Strain identifier
BacDive ID: 4737
Type strain:
Species: Escherichia coli
Strain Designation: Bacdive 4737, Stoke W
Strain history: CIP <- 1952, L. Le Minor, Inst. Pasteur, Paris, France <- F. Kauffmann, Stat. Ser., Copenhagen, Denmark: strain Stoke W
NCBI tax ID(s): 562 (species)
General
@ref: 3857
BacDive-ID: 4737
DSM-Number: 10234
keywords: genome sequence, Bacteria, facultative anaerobe, mesophilic, motile, human pathogen
description: Escherichia coli Bacdive 4737 is a facultative anaerobe, mesophilic, motile human pathogen of the family Enterobacteriaceae.
NCBI tax id
- NCBI tax id: 562
- Matching level: species
strain history
@ref | history |
---|---|
3857 | <- NCIMB <- NCTC <- F. Kauffmann |
118347 | CIP <- 1952, L. Le Minor, Inst. Pasteur, Paris, France <- F. Kauffmann, Stat. Ser., Copenhagen, Denmark: strain Stoke W |
doi: 10.13145/bacdive4737.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Enterobacterales
- family: Enterobacteriaceae
- genus: Escherichia
- species: Escherichia coli
- full scientific name: Escherichia coli (Migula 1895) Castellani and Chalmers 1919 (Approved Lists 1980)
synonyms
- @ref: 20215
- synonym: Bacillus coli
@ref: 3857
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Enterobacteriales, not validated
family: Enterobacteriaceae
genus: Escherichia
species: Escherichia coli
full scientific name: Escherichia coli (Migula 1895) Castellani and Chalmers 1919
strain designation: Bacdive 4737, Stoke W
type strain: no
Morphology
cell morphology
@ref | motility | confidence | gram stain | cell shape |
---|---|---|---|---|
69480 | yes | 96.056 | ||
69480 | 99.976 | negative | ||
118347 | no | negative | rod-shaped |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
3857 | NUTRIENT AGAR (DSMZ Medium 1) | yes | https://mediadive.dsmz.de/medium/1 | Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water |
33547 | MEDIUM 72- for trypto casein soja agar | yes | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |
118347 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
3857 | positive | growth | 37 | mesophilic |
33547 | positive | growth | 30 | mesophilic |
118347 | positive | growth | 30-41 | |
118347 | no | growth | 5 | psychrophilic |
118347 | no | growth | 10 | psychrophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 118347
- oxygen tolerance: facultative anaerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.625 |
metabolite utilization
@ref | metabolite | utilization activity | kind of utilization tested | Chebi-ID |
---|---|---|---|---|
68371 | Potassium 5-ketogluconate | - | builds acid from | |
68371 | Potassium 2-ketogluconate | - | builds acid from | |
68371 | gluconate | + | builds acid from | 24265 |
68371 | L-arabitol | - | builds acid from | 18403 |
68371 | D-arabitol | - | builds acid from | 18333 |
68371 | L-fucose | + | builds acid from | 18287 |
68371 | D-fucose | - | builds acid from | 28847 |
68371 | D-tagatose | - | builds acid from | 16443 |
68371 | D-lyxose | - | builds acid from | 62318 |
68371 | turanose | - | builds acid from | 32528 |
68371 | gentiobiose | - | builds acid from | 28066 |
68371 | xylitol | - | builds acid from | 17151 |
68371 | glycogen | - | builds acid from | 28087 |
68371 | starch | - | builds acid from | 28017 |
68371 | raffinose | + | builds acid from | 16634 |
68371 | melezitose | - | builds acid from | 6731 |
68371 | inulin | - | builds acid from | 15443 |
68371 | trehalose | + | builds acid from | 27082 |
68371 | sucrose | + | builds acid from | 17992 |
68371 | melibiose | + | builds acid from | 28053 |
68371 | lactose | + | builds acid from | 17716 |
68371 | maltose | + | builds acid from | 17306 |
68371 | cellobiose | - | builds acid from | 17057 |
68371 | amygdalin | - | builds acid from | 27613 |
68371 | N-acetylglucosamine | + | builds acid from | 59640 |
68371 | methyl alpha-D-glucopyranoside | - | builds acid from | 320061 |
