Strain identifier

BacDive ID: 131168

Type strain: No

Species: Oceanobacillus caeni

Strain Designation: AmpT16

Strain history: <- T. Clavel, TU Munich, Freising-Weihenstephan, Germany; AmpT16

NCBI tax ID(s): 405946 (species)

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General

@ref: 22460

BacDive-ID: 131168

DSM-Number: 28620

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

description: Oceanobacillus caeni AmpT16 is a mesophilic bacterium that was isolated from caecal content; wildtype C57BL/6 mouse treated with ampicillin.

NCBI tax id

  • NCBI tax id: 405946
  • Matching level: species

strain history

  • @ref: 22460
  • history: <- T. Clavel, TU Munich, Freising-Weihenstephan, Germany; AmpT16

doi: 10.13145/bacdive131168.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Oceanobacillus
  • species: Oceanobacillus caeni
  • full scientific name: Oceanobacillus caeni Nam et al. 2008

@ref: 22460

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Oceanobacillus

species: Oceanobacillus caeni

full scientific name: Oceanobacillus caeni Nam et al. 2008

strain designation: AmpT16

type strain: no

Morphology

colony morphology

  • @ref: 22460
  • incubation period: 2-3 days

Culture and growth conditions

culture medium

  • @ref: 22460
  • name: LB (Luria-Bertani) MEDIUM (DSMZ Medium 381)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/381
  • composition: Name: LB (Luria-Bertani) MEDIUM (DSMZ Medium 381) Composition: Agar 20.0 g/l NaCl 10.0 g/l Tryptone 10.0 g/l Yeast extract 5.0 g/l Distilled water

culture temp

  • @ref: 22460
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate-assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate+assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose+assimilation
683695291gelatin-hydrolysis
683694853esculin-hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate+reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68369cytochrome oxidase-1.9.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
22460+-------+-----+------

Isolation, sampling and environmental information

isolation

  • @ref: 22460
  • sample type: caecal content; wildtype C57BL/6 mouse treated with ampicillin
  • geographic location: Freising
  • country: Germany
  • origin.country: DEU
  • continent: Europe

isolation source categories

Cat1Cat2Cat3
#Infection#Patient#Antibiotic treatment
#Host#Mammals#Muridae (Mouse/Rat)
#Host Body-Site#Gastrointestinal tract#Large intestine
#Host Body Product#Gastrointestinal tract#Caecal content

taxonmaps

  • @ref: 69479
  • File name: preview.99_4445.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_2223;97_2691;98_3340;99_4445&stattab=map
  • Last taxonomy: Oceanobacillus caeni subclade
  • 16S sequence: KR364780
  • Sequence Identity:
  • Total samples: 784
  • soil counts: 278
  • aquatic counts: 71
  • animal counts: 388
  • plant counts: 47

Safety information

risk assessment

  • @ref: 22460
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 22460
  • description: Oceanobacillus caeni strain Amp-T16 16S ribosomal RNA gene, partial sequence
  • accession: KR364780
  • length: 1458
  • database: ena
  • NCBI tax ID: 405946

Genome sequences

  • @ref: 66792
  • description: Oceanobacillus caeni DSM 28620
  • accession: GCA_024622265
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 405946

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedyes80.68no
gram-positiveyes91.245no
anaerobicno98.357no
aerobicyes92.346no
halophileyes82.798no
spore-formingyes95.723no
motileyes87.79no
glucose-fermentno87.925no
thermophileno93.873yes
glucose-utilyes87.48yes

External links

@ref: 22460

culture collection no.: DSM 28620

straininfo link

  • @ref: 89613
  • straininfo: 402704

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
22460Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-28620Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28620)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
68369Automatically annotated from API 20NE
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
89613Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID402704.1