Strain identifier

BacDive ID: 131544

Type strain: Yes

Species: Arcanobacterium pinnipediorum

Strain Designation: 2710

Strain history: <- O. Sammra, Univ. Giessen, Germany; 2710 <- R. Weiss

NCBI tax ID(s): 1503041 (species)

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General

@ref: 22771

BacDive-ID: 131544

DSM-Number: 28752

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

description: Arcanobacterium pinnipediorum 2710 is a mesophilic bacterium that was isolated from anal swab of a free-living harbour seal .

NCBI tax id

  • NCBI tax id: 1503041
  • Matching level: species

strain history

  • @ref: 22771
  • history: <- O. Sammra, Univ. Giessen, Germany; 2710 <- R. Weiss

doi: 10.13145/bacdive131544.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Actinomycetales
  • family: Actinomycetaceae
  • genus: Arcanobacterium
  • species: Arcanobacterium pinnipediorum
  • full scientific name: Arcanobacterium pinnipediorum Sammra et al. 2015

@ref: 22771

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Actinomycetaceae

genus: Arcanobacterium

species: Arcanobacterium pinnipediorum

full scientific name: Arcanobacterium pinnipediorum Sammra et al. 2015

strain designation: 2710

type strain: yes

Culture and growth conditions

culture medium

  • @ref: 22771
  • name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/693
  • composition: Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base

culture temp

  • @ref: 22771
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

murein

  • @ref: 22771
  • murein short key: A11.51
  • type: A5alpha L-Lys-L-Lys-D-Glu

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838016024D-mannose-fermentation
6838016634raffinose-fermentation
6838029985L-glutamate-degradation
6838017632nitrate-reduction
6838027897tryptophan-energy source

metabolite production

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68380glutamyl-glutamate arylamidase-
68380glycin arylamidase+
68380alanine arylamidase+3.4.11.2
68380pyrrolidonyl arylamidase+3.4.19.3
68380leucine arylamidase+3.4.11.1
68380proline-arylamidase+3.4.11.5
68380L-arginine arylamidase+
68380alkaline phosphatase-3.1.3.1
68380tryptophan deaminase-4.1.99.1
68380alpha-fucosidase-3.2.1.51
68380glutamate decarboxylase-4.1.1.15
68380N-acetyl-beta-glucosaminidase+3.2.1.52
68380beta-glucuronidase-3.2.1.31
68380alpha-arabinosidase-3.2.1.55
68380beta-glucosidase-3.2.1.21
68380alpha-glucosidase+3.2.1.20
68380beta-Galactosidase 6-phosphate-
68380beta-galactosidase+3.2.1.23
68380alpha-galactosidase-3.2.1.22
68380arginine dihydrolase-3.5.3.6
68380urease-3.5.1.5

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
22771---+-+---+-------+++/-+/-+++/-+++/--+/-

Isolation, sampling and environmental information

isolation

  • @ref: 22771
  • sample type: anal swab of a free-living harbour seal (Phoca vitulina)
  • host species: Phoca vitulina
  • geographic location: North Sea
  • country: Germany
  • origin.country: DEU
  • continent: Europe

isolation source categories

Cat1Cat2Cat3
#Infection#Patient#Swab
#Host Body-Site#Gastrointestinal tract#Rectum

taxonmaps

  • @ref: 69479
  • File name: preview.99_131023.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_28;96_49;97_25893;98_32877;99_131023&stattab=map
  • Last taxonomy: Arcanobacterium pinnipediorum
  • 16S sequence: KJ596349
  • Sequence Identity:
  • Total samples: 42
  • aquatic counts: 3
  • animal counts: 39

Sequence information

16S sequences

  • @ref: 22771
  • description: Arcanobacterium pinnipediorum strain 2710 16S ribosomal RNA gene, partial sequence
  • accession: KJ596349
  • length: 1348
  • database: ena
  • NCBI tax ID: 1503041

Genome sequences

  • @ref: 66792
  • description: Arcanobacterium pinnipediorum DSM 28752
  • accession: GCA_023973165
  • assembly level: complete
  • database: ncbi
  • NCBI tax ID: 1503041

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno97.134no
gram-positiveyes94.663no
anaerobicno77.015no
aerobicno95.188no
halophileno83.43no
spore-formingno95.047no
motileno93.205no
glucose-fermentyes80.899no
thermophileno97.713yes
glucose-utilyes87.527no

External links

@ref: 22771

culture collection no.: DSM 28752, LMG 28298

straininfo link

  • @ref: 89958
  • straininfo: 403382

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny26373578Arcanobacterium pinnipediorum sp. nov., isolated from a harbour seal.Sammra O, Balbutskaya A, Ulbegi-Mohyla H, Nagib S, Lammler C, Kampfer P, Glaeser SP, Golke J, Busse HJ, Prenger-Berninghoff E, Siebert U, Abdulmawjood A, Klein GInt J Syst Evol Microbiol10.1099/ijsem.0.0006092015Animals, Arcanobacterium/*classification/genetics/isolation & purification, Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, North Sea, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phoca/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny29756170Further characteristics of Arcanobacterium pinnipediorum DSM 28752(T) and Arcanobacterium wilhelmae DSM 102162(T), two novel species of genus Arcanobacterium.Sammra O, Rau J, Wickhorst J, Alssahen M, Hassan AA, Lammler C, Prenger-Berninghoff E, Abdulmawjood AFolia Microbiol (Praha)10.1007/s12223-018-0610-72018Arcanobacterium/*classification/*genetics/isolation & purification, DNA, Bacterial, DNA, Ribosomal/genetics, DNA, Ribosomal Spacer/genetics, Phylogeny, Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization, Spectroscopy, Fourier Transform InfraredEnzymology

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
22771Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-28752Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28752)
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
68380Automatically annotated from API rID32A
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/
89958Reimer, 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-ID403382.1