Escherichia coli MRE-600 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 | |
|---|---|---|---|---|---|
| 1502 | LB (Luria-Bertani) MEDIUM (DSMZ Medium 381) | Medium recipe at MediaDive | Name: LB (Luria-Bertani) MEDIUM (DSMZ Medium 381) Composition: Agar 20.0 g/l NaCl 10.0 g/l Tryptone 10.0 g/l Yeast extract 5.0 g/l Distilled water |
| @ref | Growth | Type | Temperature (°C) | Range | |
|---|---|---|---|---|---|
| 1502 | positive | growth | 37 | mesophilic |
| @ref | Oxygen tolerance | Confidence | |
|---|---|---|---|
| 125439 | aerobe | 96.3 |
| @ref | Spore formation | Confidence | |
|---|---|---|---|
| 125439 | 94.1 |
| @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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1502 | + | - | + | + | - | - | - | - | - | - | - | + | + | - | + | + | - | + | - | + | not determinedn.d. | not determinedn.d. | not determinedn.d. | not determinedn.d. | not determinedn.d. | not determinedn.d. | not determinedn.d. | |
| 1502 | + | - | + | + | - | - | - | - | - | - | - | + | + | - | + | + | - | + | - | + | - | not determinedn.d. | not determinedn.d. | not determinedn.d. | not determinedn.d. | not determinedn.d. | not determinedn.d. | |
| 1502 | + | - | + | + | - | - | - | - | - | - | - | + | + | - | + | + | - | + | - | + | - | not determinedn.d. | not determinedn.d. | not determinedn.d. | not determinedn.d. | not determinedn.d. | not determinedn.d. |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125439 | spore_formation | BacteriaNetⓘ | no | 94.10 | no |
| 125439 | motility | BacteriaNetⓘ | yes | 82.10 | no |
| 125439 | gram_stain | BacteriaNetⓘ | negative | 99.10 | no |
| 125439 | oxygen_tolerance | BacteriaNetⓘ | aerobe | 96.30 | no |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positiveⓘ | no | 99.75 | no |
| 125438 | anaerobic | anaerobicⓘ | no | 96.05 | no |
| 125438 | spore-forming | spore-formingⓘ | no | 88.49 | no |
| 125438 | aerobic | aerobicⓘ | no | 59.82 | no |
| 125438 | thermophilic | thermophileⓘ | no | 98.00 | no |
| 125438 | flagellated | motile2+ⓘ | yes | 74.82 | no |
| Title | Authors | Journal | DOI | Year | |
|---|---|---|---|---|---|
| Ribosome purification from Escherichia coli by ultracentrifugation. | Cui Y, Chen X, Wang Z, Lu Y. | Biotechnol Notes | 10.1016/j.biotno.2022.12.003 | 2022 | |
| Cell-Free PURE System: Evolution and Achievements. | Cui Y, Chen X, Wang Z, Lu Y. | Biodes Res | 10.34133/2022/9847014 | 2022 | |
| Genome Sequence and Analysis of Escherichia coli MRE600, a Colicinogenic, Nonmotile Strain that Lacks RNase I and the Type I Methyltransferase, EcoKI. | Kurylo CM, Alexander N, Dass RA, Parks MM, Altman RA, Vincent CT, Mason CE, Blanchard SC. | Genome Biol Evol | 10.1093/gbe/evw008 | 2016 | |
| Extensive ribosome and RF2 rearrangements during translation termination. | Svidritskiy E, Demo G, Loveland AB, Xu C, Korostelev AA. | Elife | 10.7554/elife.46850 | 2019 | |
| mRNA stem-loops can pause the ribosome by hindering A-site tRNA binding. | Bao C, Loerch S, Ling C, Korostelev AA, Grigorieff N, Ermolenko DN. | Elife | 10.7554/elife.55799 | 2020 | |
| Synergy of streptogramin antibiotics occurs independently of their effects on translation. | Noeske J, Huang J, Olivier NB, Giacobbe RA, Zambrowski M, Cate JH. | Antimicrob Agents Chemother | 10.1128/aac.03389-14 | 2014 | |
