Strain identifier

BacDive ID: 13105

Type strain: Yes

Species: Pseudomonas oryzihabitans

Strain Designation: C36

Strain history: CIP <- 2004, H.J. Busse, Vienna Univ., Vienna, Austria: C36

NCBI tax ID(s): 237610 (species)

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General

@ref: 6102

BacDive-ID: 13105

DSM-Number: 15758

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, rod-shaped

description: Pseudomonas oryzihabitans C36 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from water under a dog's cage in a Medical Clinic for Small Animals.

NCBI tax id

  • NCBI tax id: 237610
  • Matching level: species

strain history

@refhistory
6102<- H.-J. Busse; C36
332552004, H.J. Busse, Univ. Veterinary Medicine Vienna, Vienna, Austria: C36
122037CIP <- 2004, H.J. Busse, Vienna Univ., Vienna, Austria: C36

doi: 10.13145/bacdive13105.20230509.8.1

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 oryzihabitans
  • full scientific name: Pseudomonas oryzihabitans Kodama et al. 1985

  • synonyms

    @refsynonym
    20215Pseudomonas psychrotolerans
    20215Flavimonas oryzihabitans

@ref: 6102

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas psychrotolerans

full scientific name: Pseudomonas psychrotolerans Hauser et al. 2004

strain designation: C36

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
30172negative1.5-1.8 µm0.5-0.7 µmrod-shaped
122037negativerod-shapedyes

pigmentation

@refproductionname
30172yes
122037noPyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6102R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
6102MODIFIED PYES MEDIUM (DSMZ Medium 937a)yeshttps://mediadive.dsmz.de/medium/937aName: MODIFIED PYES MEDIUM (DSMZ Medium 937a) Composition: Agar 15.0 g/l Casein peptone 3.0 g/l Yeast extract 3.0 g/l Distilled water
33255MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
122037CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
6102positivegrowth28mesophilic
30172positivegrowth04-37
30172positiveoptimum20.5psychrophilic
33255positivegrowth30mesophilic
59226positivegrowth30-37mesophilic
122037positivegrowth25-37mesophilic
122037nogrowth5psychrophilic
122037nogrowth10psychrophilic
122037nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
30172aerobe
59226aerobe
122037obligate aerobe

spore formation

  • @ref: 30172
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
30172NaClpositivegrowth01-05 %
30172NaClpositiveoptimum3 %
122037NaClpositivegrowth0-2 %
122037NaClnogrowth4 %
122037NaClnogrowth6 %
122037NaClnogrowth8 %
122037NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3017230089acetate+carbon source
3017222599arabinose+carbon source
3017235391aspartate+carbon source
3017216947citrate+carbon source
3017228757fructose+carbon source
3017228260galactose+carbon source
3017224265gluconate+carbon source
3017227570histidine+carbon source
3017217596inosine+carbon source
3017217240itaconate+carbon source
3017225017leucine+carbon source
3017217306maltose+carbon source
3017229864mannitol+carbon source
3017237684mannose+carbon source
3017217272propionate+carbon source
3017226546rhamnose+carbon source
3017233942ribose+carbon source
3017230911sorbitol+carbon source
3017227082trehalose+carbon source
3017218222xylose+carbon source
12203716947citrate+carbon source
1220374853esculin-hydrolysis
12203717632nitrate-reduction
12203716301nitrite-reduction
12203717632nitrate-respiration

antibiotic resistance

  • @ref: 122037
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 122037
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
30172catalase+1.11.1.6
122037oxidase-
122037beta-galactosidase-3.2.1.23
122037alcohol dehydrogenase-1.1.1.1
122037gelatinase+/-
122037amylase+
122037DNase-
122037caseinase-3.4.21.50
122037catalase+1.11.1.6
122037tween esterase-
122037lecithinase-
122037lipase-
122037lysine decarboxylase-4.1.1.18
122037ornithine decarboxylase-4.1.1.17
122037protease-
122037tryptophan deaminase-
122037urease-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
122037--++-+--+-++--------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122037+++++----++--------+++-++-+----+++--+--+---+++-++++++++++---+-+++------+++-++++++-+-+--++++++++++++

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
6102water under a dog's cage in a Medical Clinic for Small AnimalsViennaAustriaAUTEurope
59226Water under a dog's cage in a Medical ClinicViennaAustriaAUTEurope
122037Environment, Water under a dog's cageViennaAustriaAUTEurope

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic
#Infection#Medical environment#Clinic

taxonmaps

  • @ref: 69479
  • File name: preview.99_321.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_224;97_245;98_274;99_321&stattab=map
  • Last taxonomy: Pseudomonas
  • 16S sequence: AJ575816
  • Sequence Identity:
  • Total samples: 71727
  • soil counts: 11121
  • aquatic counts: 11430
  • animal counts: 37524
  • plant counts: 11652

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
61021Risk group (German classification)
1220371Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6102
  • description: Pseudomonas sp. C36 16S rRNA gene, strain C36
  • accession: AJ575816
  • length: 1459
  • database: ena
  • NCBI tax ID: 237610

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas psychrotolerans DSM 15758GCA_012985915contigncbi237610
66792Pseudomonas psychrotolerans DSM 15758GCA_900102665scaffoldncbi237610
66792Pseudomonas psychrotolerans strain DSM 15758237610.32wgspatric237610
66792Pseudomonas psychrotolerans strain DSM 15758237610.16wgspatric237610
66792Pseudomonas psychrotolerans LMG 219772663763601draftimg237610

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedyes55.417no
gram-positiveno98.211yes
anaerobicno98.293yes
aerobicyes93.729yes
halophileno89.042no
spore-formingno95.491yes
glucose-fermentno88.449no
thermophileno99.7no
glucose-utilyes94.584no
motileyes88.983no

External links

@ref: 6102

culture collection no.: DSM 15758, LMG 21977, CCUG 51516, CIP 108579

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15388721Pseudomonas psychrotolerans sp. nov.Hauser E, Kampfer P, Busse HJInt J Syst Evol Microbiol10.1099/ijs.0.03024-02004Animals, Austria, Bacterial Typing Techniques, DNA Fingerprinting, DNA, Bacterial/chemistry/isolation & purification, DNA, Ribosomal/chemistry/isolation & purification, Fatty Acids/analysis, Genes, rRNA, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Pigments, Biological/biosynthesis, Pseudomonas/*classification/genetics/*isolation & purification/physiology, Pseudomonas oleovorans/classification, Putrescine/analysis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spermidine/analysis, Ubiquinone/analysisEnzymology
Phylogeny31751195Pseudomonas rhizoryzae sp. nov., isolated from rice.Wang X, He SW, Guo HB, Thin KK, Gao JS, Wang Y, Zhang XXInt J Syst Evol Microbiol10.1099/ijsem.0.0038522020Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Nucleic Acid Hybridization, Oryza/*microbiology, *Phylogeny, Pseudomonas/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome
35852908First Report of Bacterial Leaf Spot on Tobacco Caused by Pseudomonas psychrotolerans in China.Li Y, Wang D, Cao S, Wang X, Ren GPlant Dis10.1094/PDIS-05-22-1069-PDN2022

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
6102Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15758)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15758
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
30172Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2652128776041
33255Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6216
59226Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 51516)https://www.ccug.se/strain?id=51516
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)
68382Automatically annotated from API zym
69479João 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
122037Curators of the CIPCollection of Institut Pasteur (CIP 108579)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108579