Strain identifier

BacDive ID: 8207

Type strain: Yes

Species: Psychrobacter celer

Strain Designation: SW-238, JG-238

Strain history: CIP <- 2005, JCM <- 2004, J.H. Yoon, KRIBB, Taejon, Korea: strain SW-238

NCBI tax ID(s): 306572 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 17250

BacDive-ID: 8207

DSM-Number: 23510

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative, ovoid-shaped

description: Psychrobacter celer SW-238 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from sea water.

NCBI tax id

  • NCBI tax id: 306572
  • Matching level: species

strain history

@refhistory
17250<- KCTC <- J. H. Yoon, Korea Res. Inst. Biosci. & Biotechnol. (KRIBB), Taejon, South Korea
67770J.-H. Yoon SW-238.
67771<- JH Yoon, KRIBB
117232CIP <- 2005, JCM <- 2004, J.H. Yoon, KRIBB, Taejon, Korea: strain SW-238

doi: 10.13145/bacdive8207.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Pseudomonadales
  • family: Moraxellaceae
  • genus: Psychrobacter
  • species: Psychrobacter celer
  • full scientific name: Psychrobacter celer Yoon et al. 2005

@ref: 17250

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Moraxellaceae

genus: Psychrobacter

species: Psychrobacter celer

full scientific name: Psychrobacter celer Yoon et al. 2005

strain designation: SW-238, JG-238

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
31493negative1.6 µm1 µmovoid-shapedno
67771negative
117232negativecoccus-shapedno

colony morphology

  • @ref: 117232

pigmentation

  • @ref: 31493
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
17250BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
117232CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
17250positivegrowth28mesophilic
31493positivegrowth04-40
31493positiveoptimum32.5mesophilic
67770positivegrowth30mesophilic
67771positivegrowth30mesophilic

culture pH

@refabilitytypepH
31493positivegrowth5.0-8.0
31493positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31493anaerobe
67771aerobe
117232obligate aerobe

spore formation

  • @ref: 31493
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
31493NaClpositivegrowth0-16 %
31493NaClpositiveoptimum2.5 %

observation

@refobservation
31493aggregates in clumps
67770quinones: Q-8

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3149330089acetate+carbon source
3149322599arabinose+carbon source
3149317234glucose+carbon source
3149317716lactose+carbon source
3149325115malate+carbon source
3149328053melibiose+carbon source
3149315361pyruvate+carbon source
3149326546rhamnose+carbon source
3149333942ribose+carbon source
3149330031succinate+carbon source
3149353423tween 40+carbon source
3149353426tween 80+carbon source
3149318222xylose+carbon source
11723217632nitrate-reduction
11723216301nitrite-reduction

metabolite production

  • @ref: 117232
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
31493catalase+1.11.1.6
31493cytochrome oxidase+1.9.3.1
117232oxidase+
117232alcohol dehydrogenase+1.1.1.1
117232catalase+1.11.1.6
117232lysine decarboxylase-4.1.1.18
117232ornithine decarboxylase-4.1.1.17
117232urease-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
117232-+++-+--------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
17250sea waterSouth SeaRepublic of KoreaKORAsia
67770SeawaterRepublic of KoreaKORAsia
67771From jeotgalRepublic of KoreaKORAsia
117232Environment, Sea waterSouth SeaRepublic of KoreaKORAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Marine

taxonmaps

  • @ref: 69479
  • File name: preview.99_22719.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_80;96_193;97_209;98_4714;99_22719&stattab=map
  • Last taxonomy: Psychrobacter celer
  • 16S sequence: AY842259
  • Sequence Identity:
  • Total samples: 229
  • soil counts: 4
  • aquatic counts: 90
  • animal counts: 134
  • plant counts: 1

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
172501Risk group (German classification)
1172321Risk group (French classification)

Sequence information

16S sequences

  • @ref: 17250
  • description: Psychrobacter celer 16S ribosomal RNA gene, partial sequence
  • accession: AY842259
  • length: 1495
  • database: ena
  • NCBI tax ID: 306572

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Psychrobacter celer DSM 23510GCA_016107555contigncbi306572
66792Psychrobacter celer strain DSM 23510306572.5wgspatric306572

GC content

@refGC-contentmethod
1725047.6high performance liquid chromatography (HPLC)
3149347.6

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveno98.187yes
anaerobicno98.975no
halophileyes81.991no
spore-formingno97.234yes
glucose-utilno53.379yes
motileno87.715yes
flagellatedno92.705no
aerobicyes83.436no
thermophileno99.359yes
glucose-fermentno93.731no

External links

@ref: 17250

culture collection no.: DSM 23510, JCM 12601, KCTC 12313, CIP 109014

straininfo link

  • @ref: 77610
  • straininfo: 232816

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16166683Psychrobacter celer sp. nov., isolated from sea water of the South Sea in Korea.Yoon JH, Lee CH, Kang SJ, Oh TKInt J Syst Evol Microbiol10.1099/ijs.0.63682-02005Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Korea, Molecular Sequence Data, Phenotype, Phylogeny, Psychrobacter/*classification/genetics/isolation & purification/physiology, RNA, Ribosomal, 16S, Seawater/*microbiology, Sequence Analysis, DNAGenetics
Phylogeny19717579Psychrobacter aestuarii sp. nov., isolated from a tidal flat sediment.Baik KS, Park SC, Lim CH, Lee KH, Jeon DY, Kim CM, Seong CNInt J Syst Evol Microbiol10.1099/ijs.0.016782-02009Base Sequence, Fatty Acids/analysis, Geologic Sediments/*microbiology, Molecular Sequence Data, Phylogeny, Psychrobacter/*classification/genetics/isolation & purification/physiology, RNA, Ribosomal, 16S/genetics, Seawater/*microbiologyGenetics
Phylogeny35037845Psychrobacter halodurans sp. nov. and Psychrobacter coccoides sp. nov., two new slightly halophilic bacteria isolated from marine sediment.Shang DD, Yang GJ, Chen GJ, Du ZJInt J Syst Evol Microbiol10.1099/ijsem.0.0051732022Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Phospholipids/chemistry, *Phylogeny, *Psychrobacter/classification/isolation & purification, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
17250Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23510)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23510
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
31493Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2779128776041
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/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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
77610Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID232816.1StrainInfo: A central database for resolving microbial strain identifiers
117232Curators of the CIPCollection of Institut Pasteur (CIP 109014)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109014