Strain identifier
BacDive ID: 5783
Type strain:
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)
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 id | Matching level |
---|---|
1319815 | strain |
188913 | species |
strain history
@ref | history |
---|---|
17450 | <- CCUG <- D. Molitoris, Dept. Veteran Affairs Medical Center, Los Angeles, USA |
122675 | CIP <- 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
@ref | type of hemolysis |
---|---|
17450 | gamma |
122675 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
17450 | COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) | yes | https://mediadive.dsmz.de/medium/693 | Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base |
17450 | CHOPPED MEAT MEDIUM (DSMZ Medium 78) | yes | https://mediadive.dsmz.de/medium/78 | 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 |
33194 | MEDIUM 6 - Columbia agar with 10 % horse blood | yes | Distilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml) | |
122675 | CIP Medium 6 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
17450 | positive | growth | 37 | mesophilic |
33194 | positive | growth | 37 | mesophilic |
57129 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
17450 | anaerobe |
57129 | anaerobe |
122675 | anaerobe |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
122675 | 17108 | D-arabinose | + | degradation |
122675 | 15824 | D-fructose | + | degradation |
122675 | 17634 | D-glucose | + | degradation |
122675 | 65327 | D-xylose | + | degradation |
122675 | 17057 | cellobiose | + | degradation |
122675 | 17716 | lactose | + | degradation |
122675 | 17306 | maltose | + | degradation |
122675 | 17814 | salicin | + | degradation |
122675 | 17992 | sucrose | + | degradation |
122675 | 4853 | esculin | - | hydrolysis |
122675 | 17632 | nitrate | - | reduction |
122675 | 16301 | nitrite | + | reduction |
122675 | 17632 | nitrate | + | respiration |
metabolite production
- @ref: 122675
- Chebi-ID: 35581
- metabolite: indole
- production: yes
enzymes
@ref | value | activity | ec |
---|---|---|---|
17450 | catalase | - | 1.11.1.6 |
17450 | cytochrome-c oxidase | - | 1.9.3.1 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | alpha-glucosidase | + | 3.2.1.20 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | beta-galactosidase | + | 3.2.1.23 |
68382 | alpha-galactosidase | + | 3.2.1.22 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | trypsin | - | 3.4.21.4 |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | valine arylamidase | - | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | lipase (C 14) | - | |
68382 | esterase lipase (C 8) | + | |
68382 | esterase (C 4) | + | |
68382 | alkaline phosphatase | + | 3.1.3.1 |
122675 | oxidase | - | |
122675 | beta-galactosidase | + | 3.2.1.23 |
122675 | gelatinase | - | |
122675 | amylase | - | |
122675 | DNase | - | |
122675 | caseinase | - | 3.4.21.50 |
122675 | catalase | + | 1.11.1.6 |
122675 | tween esterase | - | |
122675 | lecithinase | - | |
122675 | lipase | - | |
122675 | protease | - | |
122675 | urease | + | 3.5.1.5 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
122675 | - | + | + | + | - | + | - | - | - | - | + | + | + | + | - | + | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | isolation date |
---|---|---|---|---|---|---|
17450 | human feces, 47-month-old male child with late-onset autism undergoing treatment with vancomycin | Chicago, Rush Childrens Hospital | USA | USA | North America | |
57129 | Human feces,child with late-onset autism | Los Angeles | USA | USA | North America | |
122675 | Human, Feces | Los Angeles, California | United States of America | USA | North America | 2002 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#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
@ref | biosafety level | biosafety level comment |
---|---|---|
17450 | 1 | Risk group (German classification) |
122675 | 1 | Risk 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
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
17450 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23941) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23941 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
33194 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/5616 | ||||
57129 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 46254) | https://www.ccug.se/strain?id=46254 | |||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
68382 | Automatically annotated from API zym | |||||
69479 | João 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 | |||
75262 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID110638.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
122675 | Curators of the CIP | Collection of Institut Pasteur (CIP 108038) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108038 |