Escherichia coli 13706/60 is a mesophilic human pathogen of the family Enterobacteriaceae.
mesophilic human pathogen genome sequence| @ref 20215 |
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| Domain Pseudomonadati |
| 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 (1) |
| @ref | Name | Growth | Medium link | Composition | |
|---|---|---|---|---|---|
| 4650 | BHI MEDIUM (DSMZ Medium 215) | Medium recipe at MediaDive | Name: BHI MEDIUM (DSMZ Medium 215) Composition: Brain heart infusion 37.0 g/l Distilled water |
| @ref | Growth | Type | Temperature (°C) | Range | |
|---|---|---|---|---|---|
| 4650 | positive | growth | 35 | mesophilic |
| @ref | Oxygen tolerance | Confidence | |
|---|---|---|---|
| 125439 | aerobe | 94.5 |
| @ref | Spore formation | Confidence | |
|---|---|---|---|
| 125439 | 93 |
| @ref | Chebi-ID | Metabolite | Utilization activity | Kind of utilization tested | |
|---|---|---|---|---|---|
| 68368 | 27613 ChEBI | amygdalin | - | fermentation | from API 20E |
| 68368 | 29016 ChEBI | arginine | - | hydrolysis | from API 20E |
| 68368 | 16947 ChEBI | citrate | - | assimilation | from API 20E |
| 68368 | 17634 ChEBI | D-glucose | + | fermentation | from API 20E |
| 68368 | 16899 ChEBI | D-mannitol | + | fermentation | from API 20E |
| 68368 | 5291 ChEBI | gelatin | - | hydrolysis | from API 20E |
| 68368 | 30849 ChEBI | L-arabinose | + | fermentation | from API 20E |
| 68368 | 62345 ChEBI | L-rhamnose | + | fermentation | from API 20E |
| 68368 | 25094 ChEBI | lysine | - | degradation | from API 20E |
| 68368 | 28053 ChEBI | melibiose | + | fermentation | from API 20E |
| 68368 | 17268 ChEBI | myo-inositol | - | fermentation | from API 20E |
| 68368 | 18257 ChEBI | ornithine | - | degradation | from API 20E |
| 68368 | 30911 ChEBI | sorbitol | + | fermentation | from API 20E |
| 68368 | 17992 ChEBI | sucrose | - | fermentation | from API 20E |
| 68368 | 27897 ChEBI | tryptophan | + | energy source | from API 20E |
| 68368 | 16199 ChEBI | urea | - | hydrolysis | from API 20E |
| @ref | Value | Activity | Ec | |
|---|---|---|---|---|
| 68368 | arginine dihydrolase | - | 3.5.3.6 | from API 20E |
| 68368 | beta-galactosidase | + | 3.2.1.23 | from API 20E |
| 68368 | cytochrome oxidase | - | 1.9.3.1 | from API 20E |
| 68368 | gelatinase | - | from API 20E | |
| 68368 | lysine decarboxylase | - | 4.1.1.18 | from API 20E |
| 68368 | ornithine decarboxylase | - | 4.1.1.17 | from API 20E |
| 68368 | tryptophan deaminase | - | 4.1.99.1 | from API 20E |
| 68368 | urease | - | 3.5.1.5 | from API 20E |
| @ref | ONPG | ADH (Arg) | LDC (Lys) | ODC | CIT | H2S productionH2S | URE | TDA (Trp) | IND | Acetoin production (Voges Proskauer test)VP | GEL | GLU | MAN | INO | Sor | RHA | SAC | MEL | AMY | ARA | OX | Nitrite productionNO2 | Reduction to N2N2 | MotilityMOB | Growth on MacConkey mediumMAC | OF-O | OF-F | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 4650 | + | - | - | - | - | - | - | - | + | - | - | + | + | - | + | + | - | + | - | + | - | not determinedn.d. | not determinedn.d. | not determinedn.d. | not determinedn.d. | not determinedn.d. | not determinedn.d. |
| @ref | Description | Assembly level | INSDC accession | BV-BRC accession | NCBI tax ID | Score | |
|---|---|---|---|---|---|---|---|
| 66792 | ASM784485v1 assembly for Escherichia coli DSM 12242 | contig | 562 | 63.46 |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125439 | spore_formation | BacteriaNetⓘ | no | 93.00 | no |
| 125439 | motility | BacteriaNetⓘ | yes | 66.80 | no |
| 125439 | gram_stain | BacteriaNetⓘ | negative | 90.50 | no |
| 125439 | oxygen_tolerance | BacteriaNetⓘ | aerobe | 94.50 | no |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positiveⓘ | no | 99.75 | no |
| 125438 | anaerobic | anaerobicⓘ | no | 96.60 | no |
| 125438 | spore-forming | spore-formingⓘ | no | 87.45 | no |
| 125438 | aerobic | aerobicⓘ | no | 65.00 | no |
| 125438 | thermophilic | thermophileⓘ | no | 98.00 | yes |
| 125438 | flagellated | motile2+ⓘ | yes | 75.39 | no |
| Topic | Title | Authors | Journal | DOI | Year | |
|---|---|---|---|---|---|---|
| Draft Genome Sequence of Escherichia coli DSM 12242, a Highly Efficient Host Strain for the Isolation of Somatic Coliphages. | Pacifico C, Sofka D, Carrico JA, Hilbert F. | Microbiol Resour Announc | 10.1128/mra.00953-19 | 2019 | ||
| Antimicrobial Resistance in Escherichia coli and Resistance Genes in Coliphages from a Small Animal Clinic and in a Patient Dog with Chronic Urinary Tract Infection. | Zechner V, Sofka D, Paulsen P, Hilbert F. | Antibiotics (Basel) | 10.3390/antibiotics9100652 | 2020 | ||
| Characterization of Bacteria and Inducible Phages in an Intensive Care Unit. | Pacifico C, Hilbert M, Sofka D, Dinhopl N, Pap IJ, Aspock C, Hilbert F. | J Clin Med | 10.3390/jcm8091433 | 2019 | ||
| Natural Occurrence of Escherichia coli-Infecting Bacteriophages in Clinical Samples. | Pacifico C, Hilbert M, Sofka D, Dinhopl N, Pap IJ, Aspock C, Carrico JA, Hilbert F. | Front Microbiol | 10.3389/fmicb.2019.02484 | 2019 | ||
| Pathogenicity | Bacteriophages of Shiga Toxin-Producing Escherichia coli and Their Contribution to Pathogenicity. | Rodriguez-Rubio L, Haarmann N, Schwidder M, Muniesa M, Schmidt H. | Pathogens | 10.3390/pathogens10040404 | 2021 | |
| Bacteriophages Isolated from Chicken Meat and the Horizontal Transfer of Antimicrobial Resistance Genes. | Shousha A, Awaiwanont N, Sofka D, Smulders FJ, Paulsen P, Szostak MP, Humphrey T, Hilbert F. | Appl Environ Microbiol | 10.1128/aem.00872-15 | 2015 |
| #4650 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 12242 |
| #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. IJSEM ( DOI 10.1099/ijsem.0.004332 ) |
| #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) . |
| #68368 | Automatically annotated from API 20E . |
| #125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 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 . |
| #126262 | A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 ) |
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