Strain identifier
BacDive ID: 13001
Type strain: 
Species: Pseudomonas stutzeri
Strain Designation: JM300
Strain history: IAM 15110 <-- DSM 10701 <-- E. Moore <-- G. J. Stewart <-- B. A. Bryan.
NCBI tax ID(s): 1123519 (strain), 203192 (species), 316 (species)
version 7.1 (current version)
General
@ref: 4044
BacDive-ID: 13001
DSM-Number: 10701
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, human pathogen
description: Pseudomonas stutzeri JM300 is a mesophilic human pathogen that was isolated from anaerobic enrichment from soil.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1123519 | strain |
| 203192 | species |
| 316 | species |
strain history
doi: 10.13145/bacdive13001.20221219.7.1
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 stutzeri
- full scientific name: Pseudomonas stutzeri (Lehmann and Neumann 1896) Sijderius 1946 (Approved Lists 1980)
synonyms
@ref synonym 20215 Stutzerimonas chloritidismutans 20215 Pseudomonas perfectomarinus 20215 Bacterium stutzeri 20215 Pseudomonas kunmingensis 20215 Pseudomonas chloritidismutans 20215 Stutzerimonas kunmingensis 20215 Stutzerimonas stutzeri 20215 Stutzerimonas perfectomarina 20215 Pseudomonas perfectomarina
@ref: 4044
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Pseudomonadales
family: Pseudomonadaceae
genus: Pseudomonas
species: Pseudomonas stutzeri
full scientific name: Pseudomonas stutzeri (Lehmann and Neumann 1896) Sijderius 1946
strain designation: JM300
type strain: no
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 93.617 | |
| 69480 | 99.659 | negative |
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 4044 | TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545) | yes | https://mediadive.dsmz.de/medium/545 | Name: TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545) Composition: Casein peptone 17.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l D(+)-Glucose 2.5 g/l K2HPO4 2.5 g/l Distilled water |
| 4044 | TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) | yes | https://mediadive.dsmz.de/medium/535 | Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water |
| 4044 | 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 | growth | type | temperature | range |
|---|---|---|---|---|
| 4044 | positive | growth | 28 | mesophilic |
| 4044 | positive | growth | 30 | mesophilic |
| 67770 | positive | growth | 30 | mesophilic |
Physiology and metabolism
spore formation
- @ref: 69480
- spore formation: no
- confidence: 97.561
halophily
- @ref: 69480
- halophily level: non-halophilic
- confidence: 87.223
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 4044 | + | - | - | - | - | - | - | - | + | - | + | + | - | + | + | + | - | + | + | - | + |
| 4044 | + | - | - | - | - | - | - | - | + | - | + | + | - | + | + | + | - | + | + | - | + |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 4044 | anaerobic enrichment from soil | California | USA | USA | North America |
| 67770 | Soil | CA | USA | USA | North America |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Laboratory | #Lab enrichment |
| #Environmental | #Terrestrial | #Soil |
| #Condition | #Anoxic (anaerobic) |
Safety information
risk assessment
- @ref: 4044
- pathogenicity human: yes, in single cases
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Pseudomonas stutzeri 16S rRNA gene, partial sequence | U58661 | 1344 | ena | 316 |
| 20218 | P.stutzeri 16S ribosomal RNA gene | X98607 | 1492 | ena | 316 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Pseudomonas stutzeri DSM 10701 DSM 10701 | GCA_000279165 | complete | ncbi | 1123519 |
| 66792 | Pseudomonas stutzeri DSM 10701 | 1123519.7 | complete | patric | 1123519 |
| 66792 | Pseudomonas stutzeri JM3000, DSM 10701 | 2519899778 | complete | img | 1123519 |
| 66792 | Acinetobacter baumannii 1032241 1032241 | GCA_000580455 | contig | patric | 1310571 |
External links
@ref: 4044
culture collection no.: DSM 10701, JCM 21571, IAM 15110
straininfo link
| @ref | passport |
|---|---|
