Strain identifier

BacDive ID: 5422

Type strain: Yes

Species: Faecalicatena contorta

Strain Designation: 113 VI

Strain history: Y. Benno <-- T. Mitsuoka <-- ATCC 25540 <-- W. E. C. Moore VPI 0119 <-- A. Prévot 113 VI.

NCBI tax ID(s): 39482 (species)

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General

@ref: 1540

BacDive-ID: 5422

DSM-Number: 3982

keywords: 16S sequence, Bacteria, anaerobe, Gram-positive, rod-shaped, colony-forming

description: Faecalicatena contorta 113 VI is an anaerobe, Gram-positive, rod-shaped bacterium that forms circular colonies and was isolated from gangrenous appendicitis.

NCBI tax id

  • NCBI tax id: 39482
  • Matching level: species

strain history

@refhistory
1540<- ATCC <- W.E.C. Moore, VPI 0119 <- A. Prévot, 113 VI
67770Y. Benno <-- T. Mitsuoka <-- ATCC 25540 <-- W. E. C. Moore VPI 0119 <-- A. Prévot 113 VI.

doi: 10.13145/bacdive5422.20240510.9

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Lachnospiraceae
  • genus: Faecalicatena
  • species: Faecalicatena contorta
  • full scientific name: Faecalicatena contorta (Prévot 1947) Sakamoto et al. 2017

  • synonyms

    @refsynonym
    20215Catenabacterium contortum
    20215Eubacterium contortum

@ref: 1540

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Lachnospiraceae

genus: Faecalicatena

species: Faecalicatena contorta

full scientific name: Faecalicatena contorta (Prévot 1947) Sakamoto et al. 2017

strain designation: 113 VI

type strain: yes

Morphology

cell morphology

  • @ref: 43183
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 43183
  • colony size: 1-3 mm
  • colony color: white to ivory
  • colony shape: circular
  • incubation period: 4 days
  • medium used: Eggerth-Gagnon (EG) agar (Merck)

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
1540CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110)yeshttps://mediadive.dsmz.de/medium/110Name: CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l K2HPO4 5.0 g/l Yeast extract 5.0 g/l D-Glucose 4.0 g/l Starch 1.0 g/l Maltose 1.0 g/l Cellobiose 1.0 g/l L-Cysteine HCl 0.5 g/l Ethanol 0.19 g/l Vitamin K3 0.05 g/l Hemin 0.005 g/l Sodium resazurin 0.0005 g/l Vitamin K1 NaOH Distilled water
43183Eggerth-Gagnon (EG) agar (Merck)yes

culture temp

@refgrowthtypetemperature
1540positivegrowth37
43183positiveoptimum37
43183positivegrowth20-40
67770positivegrowth37

culture pH

@refabilitytypepH
43183positivegrowth6.0-8.0
43183positiveoptimum7

Physiology and metabolism

tolerance

  • @ref: 43183
  • compound: bile
  • concentration: 20.0 % (w/v)

oxygen tolerance

@refoxygen tolerance
1540anaerobe
43183obligate anaerobe

spore formation

  • @ref: 43183
  • spore formation: no

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
431834853esculin-hydrolysis
4318330849L-arabinose+builds acid from
4318317057cellobiose+builds acid from
4318317716lactose+builds acid from
4318317306maltose+builds acid from
4318316024D-mannose+builds acid from
4318316634raffinose+builds acid from
4318362345L-rhamnose+builds acid from
4318316899D-mannitol-builds acid from
4318317924D-sorbitol-builds acid from
4318337684mannose-fermentation
4318316634raffinose-fermentation

metabolite production

  • @ref: 43183
  • Chebi-ID: 16136
  • metabolite: hydrogen sulfide
  • production: no

enzymes

@refvalueactivityec
43183acid phosphatase+3.1.3.2
43183esterase Lipase (C 8)+
43183beta-galactosidase+3.2.1.23
43183alpha-glucosidase+3.2.1.20
43183N-acetyl-beta-glucosaminidase-3.2.1.52
43183alkaline phosphatase-3.1.3.1
43183beta-glucosidase-3.2.1.21
43183beta-glucuronidase-3.2.1.31
43183arginine arylamidase-
43183histidine arylamidase-
43183leucine arylamidase-3.4.11.1
43183phenylalanine arylamidase-
43183proline-arylamidase-3.4.11.5
43183serine arylamidase-
43183tyrosine arylamidase-
43183valine arylamidase-