68371 | methyl alpha-D-mannoside | - | builds acid from | 43943 |
68371 | D-sorbitol | + | builds acid from | 17924 |
68371 | D-mannitol | + | builds acid from | 16899 |
68371 | myo-inositol | - | builds acid from | 17268 |
68371 | L-rhamnose | + | builds acid from | 62345 |
68371 | L-sorbose | - | builds acid from | 17266 |
68371 | D-mannose | + | builds acid from | 16024 |
68371 | D-fructose | + | builds acid from | 15824 |
68371 | D-glucose | + | builds acid from | 17634 |
68371 | D-galactose | + | builds acid from | 12936 |
68371 | methyl beta-D-xylopyranoside | - | builds acid from | 74863 |
68371 | ribitol | - | builds acid from | 15963 |
68371 | L-xylose | - | builds acid from | 65328 |
68371 | D-xylose | + | builds acid from | 65327 |
68371 | D-ribose | + | builds acid from | 16988 |
68371 | L-arabinose | + | builds acid from | 30849 |
68371 | erythritol | - | builds acid from | 17113 |
68371 | glycerol | + | builds acid from | 17754 |
68368 | L-arabinose | + | fermentation | 30849 |
68368 | amygdalin | - | fermentation | 27613 |
68368 | melibiose | + | fermentation | 28053 |
68368 | sucrose | - | fermentation | 17992 |
68368 | L-rhamnose | - | fermentation | 62345 |
68368 | sorbitol | + | fermentation | 30911 |
68368 | myo-inositol | - | fermentation | 17268 |
68368 | D-mannitol | + | fermentation | 16899 |
68368 | D-glucose | + | fermentation | 17634 |
68368 | gelatin | - | hydrolysis | 5291 |
68368 | tryptophan | + | energy source | 27897 |
68368 | urea | - | hydrolysis | 16199 |
68368 | citrate | - | assimilation | 16947 |
68368 | ornithine | + | degradation | 18257 |
68368 | lysine | + | degradation | 25094 |
68368 | arginine | - | hydrolysis | 29016 |
118347 | mannitol | + | fermentation | 29864 |
118347 | citrate | - | carbon source | 16947 |
118347 | glucose | + | fermentation | 17234 |
118347 | lactose | + | fermentation | 17716 |
118347 | nitrate | + | reduction | 17632 |
118347 | nitrite | + | reduction | 16301 |
118347 | malonate | - | assimilation | 15792 |
118347 | sodium thiosulfate | - | builds gas from | 132112 |
118347 | glucose | + | degradation | 17234 |
antibiotic resistance
- @ref: 118347
- metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
- is antibiotic: yes
- is sensitive: yes
- is resistant: no
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68368 | 15688 | acetoin | no |
68368 | 35581 | indole | yes |
68368 | 16136 | hydrogen sulfide | no |
118347 | 35581 | indole | yes |
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | indole test | methylred-test |
---|---|---|---|---|---|
68368 | 15688 | acetoin | - | ||
68368 | 35581 | indole | + | ||
118347 | 15688 | acetoin | - | ||
118347 | 17234 | glucose | + |
enzymes
@ref | value | activity | ec |
---|---|---|---|
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 |
68368 | gelatinase | - | |
68368 | tryptophan deaminase | - | 4.1.99.1 |
68368 | urease | - | 3.5.1.5 |
68368 | ornithine decarboxylase | + | 4.1.1.17 |
68368 | lysine decarboxylase | + | 4.1.1.18 |
68368 | arginine dihydrolase | - | 3.5.3.6 |
68368 | beta-galactosidase | + | 3.2.1.23 |
118347 | oxidase | - | |
118347 | beta-galactosidase | + | 3.2.1.23 |
118347 | alcohol dehydrogenase | - | 1.1.1.1 |
118347 | gelatinase | - | |
118347 | catalase | + | 1.11.1.6 |
118347 | lysine decarboxylase | + | 4.1.1.18 |
118347 | ornithine decarboxylase | + | 4.1.1.17 |
118347 | phenylalanine ammonia-lyase | - | 4.3.1.24 |
118347 | tryptophan deaminase | - | |
118347 | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
118347 | - | + | + | + | - | + | + | - | + | - | + | + | - | + | + | + | - | - | - | - |
API 20E
@ref | ONPG | ADH Arg | LDC Lys | ODC | CIT | H2S | URE | TDA Trp | IND | VP | GEL | GLU | MAN | INO | Sor | RHA | SAC | MEL | AMY | ARA |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
