Strain identifier

BacDive ID: 2585

Type strain: Yes

Species: Clostridium fallax

Strain Designation: Tracol

Strain history: ATCC 19400 <-- Inst. Pasteur, Paris.

NCBI tax ID(s): 1121309 (strain), 1533 (species)

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General

@ref: 1177

BacDive-ID: 2585

DSM-Number: 2631

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

description: Clostridium fallax Tracol is an anaerobe, spore-forming, mesophilic human pathogen that was isolated from Soil.

NCBI tax id

NCBI tax idMatching level
1533species
1121309strain

strain history

@refhistory
1177<- ATCC <- NCTC <- Institute Pasteur, Tracol
67770ATCC 19400 <-- Inst. Pasteur, Paris.

doi: 10.13145/bacdive2585.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Clostridiaceae
  • genus: Clostridium
  • species: Clostridium fallax
  • full scientific name: Clostridium fallax (Weinberg and Séguin 1915) Bergey et al. 1923 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Bacillus fallax

@ref: 1177

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Clostridiaceae

genus: Clostridium

species: Clostridium fallax

full scientific name: Clostridium fallax (Weinberg and Séguin 1915) Bergey et al. 1923

strain designation: Tracol

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes93.379
6948099.999positive

Culture and growth conditions

culture medium

  • @ref: 1177
  • name: CHOPPED MEAT MEDIUM (DSMZ Medium 78)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/78
  • composition: Name: CHOPPED MEAT MEDIUM (DSMZ Medium 78) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l Ethanol 9.5 g/l (optional) K2HPO4 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl 0.5 g/l Haemin 0.005 g/l (optional) Resazurin 0.001 g/l Vitamin K3 0.0005 g/l (optional) Vitamin K1 (optional) NaOH (optional) Distilled water

culture temp

@refgrowthtypetemperaturerange
1177positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
1177anaerobe
69480anaerobe99.999

spore formation

@refspore formationconfidence
69481yes100
69480yes99.128

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    44793C10:00.710
    44793C12:03.612
    44793C14:017.814
    44793C16:020.916
    44793C18:02.918
    44793C12:0 ALDE ?0.610.915
    44793C13:0 3OH/C15:1 i I/H7.214.469
    44793C13:0 ISO 2OH0.813.814
    44793C13:1 at 12-131.912.931
    44793C16:0 aldehyde214.949
    44793C16:1 ω5c0.715.908
    44793C16:1 ω7c2.615.819
    44793C16:1 ω7c DMA1.916.288
    44793C16:1 ω9c3.715.774
    44793C16:1 ω9c DMA3.216.242
    44793C17:0 CYCLO1.116.888
    44793C17:0 CYCLO DMA117.357
    44793C17:0 iso 3OH2.518.161
    44793C17:1 ω5c ISO9.716.461
    44793C18:1 ω7c /12t/9t2.217.824
    44793C18:1 ω9c2.517.769
    44793C18:2 ω6,9c/C18:0 ANTE4.217.724
    44793C19:0 CYCLO ω8c1.118.9
    44793C19:0 CYCLO ω9c1.518.87
    44793Unidentified0.812.466
    44793Unidentified0.714.287
    44793Unidentified1.314.756
    44793Unidentified0.918.459
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

Isolation, sampling and environmental information

isolation

  • @ref: 67770
  • sample type: Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_65528.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_34;96_28433;97_35815;98_46275;99_65528&stattab=map
  • Last taxonomy: Clostridium fallax subclade
  • 16S sequence: LC036315
  • Sequence Identity:
  • Total samples: 2313
  • soil counts: 129
  • aquatic counts: 276
  • animal counts: 1837
  • plant counts: 71

Safety information

risk assessment

  • @ref: 1177
  • pathogenicity human: yes
  • pathogenicity animal: yes
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Clostridium fallax strain DSM 2631 16S ribosomal RNA gene, partial sequenceHM245941840ena1533
1177Clostridium fallax strain ATCC 19400 16S ribosomal RNA gene, partial sequenceM590881462ena1533
67770Clostridium fallax gene for 16S ribosomal RNA, partial sequence, strain: JCM 1398LC0363151478ena1533

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Clostridium fallax strain DSM 26311533.3wgspatric1533
66792Clostridium fallax strain NCTC83801533.15wgspatric1533
66792Clostridium fallax DSM 26312695420941draftimg1533
66792Clostridium fallax NCTC 83802808606672draftimg1533
67770Clostridium fallax DSM 2631GCA_900129365contigncbi1533
67770Clostridium fallax NCTC8380GCA_900461065contigncbi1533

GC content

@refGC-contentmethod
117726.0
6777026thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes83.251no
gram-positiveyes86.869no
anaerobicyes99.06no
aerobicno97.304yes
halophileno83.785no
spore-formingyes94.916no
thermophileno90.913yes
glucose-utilyes87.931no
flagellatedyes58.429no
glucose-fermentyes75.451no

External links

@ref: 1177

culture collection no.: DSM 2631, ATCC 19400, NCTC 8380, VPI 5729, CCUG 4853, JCM 1398, BCRC 14512, NCIMB 10634

straininfo link

  • @ref: 72118
  • straininfo: 45622

literature

  • topic: Phylogeny
  • Pubmed-ID: 34748474
  • title: Clostridium zeae sp. nov., isolated from corn silage.
  • authors: Kobayashi H, Tanizawa Y, Yagura M, Sakamoto M, Ohkuma M, Tohno M
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.005088
  • year: 2021
  • mesh: Bacterial Typing Techniques, Base Composition, Clostridium/*classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Japan, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Silage/microbiology, *Zea mays/microbiology
  • topic2: Transcriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1177Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 2631)https://www.dsmz.de/collection/catalogue/details/culture/DSM-2631
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
44793Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 4853)https://www.ccug.se/strain?id=4853
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
72118Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID45622.1StrainInfo: A central database for resolving microbial strain identifiers