fatty acid profile

  • fatty acids

    @reffatty acidpercentageSDECL
    43183C12:03.30.2
    43183C14:09.30.4
    43183C16:015.60.4
    43183C16:0 DMA3.41.9
    43183C18:1ω9c21.90.8
    43183C18:1ω9c DMA36.35.1
    43183C19:0 cyclo ω9c DMA3.11.8
    43183C18:1ω11t4.32.5
    43183unknown / C17:1ω8c7.61.417
    43183unknown / C18:0ω11c/9t/6t FAME42.317834
  • type of FA analysis: whole cell analysis
  • incubation medium: EG
  • agar/liquid: agar
  • incubation temperature: 37
  • incubation time: 4
  • software version: Sherlock 6.2B
  • system: MIS MIDI
  • method/protocol: Miller 1982
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample type
1540gangrenous appendicitis
59480Human gangrenous appendicitis
67770Gangrenous appendicitis

isolation source categories

Cat1Cat2
#Infection#Inflammation
#Host Body-Site#Gastrointestinal tract

taxonmaps

  • @ref: 69479
  • File name: preview.99_1651.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_16;96_942;97_1096;98_1307;99_1651&stattab=map
  • Last taxonomy: Faecalicatena
  • 16S sequence: LC071803
  • Sequence Identity:
  • Total samples: 11013
  • soil counts: 35
  • aquatic counts: 110
  • animal counts: 10845
  • plant counts: 23

Safety information

risk assessment

  • @ref: 1540
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Eubacterium contortum 16S ribosomal RNAL346151483nuccore39482
20218Eubacterium contortum partial 16S rRNA gene, type strain DSM 3982T, clone 2FR7499461524nuccore39482
1540Eubacterium contortum partial 16S rRNA gene, type strain DSM 3982T, clone 1FR7499451521nuccore39482
67770[Eubacterium] contortum gene for 16S ribosomal RNA, partial sequence, strain: JCM 6483LC0718031417nuccore39482

GC content

  • @ref: 1540
  • GC-content: 48.7
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 1540

culture collection no.: DSM 3982, ATCC 25540, CCUG 52236, JCM 6483, VPI 0119

straininfo link

  • @ref: 74911
  • straininfo: 38586

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny28556772Faecalimonas umbilicata gen. nov., sp. nov., isolated from human faeces, and reclassification of Eubacterium contortum, Eubacterium fissicatena and Clostridium oroticum as Faecalicatena contorta gen. nov., comb. nov., Faecalicatena fissicatena comb. nov. and Faecalicatena orotica comb. nov.Sakamoto M, Iino T, Ohkuma MInt J Syst Evol Microbiol10.1099/ijsem.0.0017902017Bacterial Typing Techniques, Base Composition, Clostridiales/*classification/genetics/isolation & purification, Clostridium/classification, DNA, Bacterial/genetics, Eubacterium/classification, Fatty Acids/chemistry, Feces/*microbiology, Genes, Bacterial, Humans, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAPathogenicity
Phylogeny28741995Merdimonas faecis gen. nov., sp. nov., isolated from human faeces.Seo B, Yoo JE, Lee YM, Ko GInt J Syst Evol Microbiol10.1099/ijsem.0.0019772017Adult, Bacterial Typing Techniques, Base Composition, Clostridiales/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Feces/*microbiology, Female, Humans, Peptidoglycan/chemistry, Phosphatidylglycerols/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNAPathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1540Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 3982)https://www.dsmz.de/collection/catalogue/details/culture/DSM-3982
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
43183Mitsuo Sakamoto, Takao Iino, Moriya Ohkuma10.1099/ijsem.0.001790Faecalimonas umbilicata gen. nov., sp. nov., isolated from human faeces, and reclassification of Eubacterium contortum, Eubacterium fissicatena and Clostridium oroticum as Faecalicatena contorta gen. nov., comb. nov., Faecalicatena fissicatena comb. nov. and Faecalicatena orotica comb. nov.IJSEM 67: 1219-1227 201728556772
59480Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 52236)https://www.ccug.se/strain?id=52236
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
74911Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID38586.1StrainInfo: A central database for resolving microbial strain identifiers