Strain identifier

BacDive ID: 160155

Type strain: Yes

Species: Pseudoflavonifractor gallinarum

Strain Designation: Cla-CZ-98

Strain history: <- T. Clavel, RWTH Aachen; Cla-CZ-98 <- C. Zenner, LMU, München;

NCBI tax ID(s): 2779352 (species), 1980281 (species)

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General

@ref: 67059

BacDive-ID: 160155

DSM-Number: 107456

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

description: Pseudoflavonifractor gallinarum Cla-CZ-98 is an anaerobe bacterium that was isolated from chicken cecal content.

NCBI tax id

NCBI tax idMatching level
2779352species
1980281species

strain history

  • @ref: 67059
  • history: <- T. Clavel, RWTH Aachen; Cla-CZ-98 <- C. Zenner, LMU, München;

doi: 10.13145/bacdive160155.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Oscillospiraceae
  • genus: Pseudoflavonifractor
  • species: Pseudoflavonifractor gallinarum
  • full scientific name: Pseudoflavonifractor gallinarum Zenner et al. 2021

@ref: 67059

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Eubacteriales

family: Oscillospiraceae

genus: Pseudoflavonifractor

species: Pseudoflavonifractor sp.

full scientific name: Pseudoflavonifractor sp.

strain designation: Cla-CZ-98

type strain: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
67059BHI MEDIUM FOR STRICT ANAEROBES (DSMZ Medium 215c)yeshttps://mediadive.dsmz.de/medium/215cName: BHI MEDIUM FOR STRICT ANAEROBES (DSMZ Medium 215c) Composition: Brain heart infusion 37.0 g/l L-Cysteine HCl x H2O 0.25 g/l Na2S x 9 H2O 0.25 g/l Distilled water
67059COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base

culture temp

  • @ref: 67059
  • growth: positive
  • type: growth
  • temperature: 37

Physiology and metabolism

spore formation

  • @ref: 69481
  • spore formation: no
  • confidence: 95

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836727082trehalose-builds acid from
6836762345L-rhamnose-builds acid from
6836730911sorbitol-builds acid from
6836716634raffinose-builds acid from
683676731melezitose-builds acid from
6836716024D-mannose-builds acid from
6836717057cellobiose-builds acid from
6836717754glycerol-builds acid from
683674853esculin-hydrolysis
683675291gelatin-hydrolysis
6836730849L-arabinose-builds acid from
6836765327D-xylose-builds acid from
6836717814salicin-builds acid from
6836717306maltose-builds acid from
6836717992sucrose-builds acid from
6836717716lactose-builds acid from
6836716899D-mannitol-builds acid from
6836717634D-glucose-builds acid from
6836716199urea-hydrolysis
6836727897tryptophan-energy source
6838016199urea-hydrolysis
6838016024D-mannose-fermentation
6838016634raffinose-fermentation
6838029985L-glutamate-degradation
6838017632nitrate-reduction
6838027897tryptophan-energy source

metabolite production

@refChebi-IDmetaboliteproduction
6836735581indoleno
6838035581indoleno

metabolite tests

@refChebi-IDmetaboliteindole test
6838035581indole-
6836735581indole-

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
68380urease-3.5.1.5
68367catalase-1.11.1.6
68367beta-glucosidase-3.2.1.21
68367gelatinase-
68367urease-3.5.1.5

API 20A

@refINDUREGLUMANLACSACMALSALXYLARAGELESCGLYCELMNEMLZRAFSORRHATRECAT
67059---------------------

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
67059-+/----------------------------

Isolation, sampling and environmental information

isolation

  • @ref: 67059
  • sample type: chicken cecal content
  • geographic location: Dietramszell (Bavaria)
  • country: Germany
  • origin.country: DEU
  • continent: Europe
  • latitude: 47.8589
  • longitude: 11.5894

Sequence information

16S sequences

  • @ref: 67059
  • description: Pseudoflavonifractor gallinarum strain Cla-CZ-98 16S ribosomal RNA gene, partial sequence
  • accession: MN055919.1
  • length: 1433
  • database: nuccore
  • NCBI tax ID: 2779352

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudoflavonifractor gallinarum DSM 107456GCA_014982855contigncbi2779352
66792Pseudoflavonifractor sp. DSM 1074562779352.3wgspatric2779352
66792Pseudoflavonifractor sp. DSM 1074562911186762draftimg2779352

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno95no
69480gram-positivegram-positivePositive reaction to Gram-stainingyes70.451no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)yes82.528no
69480spore-formingspore-formingAbility to form endo- or exosporesno51.325no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno93.571yes
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no90.451no
69480flagellatedmotile2+Ability to perform flagellated movementno88.668no

External links

@ref: 67059

culture collection no.: DSM 107456

straininfo link

  • @ref: 112430
  • straininfo: 400834

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
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
67059Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-107456Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 107456)
68367Automatically annotated from API 20A
68380Automatically annotated from API rID32A
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
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
112430Reimer, 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-ID400834.1