3857 | + | - | + | + | - | - | - | - | + | - | - | + | + | - | + | - | - | + | - | + |
API 50CHac
@ref | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
118347 | + | - | +/- | + | + | + | - | - | - | + | + | + | + | - | + | +/- | - | + | + | - | - | + | - | +/- | +/- | +/- | - | + | + | + | + | + | - | - | + | - | - | - | - | - | - | - | - | + | - | - | + | - | - |
API biotype100
@ref | GLU | FRU | GAL | TRE | MNE | SBE | MEL | SAC | RAF | MTE | MAL | LAC | LTE | MbGa | MaGa | CEL | GEN | MbGu | ESC | RIB | ARA | XYL | PLE | RHA | FUC | MLZ | DARL | LARL | XLT | DUL | TAG | GLY | INO | MAN | MTL | TUR | SOR | ADO | HBG | LYX | ERY | MDG | 3MDG | SAT | MUC | LTAT | DTAT | MTAT | DMLT | LMLT | CATE | TATE | TTE | CIT | GRT | GAT | 2KG | 5KG | TRY | NAG | GNT | PAC | PAT | pOBE | QAT | GTE | mOBE | BAT | PPAT | CMT | TGE | BET | PCE | ABT | HIN | LAT | CAP | CYT | HIS | SUC | FUM | GRE | GYT | AVT | ETN | TTN | GLN | ITA | 3OBU | APT | GTT | PRO | DALA | LALA | SER | MNT | PROP | TYR | 2KT |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
118347 | + | + | + | + | + | - | + | + | + | + | + | + | + | + | + | - | - | + | + | + | + | + | - | + | + | - | - | - | - | + | - | + | - | + | - | - | - | - | + | - | - | - | - | + | + | - | - | + | + | + | - | - | - | + | + | + | - | - | + | + | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | + | + | - | + | - | - | - | - | - | - | + | + | + | + | + | + | - | + | - | - |
Isolation, sampling and environmental information
isolation
@ref | country | origin.country | continent | sample type | geographic location |
---|---|---|---|---|---|
33547 | United Kingdom | GBR | Europe | ||
45530 | United Kingdom | GBR | Europe | Infantile gastroenteritis | Scotland |
118347 | United Kingdom | GBR | Europe | Human, Child, feces |
isolation source categories
Cat1 | Cat2 |
---|---|
#Infection | #Disease |
#Host Body-Site | #Gastrointestinal tract |
#Host | #Juvenile |
Safety information
risk assessment
@ref | pathogenicity human | pathogenicity animal | biosafety level | biosafety level comment |
---|---|---|---|---|
3857 | yes | yes | 2 | Risk group (German classification) |
118347 | 2 | Risk group (French classification) |
Sequence information
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Escherichia coli NCTC9111 | GCA_900449905 | contig | ncbi | 562 |
66792 | Escherichia coli strain NCTC9111 | 562.34293 | wgs | patric | 562 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
gram-positive | no | 98.216 | no |
anaerobic | no | 95.314 | no |
halophile | no | 89.815 | no |
spore-forming | no | 94.063 | no |
glucose-util | yes | 94.246 | no |
thermophile | no | 98.838 | yes |
flagellated | no | 56.37 | no |
motile | yes | 88.025 | no |
aerobic | yes | 89.029 | no |
glucose-ferment | yes | 92.826 | no |
External links
@ref: 3857
culture collection no.: DSM 10234, NCIMB 13058, NCTC 9111, CCUG 11412, ATCC 33780, CIP 52.167
straininfo link
- @ref: 74235
- straininfo: 40684
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
3857 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 10234) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-10234 | |
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 | |
33547 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/14400 | ||
45530 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 11412) | https://www.ccug.se/strain?id=11412 | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
68368 | Automatically annotated from API 20E | |||
68371 | Automatically annotated from API 50CH acid | |||
68382 | Automatically annotated from API zym | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |
74235 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID40684.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
118347 | Curators of the CIP | Collection of Institut Pasteur (CIP 52.167) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2052.167 |