| 20218 | http://www.straininfo.net/strains/162124 |
| 20218 | http://www.straininfo.net/strains/162125 |
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Enzymology | 1539983 | Isolation and characterization of a nitrite reductase gene and its use as a probe for denitrifying bacteria. | Smith GB, Tiedje JM | Appl Environ Microbiol | 10.1128/aem.58.1.376-384.1992 | 1992 | Amino Acid Sequence, Bacteria/isolation & purification/metabolism, Base Sequence, Blotting, Southern, *DNA Probes, DNA, Bacterial, Molecular Sequence Data, Nitrate Reductase, Nitrate Reductases/*genetics/isolation & purification/metabolism, Nitrates/metabolism, Polymerase Chain Reaction, Pseudomonas/*enzymology/genetics, Restriction Mapping, Sequence Alignment | Phylogeny |
| Enzymology | 1850410 | Purification of cytochrome cd1 nitrite reductase from Pseudomonas stutzeri JM300 and reconstitution with native and synthetic heme d1. | Weeg-Aerssens E, Wu WS, Ye RW, Tiedje JM, Chang CK | J Biol Chem | S0021-9258(20)89474-5 | 1991 | Amino Acid Sequence, Cells, Cultured, Cytochromes, Electron Transport Complex IV/*isolation & purification, Electrophoresis, Polyacrylamide Gel, Heme/*analogs & derivatives/chemistry, Molecular Sequence Data, Molecular Weight, Nitric Oxide/metabolism, *Nitrite Reductases, Nitrous Oxide/metabolism, Protein Conformation, Pseudomonas/*enzymology, Sequence Homology, Nucleic Acid, Spectrophotometry, Ultraviolet | Genetics |
| Metabolism | 2059008 | Exchange of chromosomal markers by natural transformation between the soil isolate, Pseudomonas stutzeri JM300, and the marine isolate, Pseudomonas stutzeri strain ZoBell. | Stewart GJ, Sinigalliano CD | Antonie Van Leeuwenhoek | 10.1007/BF00582115 | 1991 | Deoxyribonuclease I/metabolism, Drug Resistance, Microbial/genetics, Genes, Bacterial, *Genetic Markers, Nalidixic Acid/pharmacology, Pseudomonas/*genetics, Rifampin/pharmacology, Streptomycin/pharmacology, *Transformation, Bacterial | |
| Metabolism | 2365685 | Steady-state nitric oxide concentrations during denitrification. | Goretski J, Zafiriou OC, Hollocher TC | J Biol Chem | S0021-9258(19)38430-3 | 1990 | Alcaligenes/*metabolism, Anaerobiosis, Asparagine/metabolism, Kinetics, Nitrates/*metabolism, Nitric Oxide/*metabolism, Nitrites/*metabolism, Paracoccus denitrificans/*metabolism, Pseudomonas/*metabolism, Species Specificity | Enzymology |
| Enzymology | 7747927 | Isolation, sequencing and mutational analysis of a gene cluster involved in nitrite reduction in Paracoccus denitrificans. | de Boer AP, Reijnders WN, Kuenen JG, Stouthamer AH, van Spanning RJ | Antonie Van Leeuwenhoek | 10.1007/BF00871635 | 1994 | Amino Acid Sequence, Base Sequence, Cloning, Molecular, Frameshift Mutation/genetics, Gene Expression Regulation, Bacterial/genetics, Genes, Bacterial, Molecular Sequence Data, *Multigene Family, Nitrite Reductases/chemistry/*genetics, Nitrites/*metabolism, Oxidation-Reduction, Paracoccus denitrificans/enzymology/*genetics, Pyrroles/chemistry, Sequence Alignment, Sequence Homology, Amino Acid, Tetrapyrroles | Genetics |
| 7961508 | Inducible cell lysis system for the study of natural transformation and environmental fate of DNA released by cell death. | Kloos DU, Stratz M, Guttler A, Steffan RJ, Timmis KN | J Bacteriol | 10.1128/jb.176.23.7352-7361.1994 | 1994 | Acinetobacter calcoaceticus/genetics, Bacteriolysis/genetics, DNA, Bacterial/*genetics, *Environmental Microbiology, Escherichia coli/genetics, Gram-Negative Bacteria/*genetics, Plasmids/genetics, Pseudomonas/genetics, *Transformation, Genetic | ||
| Enzymology | 8169201 | Structure and regulation of the carAB operon in Pseudomonas aeruginosa and Pseudomonas stutzeri: no untranslated region exists. | Kwon DH, Lu CD, Walthall DA, Brown TM, Houghton JE, Abdelal AT | J Bacteriol | 10.1128/jb.176.9.2532-2542.1994 | 1994 | Amino Acid Sequence, Base Sequence, Carbamoyl-Phosphate Synthase (Glutamine-Hydrolyzing)/biosynthesis/*genetics, Cloning, Molecular, DNA Mutational Analysis, *Gene Expression Regulation, Bacterial, Molecular Sequence Data, Operon/*genetics, *Protein Biosynthesis, Pseudomonas/enzymology/*genetics, Pseudomonas aeruginosa/enzymology/genetics, RNA, Messenger/metabolism, Recombinant Fusion Proteins/biosynthesis, Sequence Analysis, DNA, Sequence Homology, Amino Acid, Sequence Homology, Nucleic Acid, Transcription, Genetic | Genetics |
