Strain identifier

BacDive ID: 158394

Type strain: Yes

Species: Peptoniphilus lacydonensis

Strain Designation: ED1, EL1

Strain history: <- S. Khelaifia, Timone Hospital, Marseille, France; ED1 <- Unité de Recherche sur les Maladies Infectieuses et Tropicales Émergentes

NCBI tax ID(s): 1673725 (species)

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General

@ref: 65070

BacDive-ID: 158394

DSM-Number: 100661

keywords: genome sequence, 16S sequence, Bacteria

description: Peptoniphilus lacydonensis ED1 is a bacterium that was isolated from human nasal swab.

NCBI tax id

  • NCBI tax id: 1673725
  • Matching level: species

strain history

  • @ref: 65070
  • history: <- S. Khelaifia, Timone Hospital, Marseille, France; ED1 <- Unité de Recherche sur les Maladies Infectieuses et Tropicales Émergentes

doi: 10.13145/bacdive158394.20240510.9

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 lacydonensis
  • full scientific name: Peptoniphilus lacydonensis Beye et al. 2018

  • synonyms

    • @ref: 20215
    • synonym: Peptoniphilus rhinitidis

@ref: 65070

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Peptoniphilaceae

genus: Peptoniphilus

species: Peptoniphilus lacydonensis

full scientific name: Peptoniphilus lacydonensis Beye et al. 2018

strain designation: ED1, EL1

type strain: yes

Culture and growth conditions

culture medium

  • @ref: 65070
  • 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: 65070
  • growth: positive
  • type: growth
  • temperature: 37

Physiology and metabolism

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: yes

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
65070---------------+-+-----+--+--

Isolation, sampling and environmental information

isolation

  • @ref: 65070
  • sample type: human nasal swab
  • country: France
  • origin.country: FRA
  • continent: Europe

isolation source categories

Cat1Cat2Cat3
#Host Body-Site#Organ#Nose
#Infection#Patient#Swab
#Host#Human

taxonmaps

  • @ref: 69479
  • File name: preview.99_460.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15963;96_304;97_338;98_380;99_460&stattab=map
  • Last taxonomy: Peptoniphilus lacydonensis
  • 16S sequence: LN867000
  • Sequence Identity:
  • Total samples: 42017
  • soil counts: 683
  • aquatic counts: 1509
  • animal counts: 39243
  • plant counts: 582

Sequence information

16S sequences

  • @ref: 65070
  • description: Peptoniphilus sp. EL1 partial 16S rRNA gene, strain EL1
  • accession: LN867000
  • length: 1459
  • database: nuccore
  • NCBI tax ID: 1673725

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Peptoniphilus lacydonensis EL1GCA_900106515contigncbi1673725
66792Peptoniphilus lacydonensis EL12834231043draftimg1673725

External links

@ref: 65070

culture collection no.: DSM 100661, CSUR P2013

straininfo link

  • @ref: 111198
  • straininfo: 405088

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
65070Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-100661Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100661)
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/
111198Reimer, 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-ID405088.1