Strain identifier

BacDive ID: 23452

Type strain: Yes

Species: Peptoniphilus obesi

Strain Designation: ph1

Strain history: <- P. Hugon, Timone Hospital, Marseille, France; ph1

NCBI tax ID(s): 1472765 (species)

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General

@ref: 19305

BacDive-ID: 23452

DSM-Number: 25489

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

description: Peptoniphilus obesi ph1 is an obligate anaerobe, mesophilic bacterium that was isolated from human feces.

NCBI tax id

  • NCBI tax id: 1472765
  • Matching level: species

strain history

  • @ref: 19305
  • history: <- P. Hugon, Timone Hospital, Marseille, France; ph1

doi: 10.13145/bacdive23452.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Peptoniphilaceae
  • genus: Peptoniphilus
  • species: Peptoniphilus obesi
  • full scientific name: Peptoniphilus obesi Mishra et al. 2013

@ref: 19305

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Peptoniphilaceae

genus: Peptoniphilus

species: Peptoniphilus obesi

full scientific name: Peptoniphilus obesi

strain designation: ph1

type strain: yes

Culture and growth conditions

culture medium

  • @ref: 19305
  • 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: 19305
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 19305
  • oxygen tolerance: obligate anaerobe

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
19305-----------------+---+-------

Isolation, sampling and environmental information

isolation

  • @ref: 19305
  • sample type: human feces
  • geographic location: Marseille
  • country: France
  • origin.country: FRA
  • continent: Europe

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body Product#Gastrointestinal tract#Feces (Stool)

taxonmaps

  • @ref: 69479
  • File name: preview.99_8116.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_38;96_3744;97_4603;98_5911;99_8116&stattab=map
  • Last taxonomy: Peptoniphilus obesi subclade
  • 16S sequence: JN837495
  • Sequence Identity:
  • Total samples: 25591
  • soil counts: 688
  • aquatic counts: 494
  • animal counts: 24285
  • plant counts: 124

Sequence information

16S sequences

  • @ref: 19305
  • description: Peptoniphilus obesi ph1 16S ribosomal RNA gene, partial sequence
  • accession: JN837495
  • length: 1476
  • database: ena
  • NCBI tax ID: 1118062

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Peptoniphilus obesi ph1GCA_000311865scaffoldncbi1118062
66792Peptoniphilus obesi ph12547132194draftimg1118062

GC content

  • @ref: 19305
  • GC-content: 30.1

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno94.402no
flagellatedno98.081no
gram-positiveyes90.486no
anaerobicyes99.033yes
aerobicno97.808no
halophileno55.818no
spore-formingno86.533no
glucose-utilyes79.383no
thermophileno96.858yes
glucose-fermentno53.386no

External links

@ref: 19305

culture collection no.: DSM 25489, CSUR P187

Reference

@idauthorscataloguedoi/urltitle
19305Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25489)https://www.dsmz.de/collection/catalogue/details/culture/DSM-25489
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
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta