Strain identifier

BacDive ID: 1903

Type strain: Yes

Species: Pseudochrobactrum lubricantis

Strain history: <- CCUG <- P. Kämpfer, Univ. Giessen, Germany <- K. Nehrenheim, Germany

NCBI tax ID(s): 558172 (species)

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: 17372

BacDive-ID: 1903

DSM-Number: 23782

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

description: Pseudochrobactrum lubricantis DSM 23782 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from water mixed metal working fluid.

NCBI tax id

  • NCBI tax id: 558172
  • Matching level: species

strain history

  • @ref: 17372
  • history: <- CCUG <- P. Kämpfer, Univ. Giessen, Germany <- K. Nehrenheim, Germany

doi: 10.13145/bacdive1903.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Brucellaceae
  • genus: Pseudochrobactrum
  • species: Pseudochrobactrum lubricantis
  • full scientific name: Pseudochrobactrum lubricantis Kämpfer et al. 2009

@ref: 17372

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Brucellaceae

genus: Pseudochrobactrum

species: Pseudochrobactrum lubricantis

full scientific name: Pseudochrobactrum lubricantis Kämpfer et al. 2009

type strain: yes

Morphology

cell morphology

  • @ref: 23348
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

colony morphology

@reftype of hemolysiscolony sizecolony colorcolony shapeincubation period
17372gamma
233482 mmbeige, translucentcircular1 day
611431 day

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
17372R2A 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
23348MacConkeyyes
23348Nutrient agar (NA)yes
23348Reasoner's 2A agar (R2A)yes
23348Tryptone soy agaryes

culture temp

@refgrowthtypetemperaturerange
17372positivegrowth30mesophilic
61143positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 61143
  • oxygen tolerance: aerobe

spore formation

  • @ref: 23348
  • spore formation: no

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2334865327D-xylose-assimilation
23348370543-hydroxybutyrate-assimilation
2334830849L-arabinose-assimilation
2334862345L-rhamnose-assimilation
2334816865gamma-aminobutyric acid+assimilation
2334816958beta-alanine+assimilation
2334815824D-fructose+assimilation
2334812936D-galactose+assimilation
2334817634D-glucose+assimilation
2334816024D-mannose+assimilation
2334816988D-ribose+assimilation
2334824996lactate+assimilation
2334829806fumarate+assimilation
2334817859glutaric acid+assimilation
2334829991L-aspartate+assimilation
2334815971L-histidine+assimilation
2334815589L-malate+assimilation
23348506227N-acetylglucosamine+assimilation
2334818257ornithine+assimilation
2334817272propionate+assimilation
2334815361pyruvate+assimilation
2334816383cis-aconitate+/-assimilation
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
17372catalase+1.11.1.6
17372cytochrome-c oxidase+1.9.3.1
23348cytochrome oxidase+1.9.3.1
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
17372----+---+-+-+----+--+

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentenrichment culturesampling date
17372water mixed metal working fluidGermanyDEUEurope
23348tryptone soy agar
61143Water mixed metal working fluidGermanyDEUEurope2000

isolation source categories

Cat1Cat2
#Engineered#Contamination
#Environmental#Aquatic

taxonmaps

  • @ref: 69479
  • File name: preview.99_3029.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_1591;97_1899;98_2331;99_3029&stattab=map
  • Last taxonomy: Pseudochrobactrum
  • 16S sequence: FM209496
  • Sequence Identity:
  • Total samples: 1773
  • soil counts: 281
  • aquatic counts: 437
  • animal counts: 988
  • plant counts: 67

Safety information

risk assessment

  • @ref: 17372
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17372
  • description: Pseudochrobactrum sp. KSS 7.8 partial 16S rRNA gene, type strain KSS 7.8T
  • accession: FM209496
  • length: 1401
  • database: ena
  • NCBI tax ID: 558172

External links

@ref: 17372

culture collection no.: DSM 23782, CCM 7581, CCUG 56963, KSS 7.8

straininfo link

  • @ref: 71547
  • straininfo: 396774

literature

  • topic: Phylogeny
  • Pubmed-ID: 19622660
  • title: Pseudochrobactrum lubricantis sp. nov., isolated from a metal-working fluid.
  • authors: Kampfer P, Huber B, Lodders N, Warfolomeow I, Busse HJ, Scholz HC
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.008540-0
  • year: 2009
  • mesh: Bacterial Typing Techniques, Brucellaceae/classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Water Microbiology
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
17372Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23782)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23782
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
23348Peter Kämpfer, Birgit Huber, Nicole Lodders, Isabel Warfolomeow, Hans-Jürgen Busse, Holger C. Scholz10.1099/ijs.0.008540-0Pseudochrobactrum lubricantis sp. nov., isolated from a metal-working fluidIJSEM 59: 2464-2467 200919622660
61143Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 56963)https://www.ccug.se/strain?id=56963
68369Automatically annotated from API 20NE
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
71547Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID396774.1StrainInfo: A central database for resolving microbial strain identifiers