1329 | ena | 303 |
| 67770 | Pseudomonas putida JCM 13061 gene for 16S rRNA, partial sequence | LC507958 | 1459 | ena | 303 |
External links
@ref: 2713
culture collection no.: DSM 6521, ATCC 11172, NCIB 8251, JCM 13061, BCRC 14349, NCAIM B.01522, NCCB 92006, NCIMB 8251
straininfo link
- @ref: 82114
- straininfo: 35334
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Metabolism | 3936609 | Effect of carbon dioxide on growth of Pseudomonas putida ATCC 11172 on asparagine, citrate, glucose, and lactate in batch and continuous culture. | Molin G | Can J Microbiol | 10.1139/m85-143 | 1985 | Asparagine/*metabolism, Carbon Dioxide/*pharmacology, Citrates/*metabolism, Culture Media, Fermentation, Glucose/*metabolism, Kinetics, Lactates/*metabolism, Pseudomonas/drug effects/*growth & development/metabolism | Cultivation |
| Metabolism | 4083889 | Degradation of phenol by Pseudomonas putida ATCC 11172 in continuous culture at different ratios of biofilm surface to culture volume. | Molin G, Nilsson I | Appl Environ Microbiol | 10.1128/aem.50.4.946-950.1985 | 1985 | Culture Media, Fermentation, Kinetics, Phenol, Phenols/*metabolism, Pseudomonas/*growth & development/metabolism, Surface Properties | Cultivation |
| Metabolism | 8526513 | Application of reverse transcriptase PCR for monitoring expression of the catabolic dmpN gene in a phenol-degrading sequencing batch reactor. | Selvaratnam S, Schoedel BA, McFarland BL, Kulpa CF | Appl Environ Microbiol | 10.1128/aem.61.11.3981-3985.1995 | 1995 | Base Sequence, Biodegradation, Environmental, Biotechnology, DNA Primers/genetics, DNA, Bacterial/genetics, Densitometry, Environmental Pollutants/metabolism, Gene Expression, *Genes, Bacterial, Molecular Sequence Data, Phenol, Phenols/*metabolism, Polymerase Chain Reaction/*methods/statistics & numerical data, Pseudomonas putida/*genetics/*metabolism, RNA-Directed DNA Polymerase, Sensitivity and Specificity | Biotechnology |
| Metabolism | 9274043 | Characterization and optimization of a two-phase partitioning bioreactor for the biodegradation of phenol. | Collins LD, Daugulis AJ | Appl Microbiol Biotechnol | 10.1007/s002530051008 | 1997 | Aerobiosis, Biodegradation, Environmental, *Bioreactors, Culture Media, Environmental Pollutants/metabolism, Fermentation, Industry, Phenol, Phenols/*metabolism, Pseudomonas putida/*metabolism, Time Factors | Cultivation |
| Enzymology | 11954793 | Identification and characterization of the AgmR regulator of Pseudomonas putida: role in alcohol utilization. | Vrionis HA, Daugulis AJ, Kropinski AM | Appl Microbiol Biotechnol | 10.1007/s00253-001-0912-5 | 2002 | Alcohol Dehydrogenase/isolation & purification/*metabolism, Alcohols/*metabolism, Amino Acid Sequence, Bacterial Proteins/isolation & purification/*metabolism, Bioreactors, Gene Expression, Genes, Bacterial, Genes, Regulator, Molecular Sequence Data, Pseudomonas putida/enzymology/genetics/*metabolism, Sequence Homology, Amino Acid, *Trans-Activators | Metabolism |
| Enzymology | 12052059 | Expanded application of a two-phase partitioning bioreactor through strain development and new feeding strategies. | Vrionis HA, Kropinski AM, Daugulis AJ | Biotechnol Prog | 10.1021/bp020295f | 2002 | *Bioreactors, DNA Transposable Elements, Kinetics, Pseudomonas putida/genetics/metabolism, Solvents | Metabolism |
| Metabolism | 12209805 | Enhancement of a two-phase partitioning bioreactor system by modification of the microbial catalyst: demonstration of concept. | Vrionis HA, Kropinski AM, Daugulis AJ | Biotechnol Bioeng | 10.1002/bit.10313 | 2002 | Alcohols/*metabolism, Biodegradation, Environmental, *Bioreactors, Catalysis, Cell Line, Equipment Design, Feasibility Studies, Fermentation, Genetic Engineering/methods, Glucose/metabolism, Phenol/*metabolism, Pseudomonas putida/*genetics/*metabolism, Quality Control, Sensitivity and Specificity, Solvents/*metabolism | |
