Strain identifier

BacDive ID: 17407

Type strain: Yes

Species: Ancylobacter oerskovii

Strain Designation: NS05

Strain history: <- N. Sahin, Mugla University; NS 5

NCBI tax ID(s): 459519 (species)

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General

@ref: 7681

BacDive-ID: 17407

DSM-Number: 18746

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

description: Ancylobacter oerskovii NS05 is an aerobe, Gram-negative, coccus-shaped bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 459519
  • Matching level: species

strain history

  • @ref: 7681
  • history: <- N. Sahin, Mugla University; NS 5

doi: 10.13145/bacdive17407.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Xanthobacteraceae
  • genus: Ancylobacter
  • species: Ancylobacter oerskovii
  • full scientific name: Ancylobacter oerskovii Lang et al. 2008

@ref: 7681

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Xanthobacteraceae

genus: Ancylobacter

species: Ancylobacter oerskovii

full scientific name: Ancylobacter oerskovii Lang et al. 2008

strain designation: NS05

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
32546negative0.9-1.7 µm0.5-0.6 µmcoccus-shapedno
69480negative97

pigmentation

  • @ref: 32546
  • production: no

Culture and growth conditions

culture medium

  • @ref: 7681
  • name: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1a
  • composition: Name: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperature
7681positivegrowth30
32546positivegrowth30-40
32546positiveoptimum30
61234positivegrowth30

culture pH

@refabilitytypepH
32546positivegrowth7
32546positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
32546aerobe
61234aerobe

spore formation

@refspore formationconfidence
32546no
69481no100

halophily

@refsaltgrowthtested relationconcentration
32546NaClpositivegrowth4 %
32546NaClpositiveoptimum4 %

observation

  • @ref: 32546
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3254622599arabinose+carbon source
3254618403L-arabitol+carbon source
3254628757fructose+carbon source
3254633984fucose+carbon source
3254628260galactose+carbon source
3254617234glucose+carbon source
3254625115malate+carbon source
3254615792malonate+carbon source
3254629864mannitol+carbon source
3254626546rhamnose+carbon source
3254630911sorbitol+carbon source
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
32546cytochrome oxidase+1.9.3.1
32546urease+3.5.1.5
68369cytochrome oxidase-1.9.3.1
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease+3.5.1.5
68369arginine dihydrolase-3.5.3.6
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
61234--+--++-+-+---------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
61234----++-+++-+--+--+---

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
7681soilMuglaTurkeyTURAsia
61234Soil,enrichment in mineral medium with oxaleteMuglaTurkeyTURAsia

isolation source categories

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

Safety information

risk assessment

  • @ref: 7681
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 7681
  • description: Ancylobacter oerskovii partial 16S rRNA gene, type strain DSM 18746T
  • accession: AM778407
  • length: 1459
  • database: nuccore
  • NCBI tax ID: 459519

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Ancylobacter oerskovii CCM 7435GCA_018390555scaffoldncbi459519
66792Ancylobacter oerskovii strain CCM 7435459519.3wgspatric459519

GC content

  • @ref: 32546
  • GC-content: 68

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno100no
69480gram-positivegram-positivePositive reaction to Gram-stainingno97yes
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no96.488yes
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes84.853no
69480spore-formingspore-formingAbility to form endo- or exosporesno87.877yes
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno97.999yes
69480flagellatedmotile2+Ability to perform flagellated movementno56.587no

External links

@ref: 7681

culture collection no.: DSM 18746, CCM 7435, CCUG 57200, NEU 1212

straininfo link

  • @ref: 86405
  • straininfo: 405165

literature

  • topic: Phylogeny
  • Pubmed-ID: 18768594
  • title: Description of Ancylobacter oerskovii sp. nov. and two additional strains of Ancylobacter polymorphus.
  • authors: Lang E, Swiderski J, Stackebrandt E, Schumann P, Sproer C, Sahin N
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.65666-0
  • year: 2008
  • mesh: Alphaproteobacteria/chemistry/*classification/genetics/*isolation & purification, Bacterial Typing Techniques, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, *Soil Microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
7681Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18746)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18746
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
32546Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2876428776041
61234Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 57200)https://www.ccug.se/strain?id=57200
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
86405Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID405165.1StrainInfo: A central database for resolving microbial strain identifiers