Strain identifier

BacDive ID: 13150

Type strain: Yes

Species: Pseudomonas vranovensis

Strain Designation: 2B2

Strain history: CIP <- 2007, DSMZ <- CCM

NCBI tax ID(s): 1292031 (strain), 321661 (species)

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General

@ref: 6237

BacDive-ID: 13150

DSM-Number: 16006

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, motile

description: Pseudomonas vranovensis 2B2 is an obligate aerobe, mesophilic, motile bacterium that was isolated from soil besides highway.

NCBI tax id

NCBI tax idMatching level
1292031strain
321661species

strain history

@refhistory
6237<- L. Tvrzová, Univ. Brno; 2B2
123885CIP <- 2007, DSMZ <- CCM

doi: 10.13145/bacdive13150.20230509.8.1

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 vranovensis
  • full scientific name: Pseudomonas vranovensis Tvrzová et al. 2006

@ref: 6237

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas vranovensis

full scientific name: Pseudomonas vranovensis Tvrzová et al. 2006

strain designation: 2B2

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes94.967
6948099.997negative
123885yesnegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6237CASO 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
37565MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
123885CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
123885CIP Medium 328yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=328

culture temp

@refgrowthtypetemperaturerange
6237positivegrowth28mesophilic
37565positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 123885
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.964

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
12388517632nitrate+reduction
12388516301nitrite-reduction

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
12388535581indoleno

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
123885oxidase+
123885catalase+1.11.1.6
123885urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)+
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382cystine arylamidase-3.4.11.3
68382trypsin+3.4.21.4
68382alpha-chymotrypsin+3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase-
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123885-++++++-+++---------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
6237+--+----+-----++-++-+
6237+--+----+-----++-++-+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
6237soil besides highwayVranov, MoraviaCzech RepublicCZEEurope
123885Environment, Soil, besides highwayVranovCzech RepublicCZEEurope

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
62371Risk group (German classification)
1238851Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6237
  • description: Pseudomonas vranovensis strain CCM 7279 16S ribosomal RNA gene, partial sequence
  • accession: AY970951
  • length: 1520
  • database: ena
  • NCBI tax ID: 321661

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas vranovensis DSM 16006GCA_000425805scaffoldncbi1292031
66792Pseudomonas vranovensis DSM 160061292031.3wgspatric1292031
66792Pseudomonas vranovensis DSM 160062523533545draftimg1292031

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes91.913no
flagellatedyes87.614no
gram-positiveno98.31no
anaerobicno98.604no
aerobicyes95.684no
halophileno87.182no
spore-formingno95.811no
thermophileno99.886yes
glucose-utilyes91.996yes
glucose-fermentno90.415yes

External links

@ref: 6237

culture collection no.: DSM 16006, CCM 7279, CIP 109460

straininfo link

  • @ref: 82358
  • straininfo: 297308

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17082407Pseudomonas moraviensis sp. nov. and Pseudomonas vranovensis sp. nov., soil bacteria isolated on nitroaromatic compounds, and emended description of Pseudomonas asplenii.Tvrzova L, Schumann P, Sproer C, Sedlacek I, Pacova Z, Sedo O, Zdrahal Z, Steffen M, Lang EInt J Syst Evol Microbiol10.1099/ijs.0.63988-02006Amino Acids/metabolism, Bacterial Typing Techniques, Carbohydrate Metabolism, Czech Republic, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Pseudomonas/*classification/cytology/*isolation & purification/physiology, RNA, Ribosomal, 16S/genetics, Ribotyping, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, *Soil MicrobiologyMetabolism
Phylogeny26276124Pseudomonas alkylphenolica sp. nov., a bacterial species able to form special aerial structures when grown on p-cresol.Mulet M, Sanchez D, Lalucat J, Lee K, Garcia-Valdes EInt J Syst Evol Microbiol10.1099/ijsem.0.0005292015Bacterial Typing Techniques, Base Composition, *Cresols, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Multilocus Sequence Typing, Nucleic Acid Hybridization, *Phylogeny, Pseudomonas/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil MicrobiologyTranscriptome
Genetics32974501High-quality draft genome sequences of Pseudomonas monteilii DSM 14164(T), Pseudomonas mosselii DSM 17497(T), Pseudomonas plecoglossicida DSM 15088(T), Pseudomonas taiwanensis DSM 21245(T) and Pseudomonas vranovensis DSM 16006(T): taxonomic considerations.Pena A, Busquets A, Gomila M, Mulet M, Gomila RM, Garcia-Valdes E, Reddy TBK, Huntemann M, Varghese N, Ivanova N, Chen IM, Goker M, Woyke T, Klenk HP, Kyrpides N, Lalucat JAccess Microbiol10.1099/acmi.0.0000672019

Reference

@idauthorscataloguedoi/urltitle
6237Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16006)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16006
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
37565Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7206
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)
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
82358Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID297308.1StrainInfo: A central database for resolving microbial strain identifiers
123885Curators of the CIPCollection of Institut Pasteur (CIP 109460)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109460