Strain identifier

BacDive ID: 5783

Type strain: Yes

Species: Cetobacterium somerae

Strain history: CIP <- 2003, CCUG <- 2002, D. Molitoris, VA Med. Cent., Los Angeles, CA, USA: strain WAL 14325

NCBI tax ID(s): 1319815 (strain), 188913 (species)

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General

@ref: 17450

BacDive-ID: 5783

DSM-Number: 23941

keywords: 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative, rod-shaped

description: Cetobacterium somerae DSM 23941 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from human feces, 47-month-old male child with late-onset autism undergoing treatment with vancomycin.

NCBI tax id

NCBI tax idMatching level
1319815strain
188913species

strain history

@refhistory
17450<- CCUG <- D. Molitoris, Dept. Veteran Affairs Medical Center, Los Angeles, USA
122675CIP <- 2003, CCUG <- 2002, D. Molitoris, VA Med. Cent., Los Angeles, CA, USA: strain WAL 14325

doi: 10.13145/bacdive5783.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/fusobacteriota
  • domain: Bacteria
  • phylum: Fusobacteriota
  • class: Fusobacteriia
  • order: Fusobacteriales
  • family: Fusobacteriaceae
  • genus: Cetobacterium
  • species: Cetobacterium somerae
  • full scientific name: Cetobacterium somerae Finegold et al. 2003

@ref: 17450

domain: Bacteria

phylum: Fusobacteria

class: Fusobacteriia

order: Fusobacteriales

family: Fusobacteriaceae

genus: Cetobacterium

species: Cetobacterium somerae

full scientific name: Cetobacterium somerae Finegold et al. 2003

type strain: yes

Morphology

cell morphology

  • @ref: 122675
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

colony morphology

@reftype of hemolysis
17450gamma
122675

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
17450COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
17450CHOPPED MEAT MEDIUM (DSMZ Medium 78)yeshttps://mediadive.dsmz.de/medium/78Name: 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
33194MEDIUM 6 - Columbia agar with 10 % horse bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
122675CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6

culture temp

@refgrowthtypetemperaturerange
17450positivegrowth37mesophilic
33194positivegrowth37mesophilic
57129positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
17450anaerobe
57129anaerobe
122675anaerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12267517108D-arabinose+degradation
12267515824D-fructose+degradation
12267517634D-glucose+degradation
12267565327D-xylose+degradation
12267517057cellobiose+degradation
12267517716lactose+degradation
12267517306maltose+degradation
12267517814salicin+degradation
12267517992sucrose+degradation
1226754853esculin-hydrolysis
12267517632nitrate-reduction
12267516301nitrite+reduction
12267517632nitrate+respiration

metabolite production

  • @ref: 122675
  • Chebi-ID: 35581
  • metabolite: indole
  • production: yes

enzymes

@refvalueactivityec
17450catalase-1.11.1.6
17450cytochrome-c oxidase-1.9.3.1
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
122675oxidase-
122675beta-galactosidase+3.2.1.23
122675gelatinase-
122675amylase-
122675DNase-
122675caseinase-3.4.21.50
122675catalase+1.11.1.6
122675tween esterase-
122675lecithinase-
122675lipase-
122675protease-
122675urease+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
122675-+++-+----++++-+----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
17450human feces, 47-month-old male child with late-onset autism undergoing treatment with vancomycinChicago, Rush Childrens HospitalUSAUSANorth America
57129Human feces,child with late-onset autismLos AngelesUSAUSANorth America
122675Human, FecesLos Angeles, CaliforniaUnited States of AmericaUSANorth America2002

isolation source categories

Cat1Cat2Cat3
#Infection#Patient#Antibiotic treatment
#Host#Human#Male
#Host Body Product#Gastrointestinal tract#Feces (Stool)

taxonmaps

  • @ref: 69479
  • File name: preview.99_10458.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_140;96_3880;97_4777;98_6130;99_10458&stattab=map
  • Last taxonomy: Cetobacterium somerae subclade
  • 16S sequence: AJ438155
  • Sequence Identity:
  • Total samples: 33109
  • soil counts: 1687
  • aquatic counts: 10033
  • animal counts: 20819
  • plant counts: 570

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
174501Risk group (German classification)
1226751Risk group (French classification)

Sequence information

16S sequences

  • @ref: 17450
  • description: Cetobacterium somerae 16S rRNA gene, strain WAL 14325
  • accession: AJ438155
  • length: 1470
  • database: ena
  • NCBI tax ID: 1319815

GC content

  • @ref: 17450
  • GC-content: 31
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 17450

culture collection no.: DSM 23941, ATCC BAA 474, CCUG 46254, CIP 108038, WAL 14325

straininfo link

  • @ref: 75262
  • straininfo: 110638

literature

  • topic: Phylogeny
  • Pubmed-ID: 12866843
  • title: Cetobacterium somerae sp. nov. from human feces and emended description of the genus Cetobacterium.
  • authors: Finegold SM, Vaisanen ML, Molitoris DR, Tomzynski TJ, Song Y, Liu C, Collins MD, Lawson PA
  • journal: Syst Appl Microbiol
  • DOI: 10.1078/072320203322346010
  • year: 2003
  • mesh: Age of Onset, Autistic Disorder/drug therapy/epidemiology/*microbiology, Bacterial Typing Techniques, Base Composition, Carbohydrate Metabolism, Child, Child, Preschool, DNA, Bacterial/chemistry/genetics, Fatty Acids/analysis, Feces/*microbiology, Gram-Negative Aerobic Rods and Cocci/classification/genetics/*isolation & purification, Humans, Intestines/microbiology, Male, Molecular Sequence Data, Phenotype, Phylogeny, Ribotyping, Species Specificity, Vancomycin/therapeutic use
  • topic2: Pathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
17450Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23941)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23941
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
33194Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5616
57129Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 46254)https://www.ccug.se/strain?id=46254
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
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
75262Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID110638.1StrainInfo: A central database for resolving microbial strain identifiers
122675Curators of the CIPCollection of Institut Pasteur (CIP 108038)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108038