Strain identifier

BacDive ID: 2380

Type strain: Yes

Species: Oerskovia enterophila

Strain Designation: DFA-19

Strain history: CIP <- 2002, JCM <- IMET <- K. Marialigeti: strain DFA-19

NCBI tax ID(s): 43678 (species)

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General

@ref: 11334

BacDive-ID: 2380

DSM-Number: 43852

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic

description: Oerskovia enterophila DFA-19 is an aerobe, mesophilic bacterium that was isolated from millipede faeces .

NCBI tax id

  • NCBI tax id: 43678
  • Matching level: species

strain history

@refhistory
11334<- I. Szabo, Univ. Budapest, Ungarn, DFA-19=HMGB B1078
67770IAM 14864 <-- IFO 14295 <-- K. Márialigeti DFA-19.
119084CIP <- 2002, JCM <- IMET <- K. Marialigeti: strain DFA-19

doi: 10.13145/bacdive2380.20230509.8.1

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 enterophila
  • full scientific name: Oerskovia enterophila (Jáger et al. 1983) Stackebrandt et al. 2002

  • synonyms

    • @ref: 20215
    • synonym: Promicromonospora enterophila

@ref: 11334

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Promicromonosporaceae

genus: Oerskovia

species: Oerskovia enterophila

full scientific name: Oerskovia enterophila (Jáger et al. 1983) Stackebrandt et al. 2002

strain designation: DFA-19

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no91.875
69480100positive
119084nopositiverod-shaped

colony morphology

  • @ref: 119084

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11334TRYPTICASE 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
11334GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
40475MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
119084CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
11334positivegrowth28mesophilic
40475positivegrowth30mesophilic
57522positivegrowth30mesophilic
67770positivegrowth28mesophilic
119084positivegrowth15-30
119084nogrowth10psychrophilic
119084nogrowth37mesophilic
119084nogrowth41thermophilic
119084nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
57522aerobe
119084facultative anaerobe

spore formation

@refspore formationconfidence
69481no95
69480no98.805

halophily

@refsaltgrowthtested relationconcentration
119084NaClpositivegrowth0-4 %
119084NaClnogrowth6 %
119084NaClnogrowth8 %
119084NaClnogrowth10 %

murein

  • @ref: 11334
  • murein short key: A11.57
  • type: A4alpha L-Lys-L-Thr-D-Glu

observation

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

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate+builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371xylitol-builds acid from17151
68371glycogen+builds acid from28087
68371starch+builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371melibiose-builds acid from28053
68371maltose+builds acid from17306
68371cellobiose+builds acid from17057
68371salicin+builds acid from17814
68371esculin+builds acid from4853
68371arbutin+builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-glucose+builds acid from17634
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose+builds acid from65327
68371D-ribose+builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
119084citrate-carbon source16947
119084esculin+hydrolysis4853
119084hippurate-hydrolysis606565
119084nitrate+reduction17632
119084nitrite-reduction16301
119084nitrate-respiration17632

antibiotic resistance

  • @ref: 119084
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

  • @ref: 119084
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11908415688acetoin-
11908417234glucose+

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
119084oxidase-
119084beta-galactosidase-3.2.1.23
119084alcohol dehydrogenase-1.1.1.1
119084gelatinase+/-
119084amylase+
119084DNase+
119084caseinase+3.4.21.50
119084catalase+1.11.1.6
119084tween esterase-
119084gamma-glutamyltransferase-2.3.2.2
119084lecithinase+
119084lipase-
119084lysine decarboxylase-4.1.1.18
119084ornithine decarboxylase-4.1.1.17
119084phenylalanine ammonia-lyase-4.3.1.24
119084tryptophan deaminase-
119084urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
119084--++-+-----+-+-+++--

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
119084+/----++---+/-++/-+/---------+-++++++/--+/-+/----++-+/-+/-------+--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
119084+++++--+-+++---++-++-++--------+--++-----------------------++-------------------------+------------

Isolation, sampling and environmental information

isolation

@refsample typehost speciescountryorigin.countrycontinent
11334millipede faeces (Chromatoiulus projectus)Chromatoiulus projectus
57522Fresh fecal pellets of Chromatoiulus projectusHungaryHUNEurope
67770Fresh fecal pellets of millipede (Chromatoiulus projectus)Chromatoiulus projectusHungaryHUNEurope
119084Fresh fecal pellets of millipedeHungaryHUNEurope

isolation source categories

Cat1Cat2Cat3
#Host#Arthropoda
#Host Body Product#Gastrointestinal tract#Feces (Stool)

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: X83807
  • 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
113341Risk group (German classification)
1190841Risk group (French classification)

Sequence information

16S sequences

  • @ref: 11334
  • description: P.enterophila 16S rRNA gene
  • accession: X83807
  • length: 1451
  • database: ena
  • NCBI tax ID: 43678

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Oerskovia enterophila strain DSM 4385243678.6wgspatric43678
66792Oerskovia enterophila DSM 438522833465287draftimg43678
66792Oerskovia enterophila DFA-192681812870draftimg43678
67770Oerskovia enterophila DSM 43852GCA_001692445contigncbi43678

GC content

  • @ref: 11334
  • GC-content: 71

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno95no
gram-positiveyes91.132no
anaerobicno99.036no
halophileno93.398no
spore-formingno82.831no
glucose-utilyes89.079no
aerobicyes91.834yes
flagellatedno97.772no
thermophileno99.598yes
motileno88.805no
glucose-fermentno73.994no

External links

@ref: 11334

culture collection no.: DSM 43852, ATCC 35307, HMGB B 1078, IFO 14295, IMET 7687, JCM 7350, NBRC 14295, NRRL B-16223, CCUG 47127, CIP 107637, IAM 14864, JCM 21363, VKM Ac-1048, VTT E-072708

straininfo link

  • @ref: 71935
  • straininfo: 45011

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
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
Genetics27634998Genome Sequence of the Facultative Anaerobe Oerskovia enterophila DFA-19 (DSM 43852T).Jag V, Poehlein A, Bengelsdorf FR, Daniel R, Durre PGenome Announc10.1128/genomeA.00973-162016

Reference

@idauthorscataloguedoi/urltitle
11334Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43852)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43852
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
40475Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5095
57522Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 47127)https://www.ccug.se/strain?id=47127
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
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)
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
71935Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID45011.1StrainInfo: A central database for resolving microbial strain identifiers
119084Curators of the CIPCollection of Institut Pasteur (CIP 107637)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107637