Strain identifier

BacDive ID: 23792

Type strain: Yes

Species: Alloscardovia macacae

Strain Designation: M8

Strain history: <- J. Killer, Inst. Animal Physiol. and Genetics, Czech Acad. Sci., Prague; M8

NCBI tax ID(s): 1160091 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 21175

BacDive-ID: 23792

DSM-Number: 24762

keywords: genome sequence, 16S sequence, Bacteria, obligate anaerobe, mesophilic, Gram-positive, ovoid-shaped

description: Alloscardovia macacae M8 is an obligate anaerobe, mesophilic, Gram-positive bacterium that was isolated from milk of a female macaque bred.

NCBI tax id

  • NCBI tax id: 1160091
  • Matching level: species

strain history

  • @ref: 21175
  • history: <- J. Killer, Inst. Animal Physiol. and Genetics, Czech Acad. Sci., Prague; M8

doi: 10.13145/bacdive23792.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Bifidobacteriales
  • family: Bifidobacteriaceae
  • genus: Alloscardovia
  • species: Alloscardovia macacae
  • full scientific name: Alloscardovia macacae Killer et al. 2013

@ref: 21175

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Bifidobacteriales

family: Bifidobacteriaceae

genus: Alloscardovia

species: Alloscardovia macacae

full scientific name: Alloscardovia macacae Killer et al. 2013

strain designation: M8

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31073positive1.45 µm0.65 µmovoid-shaped
69480no93.742
69480positive100

pigmentation

  • @ref: 31073
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 21175
  • name: MRS MEDIUM (DSMZ Medium 11)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/11
  • composition: Name: MRS MEDIUM (DSMZ Medium 11) Composition: Glucose 20.0 g/l Casein peptone 10.0 g/l Meat extract 10.0 g/l Na-acetate 5.0 g/l Yeast extract 5.0 g/l (NH4)3 citrate 2.0 g/l K2HPO4 2.0 g/l Tween 80 1.0 g/l MgSO4 x 7 H2O 0.2 g/l MnSO4 x H2O 0.05 g/l Distilled water

culture temp

  • @ref: 21175
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
21175obligate anaerobe
31073anaerobe
69480anaerobe98.648

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 100

murein

  • @ref: 21175
  • murein short key: A11.31
  • type: A4alpha L-Lys-D-Asp

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3107322599arabinose+carbon source
3107317057cellobiose+carbon source
3107328260galactose+carbon source
3107317716lactose+carbon source
3107337684mannose+carbon source
3107328053melibiose+carbon source
3107318222xylose+carbon source
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate+builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose+builds acid from
6837128066gentiobiose+builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose+builds acid from
683716731melezitose+builds acid from
6837117992sucrose+builds acid from
6837128053melibiose+builds acid from
6837117716lactose+builds acid from
6837117306maltose+builds acid from
6837117057cellobiose+builds acid from
6837117814salicin+builds acid from
683714853esculin+builds acid from
6837118305arbutin+builds acid from
6837127613amygdalin+builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837115824D-fructose+builds acid from
6837117634D-glucose+builds acid from
6837112936D-galactose+builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose+builds acid from
6837116988D-ribose+builds acid from
6837130849L-arabinose+builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
21175----+++---+++-------+/-+/-+/-++++++++++/-+/-++---++------+--

Isolation, sampling and environmental information

isolation

  • @ref: 21175
  • sample type: milk of a female macaque bred
  • geographic location: Central Bohemia
  • country: Czech Republic
  • origin.country: CZE
  • continent: Europe

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Primates
#Host Body Product#Fluids#Milk

taxonmaps

  • @ref: 69479
  • File name: preview.99_109352.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_24;96_43791;97_56070;98_74241;99_109352&stattab=map
  • Last taxonomy: Alloscardovia macacae subclade
  • 16S sequence: JQ363617
  • Sequence Identity:
  • Total samples: 574
  • soil counts: 4
  • aquatic counts: 4
  • animal counts: 566

Safety information

risk assessment

  • @ref: 21175
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 21175
  • description: Alloscardovia macacae strain M8 16S ribosomal RNA gene, partial sequence
  • accession: JQ363617
  • length: 1436
  • database: ena
  • NCBI tax ID: 1160091

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Alloscardovia macacae DSM 24762GCA_002259705contigncbi1160091
66792Alloscardovia macacae strain DSM 247621160091.5wgspatric1160091
66792Alloscardovia macacae DSM 247622788500374draftimg1160091

GC content

  • @ref: 21175
  • GC-content: 50.1

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno59no
motileno95.988no
gram-positiveyes88.051no
anaerobicyes94.229no
aerobicno96.815yes
halophileno51.922no
spore-formingno96.855no
flagellatedno96.704no
thermophileno96.923yes
glucose-utilyes83.202no
glucose-fermentyes84.119no

External links

@ref: 21175

culture collection no.: DSM 24762, CCM 7944

straininfo link

  • @ref: 87823
  • straininfo: 399068

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny23907220Alloscardovia macacae sp. nov., isolated from the milk of a macaque (Macaca mulatta), emended description of the genus Alloscardovia and proposal of Alloscardovia criceti comb. nov.Killer J, Rockova S, Vlkova E, Rada V, Havlik J, Kopecny J, Bunesova V, Benada O, Kofronova O, Pechar R, Profousova IInt J Syst Evol Microbiol10.1099/ijs.0.051326-02013Actinobacteria/*classification/genetics/isolation & purification, Aldehyde-Lyases/metabolism, Animals, Bacterial Typing Techniques, Base Composition, Carbohydrates/chemistry, DNA, Bacterial/genetics, Fatty Acids/chemistry, Female, Genes, Bacterial, Macaca mulatta/*microbiology, Milk/*microbiology, Molecular Sequence Data, Multilocus Sequence Typing, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics
Phylogeny31395120Alloscardovia theropitheci sp. nov., isolated from the faeces of gelada baboon, the 'bleeding heart' monkey (Theropithecus gelada).Modesto M, Satti M, Watanabe K, Sciavilla P, Felis GE, Sandri C, Spiezio C, Arita M, Mattarelli PInt J Syst Evol Microbiol10.1099/ijsem.0.0035842019Actinobacteria/*classification/isolation & purification, Aldehyde-Lyases, Animals, Animals, Zoo/microbiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Feces/microbiology, Italy, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Theropithecus/*microbiologyTranscriptome

Reference

@idauthorstitledoi/urlcatalogueID_cross_referencepubmedjournal
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
21175Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-24762Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24762)
31073Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172740228776041
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
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa102533211880Nucleic Acids Res. 49: D498-D508 2020
68371Automatically annotated from API 50CH acid
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/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
87823Reimer, 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-ID399068.1