We are hiring!

Strain identifier

BacDive ID: 2378

Type strain: Yes

Species: Oerskovia turbata

Strain Designation: 27, AB 1476, N32

Strain history: KCC A-0160 <-- IMRU 689 <-- Statens Serum Inst., Copenhagen, Denmark; 891 (Ørskov's strain 27).

NCBI tax ID(s): 1322249 (strain), 1713 (species)

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

General

@ref: 8927

BacDive-ID: 2378

DSM-Number: 20577

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, human pathogen

description: Oerskovia turbata 27 is a mesophilic human pathogen that was isolated from soil.

NCBI tax id

NCBI tax idMatching level
1713species
1322249strain

strain history

doi: 10.13145/bacdive2378.20221219.7.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Promicromonosporaceae
  • genus: Oerskovia
  • species: Oerskovia turbata
  • full scientific name: Oerskovia turbata (Erikson 1954) Prauser et al. 1970 (Approved Lists 1980)
  • synonyms

    @refsynonym
    20215Nocardia turbata
    20215Cellulomonas turbata

@ref: 8927

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Promicromonosporaceae

genus: Oerskovia

species: Oerskovia turbata

full scientific name: Oerskovia turbata (Erikson 1954) Prauser et al. 1970 emend. Nouioui et al. 2018

strain designation: 27, AB 1476, N32

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 99.109

colony morphology

@refcolony colorincubation periodmedium used
18449Beige (1001)10-14 daysISP 2
18449Sulfur yellow (1016)10-14 daysISP 3
18449Broom yellow (1032)10-14 daysISP 4
18449Broom yellow (1032)10-14 daysISP 5
18449Broom yellow (1032)10-14 daysISP 6
18449Broom yellow (1032)10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
18449noISP 2
18449noISP 3
18449noISP 4
18449noISP 5
18449noISP 6
18449noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8927CORYNEBACTERIUM AGAR (DSMZ Medium 53)yeshttps://mediadive.dsmz.de/medium/53Name: CORYNEBACTERIUM AGAR (DSMZ Medium 53) Composition: Agar 15.0 g/l Casein peptone 10.0 g/l NaCl 5.0 g/l Glucose 5.0 g/l Yeast extract 5.0 g/l Distilled water
18449ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
18449ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
18449ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
18449ISP 5yesName: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
18449ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
18449ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
38084MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)

culture temp

@refgrowthtypetemperaturerange
18449positiveoptimum30mesophilic
8927positivegrowth30mesophilic
38084positivegrowth30mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 92.031

halophily

@refsaltgrowthtested relationconcentrationhalophily levelconfidence
18449NaClpositivemaximum7.5 %
69480non-halophilic97.133

murein

  • @ref: 8927
  • murein short key: A11.45
  • type: A4alpha L-Lys-L-Thr-D-Asp

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4), MK-9(II,III-H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1844917234glucose+
1844922599arabinose+
1844917992sucrose+
1844918222xylose-
1844917268myo-inositol-
1844929864mannitol-
1844928757fructose+
1844926546rhamnose-
1844916634raffinose-
1844962968cellulose-
6837928087glycogen+fermentation
6837917992sucrose+fermentation
6837917716lactose+fermentation
6837917306maltose+fermentation
6837916899D-mannitol+fermentation
6837965327D-xylose+fermentation
6837916988D-ribose+fermentation
6837917634D-glucose+fermentation
683795291gelatin-hydrolysis
6837916199urea-hydrolysis
683794853esculin+hydrolysis
6837917632nitrate+reduction
683685291gelatin-hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin+
6836835581indole-

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382beta-glucosidase+3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase+3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
68379gelatinase-
68379urease-3.5.1.5
68379beta-glucosidase+3.2.1.21
68379N-acetyl-beta-glucosaminidase+3.2.1.52
68379alpha-glucosidase+3.2.1.20
68379beta-galactosidase+3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase+3.1.3.1
68379pyrrolidonyl arylamidase+3.4.19.3
68379pyrazinamidase-3.5.1.B15
68368gelatinase-
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase-3.2.1.23

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
18449+-++-++++--++++++++

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
18449+++-++---++-+-+++--

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
18449---------+-

Isolation, sampling and environmental information

isolation

  • @ref: 8927
  • sample type: soil

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_702.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_432;97_493;98_564;99_702&stattab=map
  • Last taxonomy: Oerskovia
  • 16S sequence: X79454
  • Sequence Identity:
  • Total samples: 10823
  • soil counts: 3597
  • aquatic counts: 1485
  • animal counts: 1997
  • plant counts: 3744

Safety information

risk assessment

  • @ref: 8927
  • pathogenicity human: yes, in single cases
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218C.turbata 16S rRNA geneX838061451ena1322249
20218Oerskovia turbata NCIMB 10587 16S rDNAX794541510ena1322249

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Oerskovia turbata strain JCM31601713.5wgspatric1713
67770Oerskovia turbata NRRL B-8019GCA_000718325contigncbi1713
67770Oerskovia turbata JCM3160GCA_004121315contigncbi1713
66792Klebsiella pneumoniae 4300STDY6636935GCA_900494355scaffoldpatric573

GC content

@refGC-contentmethod
892770.5
6777072.2genome sequence analysis
6777072.3high performance liquid chromatography (HPLC)

External links

@ref: 8927

culture collection no.: DSM 20577, ATCC 25835, CIP 100331, DSM 43880, JCM 3160, NCIB 10587, CCM 4093, CFBP 4266, CGMCC 4.1139, CIP 81.27, IAM 14867, IFM 10527, IFO 13506, IFO 15015, IMET 7405, IMSNU 21326, KCCM 12155, KCTC 9084, LMG 4072, NBRC 13506, NBRC 15015, NCIMB 10587, NCTC 11973, NRRL B-8019, RIA 1564, VKM Ac-1024

straininfo link

@refpassport
20218http://www.straininfo.net/strains/52048
20218http://www.straininfo.net/strains/52046
20218http://www.straininfo.net/strains/149749
20218http://www.straininfo.net/strains/52049
20218http://www.straininfo.net/strains/52055
20218http://www.straininfo.net/strains/52058

literature

  • topic: Phylogeny
  • Pubmed-ID: 31980859
  • title: Isolation, Substrate Specificity, and Subunit Characterization of the Xylanosomes Produced by Oerskovia turbata JCM 3160.
  • authors: Dou TY, Liu WJ, Chen J
  • journal: Curr Microbiol
  • DOI: 10.1007/s00284-020-01887-7
  • year: 2020
  • mesh: Actinobacteria/classification/*enzymology/genetics/metabolism, Bacterial Proteins/*chemistry/genetics/isolation & purification/*metabolism, Genome, Bacterial/genetics, Molecular Weight, Multienzyme Complexes/chemistry/genetics/isolation & purification/metabolism, Phylogeny, Polysaccharides/metabolism, Protein Subunits/chemistry/genetics, Proteomics, Substrate Specificity, Xylans/metabolism
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8927Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20577)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20577
18449Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM20577.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
38084Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/11784
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/
68368Automatically annotated from API 20E
68379Automatically annotated from API Coryne
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
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)