Strain identifier

BacDive ID: 2543

Type strain: Yes

Species: Clostridium felsineum

Strain Designation: 2038, 10022

Strain history: CIP <- 1994, J.P. Carlier, Inst. Pasteur, Paris, France: strain 10022 <- NCIB <- L.S. McClung: strain 2038

NCBI tax ID(s): 36839 (species)

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General

@ref: 450

BacDive-ID: 2543

DSM-Number: 793

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

description: Clostridium felsineum 2038 is an anaerobe, spore-forming, mesophilic bacterium of the family Clostridiaceae.

NCBI tax id

  • NCBI tax id: 36839
  • Matching level: species

strain history

@refhistory
450<- ATCC; ATCC 17777 (Clostridium aurantibutyricum) <- L. S. McClung, Indiana University, Bloomington, USA; 2038
116564CIP <- 1994, J.P. Carlier, Inst. Pasteur, Paris, France: strain 10022 <- NCIB <- L.S. McClung: strain 2038

doi: 10.13145/bacdive2543.20230509.8.1

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 felsineum
  • full scientific name: Clostridium felsineum (Carbone and Tombolato 1917) Bergey et al. 1939 (Approved Lists 1980)

  • synonyms

    @refsynonym
    20215Bacillus felsineus
    20215Clostridium aurantibutyricum
    20215Clostridium roseum

@ref: 450

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Clostridiaceae

genus: Clostridium

species: Clostridium aurantibutyricum

full scientific name: Clostridium aurantibutyricum Hellinger 1944

strain designation: 2038, 10022

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes95.188
69480100positive
116564nopositiverod-shaped

colony morphology

  • @ref: 116564
  • hemolysis ability: 1

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
450PY + X MEDIUM (DSMZ Medium 104b)yeshttps://mediadive.dsmz.de/medium/104bName: PY + X MEDIUM (DSMZ Medium 104b) Composition: Yeast extract 10.0 g/l D-Glucose 5.0 g/l Trypticase peptone 5.0 g/l Meat peptone 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Sodium resazurin 0.0005 g/l Distilled water
35654MEDIUM 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)
116564CIP Medium 20yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=20

culture temp

@refgrowthtypetemperaturerange
35654positivegrowth37mesophilic
450positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
450anaerobe
69480anaerobe99.194
116564anaerobe

spore formation

@refspore formationconfidence
69481yes94
69480yes100
116564no

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11656417108D-arabinose+degradation
11656415824D-fructose+degradation
11656417634D-glucose+degradation
11656465327D-xylose+degradation
11656417057cellobiose+degradation
11656417716lactose+degradation
11656417306maltose+degradation
11656417814salicin-degradation
11656417992sucrose+degradation
1165644853esculin+hydrolysis
11656417632nitrate+reduction
11656416301nitrite-reduction
11656417632nitrate+respiration

metabolite production

  • @ref: 116564
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase-
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase-3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase-3.1.3.1
116564oxidase-
116564beta-galactosidase-3.2.1.23
116564gelatinase-
116564catalase+1.11.1.6
116564urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
116564--++------+---------

Isolation, sampling and environmental information

taxonmaps

  • @ref: 69479
  • File name: preview.99_887.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_34;96_199;97_216;98_245;99_887&stattab=map
  • Last taxonomy: Clostridium
  • 16S sequence: FJ358641
  • Sequence Identity:
  • Total samples: 3984
  • soil counts: 1313
  • aquatic counts: 1145
  • animal counts: 1392
  • plant counts: 134

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
4501Risk group (German classification)
1165642Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
2021816S rRNA [Clostridium aurantibutyricum, NCIMB 10659, rRNA, 1421 nt]S467361421ena1551
20218C.aurantibutyricum (NCIMB10659) rrn gene for 16S rRNAX681831430ena1551
450Clostridium aurantibutyricum strain DSM 793 16S ribosomal RNA gene, partial sequenceFJ3586411488ena1551

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Clostridium felsineum DSM 793GCA_002006235completencbi36839
66792Clostridium aurantibutyricum strain DSM 7931551.15wgspatric1551
66792Clostridium aurantibutyricum DSM 7932687453701draftimg1551

GC content

  • @ref: 450
  • GC-content: 27.0

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes94no
motileyes77.86no
gram-positiveyes78.476no
anaerobicyes96.967yes
aerobicno97.219yes
halophileno95.414no
spore-formingyes97.568no
thermophileno99.442yes
glucose-utilyes90.244no
flagellatedyes70.689no
glucose-fermentyes64.042no

External links

@ref: 450

culture collection no.: DSM 793, ATCC 17777, NCIMB 10659, CIP 104305

straininfo link

  • @ref: 72077
  • straininfo: 36725

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
450Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 793)https://www.dsmz.de/collection/catalogue/details/culture/DSM-793
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
35654Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16198
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)
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.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
72077Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID36725.1StrainInfo: A central database for resolving microbial strain identifiers
116564Curators of the CIPCollection of Institut Pasteur (CIP 104305)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104305