| Structure of the bacterial ribosome at 2 Å resolution. | Watson ZL, Ward FR, Meheust R, Ad O, Schepartz A, Banfield JF, Cate JH. | Elife | 10.7554/elife.60482 | 2020 | |
| Small RNAs in mycobacteria: an unfolding story. | Haning K, Cho SH, Contreras LM. | Front Cell Infect Microbiol | 10.3389/fcimb.2014.00096 | 2014 | |
| 1H nuclear magnetic resonance study of oxazolidinone binding to bacterial ribosomes. | Zhou CC, Swaney SM, Shinabarger DL, Stockman BJ. | Antimicrob Agents Chemother | 10.1128/aac.46.3.625-629.2002 | 2002 | |
| The oxazolidinone linezolid inhibits initiation of protein synthesis in bacteria. | Swaney SM, Aoki H, Ganoza MC, Shinabarger DL. | Antimicrob Agents Chemother | 10.1128/aac.42.12.3251 | 1998 | |
| Mechanism of action of oxazolidinones: effects of linezolid and eperezolid on translation reactions. | Shinabarger DL, Marotti KR, Murray RW, Lin AH, Melchior EP, Swaney SM, Dunyak DS, Demyan WF, Buysse JM. | Antimicrob Agents Chemother | 10.1128/aac.41.10.2132 | 1997 | |
| Role of curved DNA in binding of Escherichia coli RNA polymerase to promoters. | Nickerson CA, Achberger EC. | J Bacteriol | 10.1128/jb.177.20.5756-5761.1995 | 1995 | |
| Two distinct components of release factor function uncovered by nucleophile partitioning analysis. | Shaw JJ, Green R. | Mol Cell | 10.1016/j.molcel.2007.09.007 | 2007 | |
| Mechanism of action of DuP 721: inhibition of an early event during initiation of protein synthesis. | Eustice DC, Feldman PA, Zajac I, Slee AM. | Antimicrob Agents Chemother | 10.1128/aac.32.8.1218 | 1988 | |
| Processing and termination of 23S rRNA-5S rRNA-tRNA(Gly) primary transcripts in Thermus thermophilus HB8. | Hartmann RK, Toschka HY, Erdmann VA. | J Bacteriol | 10.1128/jb.173.8.2681-2690.1991 | 1991 | |
| Spectrum and mode of action of azithromycin (CP-62,993), a new 15-membered-ring macrolide with improved potency against gram-negative organisms. | Retsema J, Girard A, Schelkly W, Manousos M, Anderson M, Bright G, Borovoy R, Brennan L, Mason R. | Antimicrob Agents Chemother | 10.1128/aac.31.12.1939 | 1987 | |
| Thermal Analysis of a Mixture of Ribosomal Proteins by vT-ESI-MS: Toward a Parallel Approach for Characterizing the Stabilitome. | El-Baba TJ, Raab SA, Buckley RP, Brown CJ, Lutomski CA, Henderson LW, Woodall DW, Shen J, Trinidad JC, Niu H, Jarrold MF, Russell DH, Laganowsky A, Clemmer DE. | Anal Chem | 10.1021/acs.analchem.1c00772 | 2021 | |
| Role of membrane fluidity in pressure resistance of Escherichia coli NCTC 8164. | Casadei MA, Manas P, Niven G, Needs E, Mackey BM. | Appl Environ Microbiol | 10.1128/aem.68.12.5965-5972.2002 | 2002 | |
| New mathematical modeling approach for predicting microbial inactivation by high hydrostatic pressure. | Klotz B, Pyle DL, Mackey BM. | Appl Environ Microbiol | 10.1128/aem.02211-06 | 2007 | |
| Effect of centrifugation on the pressure resistance of exponential phase cells of Escherichia coli 8164. | Casadei MA, Mackey BM. | Lett Appl Microbiol | 10.1111/j.1472-765x.1997.tb00004.x | 1997 | |
| Evaluation of the heat inactivation of Escherichia coli and Lactobacillus plantarum by differential scanning calorimetry. | Lee J, Kaletunc G. | Appl Environ Microbiol | 10.1128/aem.68.11.5379-5386.2002 | 2002 |
| #1502 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 3901 |
| #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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