Strain identifier

BacDive ID: 134757

Type strain: No

Species: Paraclostridium bifermentans

Strain Designation: Tissier

Strain history: CIP <- 1960, A.R. Prévot, Inst. Pasteur, Paris, France: strain Tissier

NCBI tax ID(s): 1233170 (strain), 1490 (species)

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General

@ref: 33400

BacDive-ID: 134757

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, mesophilic, motile

description: Paraclostridium bifermentans Tissier is an anaerobe, spore-forming, mesophilic bacterium of the family Clostridiaceae.

NCBI tax id

NCBI tax idMatching level
1233170strain
1490species

strain history

@refhistory
334001960, A.R. Prévot, Inst. Pasteur, Paris, France: strain Tissier
67770IAM 19224 <-- S. Sugama <-- Inst. Pasteur; TM.
33400CIP <- 1960, A.R. Prévot, Inst. Pasteur, Paris, France: strain Tissier

doi: 10.13145/bacdive134757.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Clostridiaceae
  • genus: Paraclostridium
  • species: Paraclostridium bifermentans
  • full scientific name: Paraclostridium bifermentans (Weinberg and Séguin 1918) Sasi Jyothsna et al. 2016

  • synonyms

    @refsynonym
    20215Clostridium bifermentans
    20215Bacillus bifermentans

@ref: 33400

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Eubacteriales

family: Clostridiaceae

genus: Paraclostridium

species: Paraclostridium bifermentans

strain designation: Tissier

type strain: no

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes92.044
69480100positive
33400nopositiverod-shaped

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
33400MEDIUM 20 - for Anaerobic bacteriayesAgar (15.000 g);Glucose (5.000 g);Yeast extract (20.000 g);Tryptone (30.000 g);Cysteine hydrochloride (0.500 g);distilled water (1000.000 ml);Hemin solution -M00149 (25.000 ml)
33400CIP Medium 20yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=20

culture temp

@refgrowthtypetemperaturerange
33400positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
69480anaerobe98.459
33400anaerobe

spore formation

@refspore formationconfidence
69481yes100
69480yes100

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3340017632nitrate-reduction
3340016301nitrite-reduction
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838016024D-mannose-fermentation
6838016634raffinose-fermentation
6838029985L-glutamate-degradation
6838017632nitrate-reduction
6838027897tryptophan+energy source

metabolite production

@refChebi-IDmetaboliteproduction
3340035581indoleyes
6838035581indoleyes

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
33400oxidase-
33400catalase-1.11.1.6
33400urease-3.5.1.5
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)-
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    45179C11:00.411
    45179C12:0112
    45179C13:03.313
    45179C14:03.814
    45179C15:07.215
    45179C16:012.416
    45179C17:0417
    45179C18:03.318
    45179C12:0 ISO6.611.608
    45179C12:1 at 11-12111.925
    45179C13:0 ANTEISO2.412.701
    45179C13:0 iso0.712.612
    45179C14:0 ISO7.513.618
    45179C15:0 ANTEISO1.314.711
    45179C15:0 ISO0.614.621
    45179C16:0 iso7.815.626
    45179C16:1 ISO H0.615.461
    45179C16:1 ω7c1.315.819
    45179C16:1 ω9c0.715.774
    45179C17:0 anteiso0.916.722
    45179C17:1 ω5c ISO0.816.461
    45179C17:1 ω8c1.316.792
    45179C18:0 ISO0.517.632
    45179C18:1 ω6c0.917.858
    45179C18:1 ω9c6.317.769
    45179C18:2 ω6,9c/C18:0 ANTE8.317.724
    45179Unidentified0.5
    45179Unidentified0.9
    45179unknown 18.1940.818.194
    45179unknown 9.73013.19.73
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
33400-----+----++--------

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
45179---------------+--+----------

Isolation, sampling and environmental information

isolation

@refcountryorigin.countrycontinentsampling dateisolation date
33400FranceFRAEurope
45179FranceFRAEurope1956
33400FranceFRAEurope1956

taxonmaps

  • @ref: 69479
  • File name: preview.99_532.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_2;96_337;97_376;98_432;99_532&stattab=map
  • Last taxonomy: Paeniclostridium
  • 16S sequence: AB538434
  • Sequence Identity:
  • Total samples: 51554
  • soil counts: 14269
  • aquatic counts: 9424
  • animal counts: 25127
  • plant counts: 2734

Safety information

risk assessment

  • @ref: 33400
  • biosafety level: 2
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

  • @ref: 67770
  • description: Paraclostridium bifermentans gene for 16S ribosomal RNA, partial sequence, strain: JCM 7832
  • accession: AB538434
  • length: 1463
  • database: ena
  • NCBI tax ID: 1490

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Clostridium bifermentans ATCC 192991233170.3wgspatric1233170
66792Paraclostridium bifermentans ATCC 192992541047517draftimg1233170
67770Paraclostridium bifermentans ATCC 19299GCA_000452225contigncbi1233170

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes77.401no
gram-positiveyes93.002no
anaerobicyes98.272no
aerobicno96.694no
halophileno89.675no
spore-formingyes93.459no
thermophileno97.255yes
glucose-utilyes88.708no
flagellatedno60.453no
glucose-fermentyes65.277no

External links

@ref: 33400

culture collection no.: CIP 60.14, ATCC 19299, CCUG 9279, IAM 19224, JCM 7832

straininfo link

  • @ref: 92223
  • straininfo: 44546

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
33400Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2060.14Collection of Institut Pasteur (CIP 60.14)
45179Curators of the CCUGhttps://www.ccug.se/strain?id=9279Culture Collection University of Gothenburg (CCUG) (CCUG 9279)
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68380Automatically annotated from API rID32A
68382Automatically annotated from API zym
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
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
92223Reimer, 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-ID44546.1