Strain identifier

BacDive ID: 2381

Type strain: Yes

Species: Oerskovia paurometabola

Strain history: CIP <- 2004, CCUG <- 2002, LMG <- 2001, DSMZ <- 2000, K. Martin <- 1991, H. Prauser, IMET

NCBI tax ID(s): 162170 (species)

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General

@ref: 5298

BacDive-ID: 2381

DSM-Number: 14281

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

description: Oerskovia paurometabola CCUG 47105 is an aerobe, mesophilic, rod-shaped bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 162170
  • Matching level: species

strain history

@refhistory
5298<- IMET <- H. Prauser; 369-74 (Oerskovia turbata)
67770DSM 14281 <-- IMET 7003 <-- H. Prauser 369-74 (Oerskovia turbata).
121639CIP <- 2004, CCUG <- 2002, LMG <- 2001, DSMZ <- 2000, K. Martin <- 1991, H. Prauser, IMET

doi: 10.13145/bacdive2381.20230509.8.1

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 paurometabola
  • full scientific name: Oerskovia paurometabola Stackebrandt et al. 2002

@ref: 5298

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Promicromonosporaceae

genus: Oerskovia

species: Oerskovia paurometabola

full scientific name: Oerskovia paurometabola Stackebrandt et al. 2002

type strain: yes

Morphology

cell morphology

  • @ref: 121639
  • cell shape: rod-shaped
  • motility: no

colony morphology

@refcolony colorincubation periodmedium used
18292Green beige (1000)10-14 daysISP 2
18292Green beige (1000)10-14 daysISP 3
18292Green beige (1000)10-14 daysISP 4
18292Green beige (1000)10-14 daysISP 5
18292Green beige (1000)10-14 daysISP 6
18292Green beige (1000)10-14 daysISP 7
121639

multicellular morphology

@refforms multicellular complexmedium name
18292noISP 2
18292noISP 3
18292noISP 4
18292noISP 5
18292noISP 6
18292noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5298TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
18292ISP 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
18292ISP 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:
18292ISP 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
18292ISP 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
18292ISP 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
18292ISP 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
36710MEDIUM 338 - for Sanguibacter keddieiiyesDistilled water make up to (1000.000 ml);Agar (15.000 g);Yeast extract (3.000 g);Trypto casein soy agar (30.000 g)
121639CIP Medium 338yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=338

culture temp

@refgrowthtypetemperaturerange
18292positiveoptimum28mesophilic
5298positivegrowth28mesophilic
36710positivegrowth30mesophilic
57512positivegrowth20-37
67770positivegrowth28mesophilic
121639positivegrowth10-30
121639nogrowth37mesophilic
121639nogrowth41thermophilic
121639nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
57512aerobe
121639facultative anaerobe

halophily

@refsaltgrowthtested relationconcentration
121639NaClpositivegrowth0-4 %
121639NaClnogrowth6 %
121639NaClnogrowth8 %
121639NaClnogrowth10 %

murein

  • @ref: 5298
  • murein short key: A11.57
  • type: A4alpha L-Lys-L-Thr-D-Glu

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1829262968cellulose-
1829216634raffinose+
1829226546rhamnose-
1829228757fructose+
1829229864mannitol-
1829217268myo-inositol-
1829218222xylose-
1829217992sucrose+
1829222599arabinose+
1829217234glucose+
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate+builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose+builds acid from
6837128066gentiobiose+builds acid from
6837117151xylitol-builds acid from
6837128087glycogen+builds acid from
6837128017starch+builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose+builds acid from
6837117992sucrose+builds acid from
6837117306maltose+builds acid from
6837117057cellobiose+builds acid from
6837117814salicin+builds acid from
683714853esculin+builds acid from
6837118305arbutin+builds acid from
6837159640N-acetylglucosamine+builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose+builds acid from
6837117634D-glucose+builds acid from
6837112936D-galactose+builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose+builds acid from
6837116988D-ribose+builds acid from
6837130849L-arabinose+builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
12163916947citrate-carbon source
1216394853esculin+hydrolysis
121639606565hippurate-hydrolysis
12163917632nitrate+reduction
12163916301nitrite-reduction
12163917632nitrate+respiration
6837917632nitrate+reduction
683794853esculin+hydrolysis
6837916199urea+hydrolysis
683795291gelatin-hydrolysis
6837917634D-glucose+fermentation
6837916988D-ribose+fermentation
6837965327D-xylose+fermentation
6837916899D-mannitol-fermentation
6837917306maltose+fermentation
6837917716lactose+fermentation
6837917992sucrose+fermentation
6837928087glycogen+fermentation

antibiotic resistance

  • @ref: 121639
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 121639
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12163915688acetoin-
12163917234glucose+

