Strain identifier

BacDive ID: 5423

Type strain: Yes

Species: Faecalitalea cylindroides

Strain history: DSM 3983 <-- ATCC 27803 <-- E. P. Cato VPI 3654.

NCBI tax ID(s): 649755 (strain), 39483 (species)

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General

@ref: 1541

BacDive-ID: 5423

DSM-Number: 3983

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

description: Faecalitalea cylindroides DSM 3983 is an anaerobe, mesophilic bacterium that was isolated from clinically normal human faeces.

NCBI tax id

NCBI tax idMatching level
39483species
649755strain

strain history

@refhistory
1541<- ATCC <- E.P. Cato, VPI 3654
67770DSM 3983 <-- ATCC 27803 <-- E. P. Cato VPI 3654.

doi: 10.13145/bacdive5423.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Erysipelotrichia
  • order: Erysipelotrichales
  • family: Erysipelotrichaceae
  • genus: Faecalitalea
  • species: Faecalitalea cylindroides
  • full scientific name: Faecalitalea cylindroides (Rocchi 1908) De Maesschalck et al. 2014

  • synonyms

    @refsynonym
    20215Eubacterium cylindroides
    20215Bacterium cylindroides

@ref: 1541

domain: Bacteria

phylum: Firmicutes

class: Erysipelotrichia

order: Clostridiales

family: Erysipelotrichaceae

genus: Faecalitalea

species: Faecalitalea cylindroides

full scientific name: Faecalitalea cylindroides (Rocchi 1908) De Maesschalck et al. 2014

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no92.486
69480100positive

Culture and growth conditions

culture medium

  • @ref: 1541
  • name: CHOPPED MEAT MEDIUM (DSMZ Medium 78)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/78
  • composition: Name: CHOPPED MEAT MEDIUM (DSMZ Medium 78; with strain-specific modifications) 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 0.0001 g/l NaOH (optional) Distilled water

culture temp

@refgrowthtypetemperaturerange
1541positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
1541anaerobe
69480anaerobe98.711

spore formation

@refspore formationconfidence
69481no95
69480no100

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838016634raffinose-fermentation
6838029985L-glutamate-degradation
6838017632nitrate-reduction
6838027897tryptophan-energy source

metabolite production

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

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-
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
1541----------------------+/-------
1541----------+------------------

Isolation, sampling and environmental information

isolation

@refsample type
1541clinically normal human faeces
67770Human feces

isolation source categories

Cat1Cat2Cat3
#Infection#Medical environment#Clinic
#Host#Human
#Host Body Product#Gastrointestinal tract#Feces (Stool)

taxonmaps

  • @ref: 69479
  • File name: preview.99_3204.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15783;96_1668;97_1997;98_2457;99_3204&stattab=map
  • Last taxonomy: Faecalitalea cylindroides subclade
  • 16S sequence: AB558487
  • Sequence Identity:
  • Total samples: 28803
  • soil counts: 248
  • aquatic counts: 2385
  • animal counts: 26002
  • plant counts: 168

Safety information

risk assessment

  • @ref: 1541
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Eubacterium cylindroides 16S ribosomal RNA gene, partial sequenceL346171490ena649755
1541Eubacterium cylindroides gene for 16S ribosomal RNA, partial sequence, strain: JCM 10261AB5584871504ena39483

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Faecalitalea cylindroides ATCC 27803GCA_000469305scaffoldncbi649755
66792[Eubacterium] cylindroides ATCC 27803649755.3wgspatric649755
66792Faecalitalea cylindroides ATCC 27803649755.5wgspatric649755
66792Faecalitalea cylindroides ATCC 278032558860279draftimg649755

GC content

@refGC-contentmethod
154131.0thermal denaturation, midpoint method (Tm)
6777031thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno95no
motileno93.964no
flagellatedno97.026no
gram-positiveyes93.798no
anaerobicyes99.446no
aerobicno98.905yes
halophileno62.596no
spore-formingno94.352no
thermophileno98.668yes
glucose-utilyes86.169no
glucose-fermentyes69.094no

External links

@ref: 1541

culture collection no.: DSM 3983, ATCC 27803, JCM 10261, VPI 3654, Virginia Polytechnic Institute 3654

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny25180093Faecalicoccus acidiformans gen. nov., sp. nov., isolated from the chicken caecum, and reclassification of Streptococcus pleomorphus (Barnes et al. 1977), Eubacterium biforme (Eggerth 1935) and Eubacterium cylindroides (Cato et al. 1974) as Faecalicoccus pleomorphus comb. nov., Holdemanella biformis gen. nov., comb. nov. and Faecalitalea cylindroides gen. nov., comb. nov., respectively, within the family Erysipelotrichaceae.De Maesschalck C, Van Immerseel F, Eeckhaut V, De Baere S, Cnockaert M, Croubels S, Haesebrouck F, Ducatelle R, Vandamme PInt J Syst Evol Microbiol10.1099/ijs.0.064626-02014Animals, Bacteria, Anaerobic/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cecum/*microbiology, Chickens/*microbiology, DNA, Bacterial/genetics, Eubacterium/classification, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spain, Streptococcus/classificationGenetics
Phylogeny26349481Faecalibaculum rodentium gen. nov., sp. nov., isolated from the faeces of a laboratory mouse.Chang DH, Rhee MS, Ahn S, Bang BH, Oh JE, Lee HK, Kim BCAntonie Van Leeuwenhoek10.1007/s10482-015-0583-32015Anaerobiosis, Animals, Base Composition, Carbohydrates/analysis, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Feces/*microbiology, Firmicutes/*classification/genetics/*isolation & purification/physiology, Hydrogen-Ion Concentration, Lactic Acid/metabolism, Mice, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, TemperatureMetabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1541Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 3983)https://www.dsmz.de/collection/catalogue/details/culture/DSM-3983
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
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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.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