Strain identifier

BacDive ID: 16914

Type strain: Yes

Species: Actinocorallia cavernae

Strain Designation: N3-7

Strain history: S. D. Lee N3-7.

NCBI tax ID(s): 328075 (species)

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General

@ref: 12267

BacDive-ID: 16914

DSM-Number: 45040

keywords: 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive, rod-shaped

description: Actinocorallia cavernae N3-7 is an aerobe, spore-forming, mesophilic bacterium that was isolated from soil inside a natural cave.

NCBI tax id

  • NCBI tax id: 328075
  • Matching level: species

strain history

@refhistory
12267<- S. D. Lee; N3-7
67770S. D. Lee N3-7.

doi: 10.13145/bacdive16914.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Streptosporangiales
  • family: Thermomonosporaceae
  • genus: Actinocorallia
  • species: Actinocorallia cavernae
  • full scientific name: Actinocorallia cavernae Lee 2006

@ref: 12267

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Thermomonosporaceae

genus: Actinocorallia

species: Actinocorallia cavernae

full scientific name: Actinocorallia cavernae Lee 2006

strain designation: N3-7

type strain: yes

Morphology

cell morphology

  • @ref: 31611
  • gram stain: positive
  • cell shape: rod-shaped

pigmentation

  • @ref: 31611
  • production: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
12267GYM 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
12267GPHF-MEDIUM (DSMZ Medium 553)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium553.pdf

culture temp

@refgrowthtypetemperaturerange
12267positivegrowth28mesophilic
31611positivegrowth25-30mesophilic
31611positiveoptimum25-30mesophilic
67770positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
31611positivegrowth5.1-10.1alkaliphile
31611nogrowth4.1

Physiology and metabolism

oxygen tolerance

  • @ref: 31611
  • oxygen tolerance: aerobe

spore formation

  • @ref: 31611
  • spore formation: yes

observation

@refobservation
31611aggregates in chains
67770quinones: MK-9(H4), MK-9(H6)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3161122599arabinose+carbon source
3161117057cellobiose+carbon source
3161128757fructose+carbon source
3161128260galactose+carbon source
3161117234glucose+carbon source
3161117716lactose+carbon source
3161117306maltose+carbon source
3161137684mannose+carbon source
3161126546rhamnose+carbon source
3161133942ribose+carbon source
3161117814salicin+carbon source
3161117992sucrose+carbon source
3161127082trehalose+carbon source
316114853esculin+hydrolysis

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
12267soil inside a natural caveJejuRepublic of KoreaKORAsia
67770Soil from a natural caveJeju IslandRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Geologic
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_164808.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_239;96_29278;97_36909;98_108261;99_164808&stattab=map
  • Last taxonomy: Actinocorallia cavernae subclade
  • 16S sequence: AY966427
  • Sequence Identity:
  • Total samples: 882
  • soil counts: 704
  • aquatic counts: 16
  • animal counts: 52
  • plant counts: 110

Safety information

risk assessment

  • @ref: 12267
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 12267
  • description: Actinocorallia cavernae strain N3-7 16S ribosomal RNA gene, partial sequence
  • accession: AY966427
  • length: 1407
  • database: ena
  • NCBI tax ID: 328075

GC content

@refGC-contentmethod
1226770.1
6777070.1high performance liquid chromatography (HPLC)

External links

@ref: 12267

culture collection no.: DSM 45040, JCM 13278, NRRL B-24429, BCRC 16845, CIP 109251, NBRC 106142, NCIMB 14302

straininfo link

  • @ref: 85919
  • straininfo: 290954

literature

  • topic: Phylogeny
  • Pubmed-ID: 16627659
  • title: Actinocorallia cavernae sp. nov., isolated from a natural cave in Jeju, Korea.
  • authors: Lee SD
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.63895-0
  • year: 2006
  • mesh: Actinomycetales/chemistry/*classification/*isolation & purification/physiology, Bacterial Typing Techniques, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Environmental Microbiology, Genes, rRNA, Korea, Lipids/analysis/isolation & purification, Molecular Sequence Data, Peptidoglycan/chemistry, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Vitamin K 2/analysis/isolation & purification
  • topic2: Enzymology

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
12267Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45040)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45040
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
31611Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2789928776041
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
85919Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID290954.1StrainInfo: A central database for resolving microbial strain identifiers