Strain identifier

BacDive ID: 12904

Type strain: No

Species: Pseudomonas putida

Strain Designation: F1, PpF1

Strain history: DSM 6899 <-- D. T. Gibson; F1.

NCBI tax ID(s): 303 (species)

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General

@ref: 2881

BacDive-ID: 12904

DSM-Number: 6899

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, human pathogen

description: Pseudomonas putida F1 is a mesophilic human pathogen of the family Pseudomonadaceae.

NCBI tax id

  • NCBI tax id: 303
  • Matching level: species

strain history

@refhistory
2881<- D.T. Gibson
67770DSM 6899 <-- D. T. Gibson; F1.

doi: 10.13145/bacdive12904.20230509.8.1

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

    @refsynonym
    20215Bacillus putidus
    20215Arthrobacter siderocapsulatus

@ref: 2881

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: F1, PpF1

type strain: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
2881CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: 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
2881MINERAL MEDIUM (BRUNNER) (DSMZ Medium 457)yeshttps://mediadive.dsmz.de/medium/457Name: 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

@refgrowthtypetemperaturerange
2881positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate+assimilation
6836917128adipate-assimilation
6836927689decanoate+assimilation
6836924265gluconate+assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose+assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose+assimilation
683695291gelatin-hydrolysis
683694853esculin-hydrolysis
6836916199urea-hydrolysis
6836929016arginine+hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase+3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
2881---+----+-+---++-++++

Isolation, sampling and environmental information

isolation

  • @ref: 2881
  • country: USA
  • origin.country: USA
  • continent: North America

Safety information

risk assessment

  • @ref: 2881
  • pathogenicity human: yes
  • pathogenicity animal: yes
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
67770Pseudomonas putida DNA for 16S rRNA, partial sequenceD87108889ena303
67770Pseudomonas putida ribosomal RNAL373651368ena303

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas putida F1351746.6completepatric351746
66792Pseudomonas putida F1640427132completeimg351746

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveno98.283no
anaerobicno98.399no
halophileno82.696no
spore-formingno95.716no
glucose-utilyes90.152yes
motileyes92.107no
flagellatedyes83.793no
thermophileno99.9yes
aerobicyes95.609no
glucose-fermentno89.699yes

External links

@ref: 2881

culture collection no.: DSM 6899, ATCC 700007, JCM 31910, BCRC 17059, LMG 24140, VTT E-022152

straininfo link

  • @ref: 82117
  • straininfo: 46948

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Enzymology11963848Enhancement of the conversion of toluene by Pseudomonas putida F-1 using organic cosolvents.Rodriguez M Jr, Klasson KT, Davison BHAppl Biochem Biotechnol10.1385/abab:91-93:1-9:1952001*Bioreactors, Fermentation, Gases, Kinetics, Pseudomonas putida/*metabolism, Silicone Oils, Solvents, Toluene/*metabolismMetabolism
Phylogeny28735314Gene Expression during BTEX Biodegradation by a Microbial Consortium Acclimatized to Unleaded Gasoline and a Pseudomonas putida Strain (HM346961) Isolated from It.Morlett-Chavez JA, Ascacio-Martinez JA, Haskins WE, Acuna-Askar K, Barrera-Saldana HAPol J Microbiol10.5604/01.3001.0010.78362017Adaptation, Physiological, Benzene, Biodegradation, Environmental, *Gasoline, *Gene Expression Regulation, Bacterial, *Microbial Consortia, Pseudomonas putida/isolation & purification/*metabolism, Toluene, XylenesMetabolism

Reference

@idauthorscataloguedoi/urltitle
2881Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6899)https://www.dsmz.de/collection/catalogue/details/culture/DSM-6899
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
82117Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID46948.1StrainInfo: A central database for resolving microbial strain identifiers