Strain identifier

BacDive ID: 13205

Type strain: Yes

Species: Actinokineospora enzanensis

Strain Designation: YU 924-101

Strain history: CIP <- 2003, NBRC <- M. Hayakawa, Yamanashi Univ., Kofu, Yamanashi, Japan: strain YU 924-101

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General

@ref: 11958

BacDive-ID: 13205

DSM-Number: 44649

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, spore-forming, mesophilic, Gram-positive

description: Actinokineospora enzanensis YU 924-101 is an obligate aerobe, spore-forming, mesophilic bacterium that was isolated from forest soil.

NCBI tax id

NCBI tax idMatching level
1120934strain
155975species

strain history

@refhistory
11958<- M. Otoguro; YU 924-101
67770IFO 16517 <-- M. Hayakawa YU 924-101.
119088CIP <- 2003, NBRC <- M. Hayakawa, Yamanashi Univ., Kofu, Yamanashi, Japan: strain YU 924-101

doi: 10.13145/bacdive13205.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Pseudonocardiales
  • family: Pseudonocardiaceae
  • genus: Actinokineospora
  • species: Actinokineospora enzanensis
  • full scientific name: Actinokineospora enzanensis Otoguro et al. 2003

@ref: 11958

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Pseudonocardiaceae

genus: Actinokineospora

species: Actinokineospora enzanensis

full scientific name: Actinokineospora enzanensis Otoguro et al. 2003

strain designation: YU 924-101

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480positive100
119088positivefilament-shapedno

colony morphology

  • @ref: 119088

multimedia

@refmultimedia contentcaptionintellectual property rights
11958https://www.dsmz.de/microorganisms/photos/DSM_44649-Nutrient.jpgNutrient© Leibniz-Institut DSMZ
11958https://www.dsmz.de/microorganisms/photos/DSM_44649.jpgMedium 548 28°C© Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11958BENNETT'S AGAR (DSMZ Medium 548)yeshttps://mediadive.dsmz.de/medium/548Name: BENNETT'S AGAR (DSMZ Medium 548) Composition: Agar 15.0 g/l Glucose 10.0 g/l N-Z amine 2.0 g/l Yeast extract 1.0 g/l Beef extract 1.0 g/l Distilled water
11958NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
34378MEDIUM 116 - for Streptomyces, Nocardia, Streptosporangium and Mycobacterium chlorophenolicumyesDistilled water make up to (1000.000 ml);Agar (20.000 g);Glucose (4.000g);Yeast extract (4.000 g);Malt extract (10.000 g)
119088CIP Medium 116yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=116

culture temp

@refgrowthtypetemperaturerange
11958positivegrowth28mesophilic
34378positivegrowth30mesophilic
67770positivegrowth28mesophilic
119088positivegrowth25-30mesophilic
119088nogrowth10psychrophilic
119088nogrowth37mesophilic
119088nogrowth41thermophilic
119088nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 119088
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481yes100
69480yes100

halophily

@refsaltgrowthtested relationconcentration
119088NaClpositivegrowth0-2 %
119088NaClnogrowth4 %
119088NaClnogrowth6 %
119088NaClnogrowth8 %
119088NaClnogrowth10 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836817632nitrate-reduction
6836830849L-arabinose-fermentation
6836827613amygdalin-fermentation
6836828053melibiose-fermentation
6836817992sucrose-fermentation
6836862345L-rhamnose-fermentation
6836830911sorbitol-fermentation
6836817268myo-inositol-fermentation
6836816899D-mannitol-fermentation
6836817634D-glucose-fermentation
683685291gelatin-hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis
11908816947citrate-carbon source
1190884853esculin-hydrolysis
119088606565hippurate-hydrolysis
11908817632nitrate+reduction
11908816301nitrite-reduction
11908817632nitrate-respiration

antibiotic resistance

  • @ref: 119088
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836817997dinitrogenno
6836816301nitriteno
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno
11908835581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6836815688acetoin+
6836835581indole-
11908815688acetoin-
11908817234glucose-

enzymes

@refvalueactivityec
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
119088oxidase-
119088beta-galactosidase+3.2.1.23
119088alcohol dehydrogenase-1.1.1.1
119088gelatinase+/-
119088amylase+
119088DNase-
119088caseinase+3.4.21.50
119088catalase+1.11.1.6
119088tween esterase-
119088gamma-glutamyltransferase+2.3.2.2
119088lecithinase-
119088lipase-
119088lysine decarboxylase-4.1.1.18
119088ornithine decarboxylase-4.1.1.17
119088phenylalanine ammonia-lyase-4.3.1.24
119088protease-
119088tryptophan deaminase-
119088urease-3.5.1.5
68382lipase (C 14)-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
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
11958-----+/---------------
119088-+++-++---++---+----

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARANO2N2
11958---------+------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
11958forest soilYamanashiJapanJPNAsia
67770Level-land forest soilJapanJPNAsia
119088Environment, Soil, Level-land forestJapanJPNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Forest
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_626.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_394;97_444;98_508;99_626&stattab=map
  • Last taxonomy: Actinokineospora enzanensis subclade
  • 16S sequence: AB058395
  • Sequence Identity:
  • Total samples: 107
  • soil counts: 55
  • aquatic counts: 12
  • animal counts: 20
  • plant counts: 20

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
119581Risk group (German classification)
1190881Risk group (French classification)

Sequence information

16S sequences

  • @ref: 11958
  • description: Actinokineospora enzanensis gene for 16S rRNA, partial sequence
  • accession: AB058395
  • length: 1473
  • database: ena
  • NCBI tax ID: 155975

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Actinokineospora enzanensis DSM 446491120934.3wgspatric1120934
66792Actinokineospora enzanensis DSM 446492518285603draftimg1120934
67770Actinokineospora enzanensis DSM 44649GCA_000374445scaffoldncbi1120934

GC content

@refGC-contentmethod
1195870
6777070high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileno52.722no
flagellatedno91.814no
gram-positiveyes88.324no
anaerobicno98.755no
aerobicyes89.215no
halophileno93.691no
spore-formingyes92.3no
thermophileno98.303yes
glucose-utilyes85.507no
glucose-fermentno91.356yes

External links

@ref: 11958

culture collection no.: DSM 44649, IFO 16517, NBRC 16517, JCM 11647, CIP 107895

straininfo link

  • @ref: 82413
  • straininfo: 88106

literature

  • topic: Phylogeny
  • Pubmed-ID: 23291892
  • title: Actinokineospora bangkokensis sp. nov., isolated from rhizospheric soil.
  • authors: Intra B, Matsumoto A, Inahashi Y, Omura S, Takahashi Y, Panbangred W
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.047928-0
  • year: 2013
  • mesh: Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/analysis, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Thailand, Vitamin K 2/analogs & derivatives/analysis
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitle
11958Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44649)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44649
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
34378Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5456
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
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
82413Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID88106.1StrainInfo: A central database for resolving microbial strain identifiers
119088Curators of the CIPCollection of Institut Pasteur (CIP 107895)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107895