Strain identifier
version 9.3 (current version)
General
@ref: 50758
BacDive-ID: 146706
keywords: genome sequence, Bacteria, Gram-negative
description: Escherichia coli CCUG 31997 is a Gram-negative bacterium that was isolated from Human feces.
NCBI tax id
- NCBI tax id: 562
- Matching level: species
doi: 10.13145/bacdive146706.20250331.9.3
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: 50758
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Enterobacterales
family: Enterobacteriaceae
genus: Escherichia
species: Escherichia coli
type strain: no
Morphology
cell morphology
- @ref: 125438
- gram stain: negative
- confidence: 99.75
Physiology and metabolism
oxygen tolerance
- @ref: 125439
- oxygen tolerance: aerobe
- confidence: 90.4
Isolation, sampling and environmental information
isolation
- @ref: 50758
- sample type: Human feces
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Human | |
| #Host Body Product | #Gastrointestinal tract | #Feces (Stool) |
Sequence information
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Escherichia coli NCTC10960 | GCA_900450135 | contig | ncbi | 562 |
| 66792 | Escherichia coli strain NCTC10960 | 562.34315 | wgs | patric | 562 |
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 99.75 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 95.787 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 87.937 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 58.746 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 98 | no |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 75.752 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 77 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 67.3 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | negative | 76.7 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | aerobe | 90.4 |
External links
@ref: 50758
culture collection no.: CCUG 31997, NCTC 10960
straininfo link
- @ref: 101531
- straininfo: 53804
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 | |
| 50758 | Curators of the CCUG | https://www.ccug.se/strain?id=31997 | Culture Collection University of Gothenburg (CCUG) (CCUG 31997) | |
| 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 | |
| 101531 | 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-ID53804.1 | |
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | 10.1101/2024.08.12.607695 | |
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 | https://github.com/GenomeNet/deepG |