| Enzymology | 8439151 | Characterization of the structural gene encoding a copper-containing nitrite reductase and homology of this gene to DNA of other denitrifiers. | Ye RW, Fries MR, Bezborodnikov SG, Averill BA, Tiedje JM | Appl Environ Microbiol | 10.1128/aem.59.1.250-254.1993 | 1993 | Amino Acid Sequence, Bacterial Proteins/chemistry/*genetics, Base Sequence, Copper/*chemistry, DNA, Bacterial/chemistry/*isolation & purification, *Genes, Bacterial, Molecular Sequence Data, Nitrite Reductases/*genetics/isolation & purification/physiology, Nitrites/*metabolism, Pseudomonas/chemistry/enzymology/genetics, Sequence Homology, Nucleic Acid, Species Specificity | Phylogeny |
| Phylogeny | 8875907 | The naturally transformable marine bacterium WJT-1C formally identified as "Vibrio" is a pseudomonad. | Frischer ME, Williams HG, Bennison B, Drake GR, Balkwill DL, Paul JH | Curr Microbiol | 10.1007/s002849900115 | 1996 | Bacteriophage Typing, Carbon/metabolism, Fatty Acids/analysis, Flagella/chemistry, Phylogeny, Pseudomonas/*classification, RNA, Ribosomal, 16S/analysis, Staining and Labeling, Transformation, Bacterial, Vibrio/*chemistry/classification, Water Microbiology | Metabolism |
| Phylogeny | 8995815 | Genome organization of Pseudomonas stutzeri and resulting taxonomic and evolutionary considerations. | Ginard M, Lalucat J, Tummler B, Romling U | Int J Syst Bacteriol | 10.1099/00207713-47-1-132 | 1997 | Blotting, Southern, Chromosome Mapping, Chromosomes/genetics, DNA, Bacterial/analysis, Electrophoresis, Gel, Pulsed-Field, Genes, Bacterial, *Genome, Bacterial, Nucleic Acid Hybridization, Operon/genetics, Plasmids, Polymorphism, Restriction Fragment Length, Pseudomonas/*classification/*genetics, RNA, Ribosomal, 16S/genetics, RNA, Ribosomal, 23S/genetics, *Restriction Mapping | Enzymology |
| Metabolism | 9493393 | Natural genetic transformation of Pseudomonas stutzeri in a non-sterile soil. | Sikorski J, Graupner S, Lorenz MG, Wackernagel W | Microbiology (Reading) | 10.1099/00221287-144-2-569 | 1998 | DNA, Bacterial/analysis/*genetics/metabolism, Deoxyribonuclease I/pharmacology, Deoxyribonucleases/metabolism, Histidine/genetics, Molecular Sequence Data, Plasmids/analysis/*genetics/metabolism, Pseudomonas/*genetics, Soil Microbiology, *Transformation, Genetic | Genetics |
| Genetics | 10735861 | Type IV pilus genes pilA and pilC of Pseudomonas stutzeri are required for natural genetic transformation, and pilA can be replaced by corresponding genes from nontransformable species. | Graupner S, Frey V, Hashemi R, Lorenz MG, Brandes G, Wackernagel W | J Bacteriol | 10.1128/JB.182.8.2184-2190.2000 | 2000 | Bacterial Proteins/*genetics, Biological Transport, DNA, Bacterial/metabolism, DNA-Binding Proteins/*genetics, *Endopeptidases, Fimbriae Proteins, Genes, Bacterial, Genetic Complementation Test, Membrane Proteins/genetics, Molecular Sequence Data, Mutation, Open Reading Frames, *Oxidoreductases, Pili, Sex/*genetics, Pseudomonas/*genetics, *Transformation, Bacterial | Metabolism |
| Genetics | 11101666 | The potential for intraspecific horizontal gene exchange by natural genetic transformation: sexual isolation among genomovars of Pseudomonas stutzeri. | Lorenz MG, Sikorski J | Microbiology (Reading) | 10.1099/00221287-146-12-3081 | 2000 | *Conjugation, Genetic/genetics, DNA, Bacterial/analysis/genetics, DNA-Directed RNA Polymerases/*genetics, *Gene Transfer, Horizontal, Genotype, Humans, Molecular Sequence Data, Phylogeny, Pseudomonas/classification/*genetics/physiology, Sequence Analysis, DNA, *Transformation, Bacterial | Phylogeny |