| Metabolism | 14574696 | Degradation of xenobiotics in a partitioning bioreactor in which the partitioning phase is a polymer. | Amsden BG, Bochanysz J, Daugulis AJ | Biotechnol Bioeng | 10.1002/bit.10804 | 2003 | Adsorption, Biodegradation, Environmental, *Bioreactors, Cell Culture Techniques/*methods, Cell Division, Coated Materials, Biocompatible/*chemistry, Microspheres, *Models, Biological, Phenol/*chemistry/*metabolism, Polyethylenes/*chemistry, Polymers/chemistry, Polyvinyls/*chemistry, Pseudomonas putida/*growth & development/*metabolism/ultrastructure, Surface Properties, Xenobiotics/*metabolism | |
| Metabolism | 15865338 | Enhanced biodegradation of phenol by a microbial consortium in a solid-liquid two phase partitioning bioreactor. | Prpich GP, Daugulis AJ | Biodegradation | 10.1007/s10532-004-2036-y | 2005 | Acinetobacter/growth & development/metabolism, Biodegradation, Environmental, Bioreactors/*microbiology, Kinetics, Phenol/*metabolism, Polymers, Pseudomonas/growth & development/metabolism, Pseudomonas putida/growth & development/metabolism, Water Pollutants, Chemical/metabolism | Enzymology |
| Metabolism | 17011836 | Electrical wiring of Pseudomonas putida and Pseudomonas fluorescens with osmium redox polymers. | Timur S, Haghighi B, Tkac J, Pazarlioglu N, Telefoncu A, Gorton L | Bioelectrochemistry | 10.1016/j.bioelechem.2006.08.001 | 2006 | 2,2'-Dipyridyl/*analogs & derivatives/chemistry, Biosensing Techniques/instrumentation/*methods, Carbon/chemistry, Catechols/analysis/metabolism, Cysteamine/chemistry, Electrochemistry, Electrodes, Glucose/analysis/metabolism, Gold/chemistry, Hydrogen-Ion Concentration, Imidazoles/*chemistry, Microbiological Techniques/instrumentation/*methods, Organic Chemicals/chemistry, Organometallic Compounds/*chemistry, Oxidation-Reduction, Phenols/analysis/metabolism, Polyvinyls/*chemistry, Pseudomonas fluorescens/growth & development/*isolation & purification, Pseudomonas putida/growth & development/*isolation & purification, Time Factors | Enzymology |
| Metabolism | 17434262 | Degradation of phenol and TCE using suspended and chitosan-bead immobilized Pseudomonas putida. | Chen YM, Lin TF, Huang C, Lin JC, Hsieh FM | J Hazard Mater | 10.1016/j.jhazmat.2007.03.030 | 2007 | Adsorption, Biodegradation, Environmental, Bioreactors, *Chitosan, Hydrogen-Ion Concentration, Kinetics, Microscopy, Electron, Scanning, Phenol/*metabolism, Pseudomonas putida/*physiology, Trichloroethylene/*metabolism | Enzymology |
| 18553582 | Sand administration as an instrument for biofilm control of Pseudomonas putida ATCC 11172 in chemostat cultures. | Molin G, Nilsson I | Biotechnol Bioeng | 10.1002/bit.260270114 | 1985 | |||
| 18597303 | Effects of carbon and oxygen limitations and calcium concentrations on biofilm removal processes. | Applegate DH, Bryers JD | Biotechnol Bioeng | 10.1002/bit.260370105 | 1991 | |||
| Metabolism | 18636453 | Biodegradation of phenol at high initial concentrations in two-phase partitioning batch and fed-batch bioreactors. | Collins LD, Daugulis AJ | Biotechnol Bioeng | 10.1002/(SICI)1097-0290(19970705)55:1<155::AID-BIT16>3.0.CO;2-L | 1997 | ||
| 21558733 | Utilization of phenylpropanoids by pseudomonas putida soil isolates and its probable taxonomic significance. | Nonaka K, Ohta H, Sato Y, Hosokawa K | Microbes Environ | 10.1264/jsme2.me08545 | 2008 | |||
| Genetics | 24572276 | Identification of novel non-metal haloperoxidases from the marine metagenome. | Gwon HJ, Teruhiko I, Shigeaki H, Baik SH | J Microbiol Biotechnol | 10.4014/jmb.1310.10070 | 2014 | Amino Acid Sequence, Bacterial Proteins/chemistry/*genetics/metabolism, Gene Library, *Metagenome, Molecular Sequence Data, Open Reading Frames, Oxygenases/chemistry/*genetics/metabolism, Pseudomonas putida/chemistry/*enzymology/genetics/isolation & purification, Seawater/*microbiology, Sequence Alignment | Metabolism |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 2713 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6521) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-6521 | |||
| 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 | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 68369 | Automatically annotated from API 20NE | |||||
| 69479 | João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
| 82114 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID35334.1 | StrainInfo: A central database for resolving microbial strain identifiers |