Strain identifier
BacDive ID: 145674
Type strain:
Species: Escherichia coli
Strain Designation: C984
Strain history: CIP <- 1999, D. Fréchon, Sanofi, Marnes la Coquette, France <- 1997, ATCC <- CDC: strain C984
NCBI tax ID(s): 562 (species)
General
@ref: 49541
BacDive-ID: 145674
keywords: genome sequence, Bacteria, aerobe, mesophilic, motile
description: Escherichia coli C984 is an aerobe, mesophilic, motile bacterium that was isolated from Human feces.
NCBI tax id
- NCBI tax id: 562
- Matching level: species
strain history
- @ref: 118677
- history: CIP <- 1999, D. Fréchon, Sanofi, Marnes la Coquette, France <- 1997, ATCC <- CDC: strain C984
doi: 10.13145/bacdive145674.20230509.8.1
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: 49541
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Enterobacterales
family: Enterobacteriaceae
genus: Escherichia
species: Escherichia coli
strain designation: C984
type strain: no
Morphology
cell morphology
@ref | motility | confidence | gram stain | cell shape |
---|---|---|---|---|
69480 | yes | 97.085 | ||
69480 | 99.978 | negative | ||
118677 | yes | negative | rod-shaped |
colony morphology
- @ref: 118677
Culture and growth conditions
culture medium
@ref | name | growth | link |
---|---|---|---|
118677 | CIP Medium 3 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3 |
118677 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
49541 | positive | growth | 37 | mesophilic |
118677 | positive | growth | 30-41 | |
118677 | no | growth | 5 | psychrophilic |
118677 | no | growth | 10 | psychrophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
49541 | aerobe |
118677 | facultative anaerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
69480 | no | 99.552 |
69481 | no | 100 |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
118677 | 29864 | mannitol | + | fermentation |
118677 | 16947 | citrate | - | carbon source |
118677 | 4853 | esculin | - | hydrolysis |
118677 | 17234 | glucose | + | fermentation |
118677 | 17716 | lactose | + | fermentation |
118677 | 17632 | nitrate | + | reduction |
118677 | 16301 | nitrite | + | reduction |
118677 | 15792 | malonate | - | assimilation |
118677 | 132112 | sodium thiosulfate | - | builds gas from |
118677 | 17234 | glucose | + | degradation |
antibiotic resistance
- @ref: 118677
- metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
- is antibiotic: yes
- is sensitive: no
- is resistant: yes
metabolite production
- @ref: 118677
- Chebi-ID: 35581
- metabolite: indole
- production: yes
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | methylred-test |
---|---|---|---|---|
118677 | 15688 | acetoin | - | |
118677 | 17234 | glucose | + |
enzymes
@ref | value | activity | ec |
---|---|---|---|
118677 | oxidase | - | |
118677 | beta-galactosidase | + | 3.2.1.23 |
118677 | alcohol dehydrogenase | - | 1.1.1.1 |
118677 | gelatinase | - | |
118677 | catalase | + | 1.11.1.6 |
118677 | lysine decarboxylase | + | 4.1.1.18 |
118677 | ornithine decarboxylase | + | 4.1.1.17 |
118677 | phenylalanine ammonia-lyase | - | 4.3.1.24 |
118677 | tryptophan deaminase | - | |
118677 | urease | - | 3.5.1.5 |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68382 | esterase (C 4) | - | |
68382 | esterase lipase (C 8) | - | |
68382 | lipase (C 14) | - | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | valine arylamidase | - | |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | trypsin | - | 3.4.21.4 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | alpha-galactosidase | + | 3.2.1.22 |
68382 | beta-galactosidase | + | 3.2.1.23 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | alpha-glucosidase | + | 3.2.1.20 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
118677 | - | + | - | - | - | + | - | - | - | - | + | + | + | + | - | + | - | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
118677 | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + | - | - | + | - | + | + | + | - | + | + | - | - | - | - | + | - | + | - | + | - | - | - | - | - | + | - | - | - | + | + | + | - | + | + | + | - | - | - | - | + | + | + | - | - | + | + | - | - | - | - | + | + | - | + | + | - | - | - | - | - | + | - | - | - | + | + | - | + | - | - | - | - | - | - | + | + | + | + | + | + | - | + | - | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
49541 | Human feces | California | USA | USA | North America |
118677 | Human, Feces | California | United States of America | USA | North America |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Human | |
#Host Body Product | #Gastrointestinal tract | #Feces (Stool) |
Safety information
risk assessment
- @ref: 118677
- biosafety level: 3
- biosafety level comment: Risk group (French classification)
Sequence information
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Escherichia coli O157:H7 strain CFSAN076619 | 83334.299 | complete | patric | 83334 |
66792 | Escherichia coli O157:H7 ATCC 43890 | GCA_009650175 | complete | ncbi | 83334 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 87.084 | no |
flagellated | no | 59.744 | no |
gram-positive | no | 97.926 | no |
anaerobic | no | 94.735 | yes |
halophile | no | 90.796 | no |
spore-forming | no | 93.888 | no |
thermophile | no | 99.109 | no |
glucose-util | yes | 94.3 | no |
aerobic | yes | 85.175 | no |
glucose-ferment | yes | 93.636 | no |
External links
@ref: 49541
culture collection no.: CCUG 29193, ATCC 43890, CIP 106325
straininfo link
- @ref: 100652
- straininfo: 42108
Reference
@id | authors | title | doi/url | catalogue |
---|---|---|---|---|
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | 10.1099/ijsem.0.004332 | |
49541 | Curators of the CCUG | https://www.ccug.se/strain?id=29193 | Culture Collection University of Gothenburg (CCUG) (CCUG 29193) | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
68382 | Automatically annotated from API zym | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |
100652 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID42108.1 | |
118677 | Curators of the CIP | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106325 | Collection of Institut Pasteur (CIP 106325) |