| Enzymology | 11790331 | Cyclohexadienyl dehydrogenase from Pseudomonas stutzeri exemplifies a widespread type of tyrosine-pathway dehydrogenase in the TyrA protein family. | Xie G, Bonner CA, Jensen RA | Comp Biochem Physiol C Toxicol Pharmacol | 10.1016/s0742-8413(99)00090-0 | 2000 | Amino Acid Sequence, Bacterial Proteins/genetics/*metabolism, Base Sequence, Catalysis, Chromatography, DEAE-Cellulose, Chromatography, Ion Exchange, Cloning, Molecular, Culture Media, DNA, Bacterial/genetics, Durapatite, Electrophoresis, Polyacrylamide Gel, Molecular Sequence Data, Molecular Weight, *Multienzyme Complexes, Plasmids/genetics, Prephenate Dehydrogenase/genetics/*metabolism, Pseudomonas/*enzymology/genetics | Metabolism |
| Metabolism | 12686632 | DNA restriction is a barrier to natural transformation in Pseudomonas stutzeri JM300. | Berndt C, Meier P, Wackernagel W | Microbiology (Reading) | 10.1099/mic.0.26033-0 | 2003 | DNA Restriction-Modification Enzymes/genetics/*metabolism, DNA, Bacterial/metabolism, DNA, Single-Stranded/metabolism, Electroporation, Escherichia coli/genetics, Genetic Vectors, Humans, Mutation, Plasmids, Pseudomonas/enzymology/*genetics, Recombination, Genetic, Restriction Mapping, *Transformation, Bacterial | Enzymology |
| 15601698 | Impact of mutS inactivation on foreign DNA acquisition by natural transformation in Pseudomonas stutzeri. | Meier P, Wackernagel W | J Bacteriol | 10.1128/JB.187.1.143-154.2005 | 2005 | Adenosine Triphosphatases/chemistry/*physiology, Bacterial Proteins/chemistry/*physiology, *Base Pair Mismatch, *DNA Repair, DNA-Binding Proteins/chemistry/*physiology, Escherichia coli Proteins, MutS DNA Mismatch-Binding Protein, Plasmids, Pseudomonas stutzeri/*genetics, Recombination, Genetic, *Transformation, Bacterial | ||
| Metabolism | 15635461 | Posttranslational modification of myxobacterial carrier protein domains in Pseudomonas sp. by an intrinsic phosphopantetheinyl transferase. | Gross F, Gottschalk D, Muller R | Appl Microbiol Biotechnol | 10.1007/s00253-004-1836-7 | 2005 | Amino Acid Sequence, Bacterial Proteins/chemistry/*metabolism, Carrier Proteins/*metabolism, Fatty Acid Synthases/metabolism, Molecular Sequence Data, Myxococcales/*metabolism, Peptide Synthases/metabolism, Polyketide Synthases/metabolism, *Protein Processing, Post-Translational, Pseudomonas/*enzymology, Recombinant Proteins/metabolism, Sequence Alignment, Sequence Homology, Amino Acid, Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization, Transferases (Other Substituted Phosphate Groups)/chemistry/*metabolism | Genetics |
| Genetics | 22965097 | Genome sequence of Pseudomonas stutzeri strain JM300 (DSM 10701), a soil isolate and model organism for natural transformation. | Busquets A, Pena A, Gomila M, Bosch R, Nogales B, Garcia-Valdes E, Lalucat J, Bennasar A | J Bacteriol | 10.1128/JB.01257-12 | 2012 | *Genome, Bacterial, Molecular Sequence Data, Pseudomonas stutzeri/*genetics, *Soil Microbiology, *Transformation, Genetic | |
| Metabolism | 29752987 | Expression of nirK and nirS genes in two strains of Pseudomonas stutzeri harbouring both types of NO-forming nitrite reductases. | Wittorf L, Jones CM, Bonilla-Rosso G, Hallin S | Res Microbiol | 10.1016/j.resmic.2018.04.010 | 2018 | Cytochromes/*genetics/*metabolism, Denitrification/genetics/*physiology, Gene Expression Regulation/*genetics, Nitrates/chemistry, Nitric Oxide/*biosynthesis, Nitrite Reductases/*genetics/*metabolism, Nitrites/chemistry, Oxidation-Reduction, Oxygen/chemistry, Pseudomonas stutzeri/*genetics/*metabolism, Trans-Activators/genetics/metabolism | Enzymology |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 4044 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 10701) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-10701 | |||
| 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 | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 68369 | Automatically annotated from API 20NE | |||||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) |