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-galactosidase+3.2.1.23
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
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
121639oxidase-
121639beta-galactosidase+3.2.1.23
121639alcohol dehydrogenase-1.1.1.1
121639gelatinase+/-
121639amylase+
121639DNase+
121639caseinase+3.4.21.50
121639catalase+1.11.1.6
121639tween esterase+
121639gamma-glutamyltransferase-2.3.2.2
121639lecithinase+
121639lipase-
121639lysine decarboxylase-4.1.1.18
121639ornithine decarboxylase-4.1.1.17
121639phenylalanine ammonia-lyase-4.3.1.24
121639protease-
121639tryptophan deaminase-
121639urease+3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    57512C14:02.214
    57512C15:01.415
    57512C16:0716
    57512C17:00.417
    57512C18:01.118
    57512C14:0 ISO0.313.618
    57512C15:0 ANTEISO54.514.711
    57512C15:0 ISO5.314.621
    57512C16:0 iso3.415.626
    57512C17:0 anteiso20.116.722
    57512C17:0 iso0.416.629
    57512C18:1 ω9c1.417.769
    57512C18:2 ω6,9c/C18:0 ANTE2.617.724
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
18292+-++-+++++-+++-++++

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
18292+++-+++--++++++++--
121639-++-++---++-+-+++---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
121639+/---+++---+++/-+--------++/-++++++/-+/-++---++-++------+--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
121639+++++--+-++++--++-++++---------+---+-----------------------++-------------------------+------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationisolation date
5298soilCarpathian Mountains
57512Soil,leafy woodCarpathian Mountains
67770Soil
121639Environment, Soil, leafy woodCarpathian mountains1991

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: AJ314851
  • Sequence Identity:
  • Total samples: 10823
  • soil counts: 3597
  • aquatic counts: 1485
  • animal counts: 1997
  • plant counts: 3744

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
52981Risk group (German classification)
182921Hazard group
1216391Risk group (French classification)

Sequence information

16S sequences

  • @ref: 5298
  • description: Oerskovia paurometabola 16S rRNA gene, strain DSM 14281
  • accession: AJ314851
  • length: 1486
  • database: ena
  • NCBI tax ID: 162170

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Oerskovia paurometabola DSM 14281GCA_016907365contigncbi162170
66792Oerskovia paurometabola strain DSM 14281162170.3wgspatric162170
66792Oerskovia paurometabola DSM 142812893546927draftimg162170

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes74.66no
gram-positiveyes89.413no
anaerobicno98.983yes
aerobicyes91.361yes
halophileno92.432no
spore-formingno78.226no
thermophileno99.433yes
glucose-utilyes87.494yes
flagellatedno88.586no
glucose-fermentno69.371no

External links

@ref: 5298

culture collection no.: CCUG 47105, CIP 108256, DSM 14281, IMET 7003, JCM 11755, LMG 20385, NBRC 106154

straininfo link

  • @ref: 71936
  • straininfo: 87944

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny12148614Re-evaluation of the status of the genus Oerskovia, reclassification of Promicromonospora enterophila (Jager et al. 1983) as Oerskovia enterophila comb. nov. and description of Oerskovia jenensis sp. nov. and Oerskovia paurometabola sp. nov.Stackebrandt E, Breymann S, Steiner U, Prauser H, Weiss N, Schumann PInt J Syst Evol Microbiol10.1099/00207713-52-4-11052002Actinomycetales/chemistry/*classification/genetics, Bacterial Typing Techniques, Cellulomonas/chemistry/classification/genetics, DNA, Ribosomal/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/analysis, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Ribotyping, Sequence Analysis, DNAGenetics
Phylogeny19605707Paraoerskovia marina gen. nov., sp. nov., an actinobacterium isolated from marine sediment.Khan ST, Harayama S, Tamura T, Ando K, Takagi M, Kazuo SYInt J Syst Evol Microbiol10.1099/ijs.0.007666-02009Actinomycetales/*classification/genetics/*isolation & purification/physiology, Aerobiosis, Base Composition, Cell Wall/chemistry, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Geologic Sediments/*microbiology, Japan, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Serine/analysisGenetics

Reference

@idauthorscataloguedoi/urltitle
5298Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14281)https://www.dsmz.de/collection/catalogue/details/culture/DSM-14281
18292Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM14281.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
36710Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5858
57512Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 47105)https://www.ccug.se/strain?id=47105
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/
68371Automatically annotated from API 50CH acid
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
71936Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID87944.1StrainInfo: A central database for resolving microbial strain identifiers
121639Curators of the CIPCollection of Institut Pasteur (CIP 108256)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108256