Strain identifier

BacDive ID: 4516

Type strain: No

Species: Escherichia coli

Strain Designation: O55:K59(B5):H

Strain history: <- ATCC <- CDC, 5624-50

NCBI tax ID(s): 562 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 1820

BacDive-ID: 4516

DSM-Number: 4779

keywords: genome sequence, Bacteria, aerobe, mesophilic, motile, human pathogen

description: Escherichia coli O55:K59:H is an aerobe, mesophilic, motile human pathogen of the family Enterobacteriaceae.

NCBI tax id

  • NCBI tax id: 562
  • Matching level: species

strain history

  • @ref: 1820
  • history: <- ATCC <- CDC, 5624-50

doi: 10.13145/bacdive4516.20230509.8.1

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: 1820

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: O55:K59(B5):H

type strain: no

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes97.093
6948099.98negative

Culture and growth conditions

culture medium

  • @ref: 1820
  • name: NUTRIENT AGAR (DSMZ Medium 1)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1
  • composition: 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

culture temp

@refgrowthtypetemperaturerange
1820positivegrowth37mesophilic
51302positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 51302
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.744

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836830849L-arabinose+fermentation
6836827613amygdalin-fermentation
6836828053melibiose+fermentation
6836817992sucrose+fermentation
6836862345L-rhamnose-fermentation
6836830911sorbitol+fermentation
6836817268myo-inositol-fermentation
6836816899D-mannitol+fermentation
6836817634D-glucose+fermentation
683685291gelatin-hydrolysis
6836827897tryptophan+energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine+degradation
6836829016arginine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
6836835581indoleyes
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin-
6836835581indole+

enzymes

@refvalueactivityec
68368cytochrome oxidase-1.9.3.1
68368gelatinase-
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase+4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase+3.2.1.23

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
1820+-+-----+--++-+-++-+
1820+-+-----+--++-+-++-+-

Safety information

risk assessment

  • @ref: 1820
  • pathogenicity human: yes
  • pathogenicity animal: yes
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Escherichia coli NCTC9701GCA_900449515contigncbi562
66792Escherichia coli strain FDAARGOS_946562.68638completepatric562
66792Escherichia coli strain NCTC9701562.34261wgspatric562

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveno98.029no
anaerobicno94.275no
halophileno90.598no
spore-formingno93.93no
glucose-utilyes94.254no
flagellatedno58.544no
thermophileno99.162no
motileyes89.397no
aerobicyes83.587yes
glucose-fermentyes93.41no

External links

@ref: 1820

culture collection no.: DSM 4779, ATCC 12014, NCTC 9701, CCUG 32986, DSM 5921, CDC 5624-50

straininfo link

  • @ref: 74008
  • straininfo: 35469

Reference

@idauthorscataloguedoi/urltitle
1820Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 4779)https://www.dsmz.de/collection/catalogue/details/culture/DSM-4779
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
51302Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 32986)https://www.ccug.se/strain?id=32986
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
68368Automatically annotated from API 20E
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
74008Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID35469.1StrainInfo: A central database for resolving microbial strain identifiers