Strain identifier

BacDive ID: 131479

Type strain: No

Species: Peptoanaerobacter stomatis

Strain Designation: CM5, HM-485

Strain history: <- M. Sizova, Northeastern Univ., Boston, USA; CM5

NCBI tax ID(s): 796937 (species)

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General

@ref: 22706

BacDive-ID: 131479

DSM-Number: 28704

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

description: Peptoanaerobacter stomatis CM5 is an anaerobe bacterium that was isolated from healthy human, subgingival dental plaque.

NCBI tax id

  • NCBI tax id: 796937
  • Matching level: species

strain history

  • @ref: 22706
  • history: <- M. Sizova, Northeastern Univ., Boston, USA; CM5

doi: 10.13145/bacdive131479.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Peptostreptococcaceae
  • genus: Peptoanaerobacter
  • species: Peptoanaerobacter stomatis
  • full scientific name: Peptoanaerobacter stomatis Sizova et al. 2016

@ref: 22706

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Eubacteriales

family: Peptostreptococcaceae

genus: Peptoanaerobacter

species: Peptoanaerobacter stomatis

full scientific name: Peptoanaerobacter stomatis Sizova et al. 2016

strain designation: CM5, HM-485

type strain: no

Culture and growth conditions

culture medium

  • @ref: 22706
  • name: PYG MEDIUM (MODIFIED) (DSMZ Medium 104)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/104
  • composition: Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water

culture temp

  • @ref: 22706
  • growth: positive
  • type: growth
  • temperature: 37

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
22706anaerobe
69480anaerobe93.746

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
68380serine arylamidase-
68380glutamyl-glutamate arylamidase-
68380histidine arylamidase-
68380glycin arylamidase-
68380alanine arylamidase-3.4.11.2
68380tyrosine arylamidase-
68380pyrrolidonyl arylamidase-3.4.19.3
68380leucine arylamidase-3.4.11.1
68380phenylalanine arylamidase-
68380leucyl glycin 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
22706----------------+------------

Isolation, sampling and environmental information

isolation

  • @ref: 22706
  • sample type: healthy human, subgingival dental plaque
  • geographic location: MA, Boston
  • country: USA
  • origin.country: USA
  • continent: North America

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Oral cavity and airways#Subgingival plaque
#Host Body-Site#Oral cavity and airways#Tooth

taxonmaps

  • @ref: 69479
  • File name: preview.99_7493.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_345;96_3085;97_3785;98_4807;99_7493&stattab=map
  • Last taxonomy: Peptoanaerobacter stomatis subclade
  • 16S sequence: HM120214
  • Sequence Identity:
  • Total samples: 4821
  • soil counts: 70
  • aquatic counts: 84
  • animal counts: 4614
  • plant counts: 53

Safety information

risk assessment

  • @ref: 22706
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 22706
  • description: Peptostreptococcaceae bacterium CM5 16S ribosomal RNA gene, partial sequence
  • accession: HM120214
  • length: 1418
  • database: nuccore
  • NCBI tax ID: 796937

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Peptoanaerobacter stomatis CM5GCA_000238135scaffoldncbi796937
66792Peptoanaerobacter stomatis CM52513237271draftimg796937

GC content

  • @ref: 22706
  • GC-content: 32.45

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69480gram-positivegram-positivePositive reaction to Gram-stainingyes65.329no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)yes93.746yes
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no98.337yes
69480spore-formingspore-formingAbility to form endo- or exosporesno52.346no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno84.343yes
69480flagellatedmotile2+Ability to perform flagellated movementyes67.904no

External links

@ref: 22706

culture collection no.: DSM 28704

straininfo link

  • @ref: 89896
  • straininfo: 405824

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
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
22706Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-28704Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28704)
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/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
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/
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
89896Reimer, 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-ID405824.1