Strain identifier

BacDive ID: 132730

Type strain: No

Species: Escherichia coli

Strain Designation: E2

Strain history: <- NCTC; NCTC 13846 <- AMRHAI, Public Health England, Colindale; E2

NCBI tax ID(s): 562 (species)

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General

@ref: 24520

BacDive-ID: 132730

DSM-Number: 105182

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

description: Escherichia coli E2 is an aerobe, mesophilic, motile human pathogen that has multiple antibiotic resistances and was isolated from bloodculture, human bacteraemia.

NCBI tax id

  • NCBI tax id: 562
  • Matching level: species

strain history

  • @ref: 24520
  • history: <- NCTC; NCTC 13846 <- AMRHAI, Public Health England, Colindale; E2

doi: 10.13145/bacdive132730.20230509.8.1

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: 24520

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: E2

type strain: no

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes96.745
6948099.994negative

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
24520COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
24520TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
24520positivegrowth37mesophilic
63750positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 63750
  • oxygen tolerance: aerobe

antibiogram

@refmediumincubation temperatureoxygen conditionPenicillin Goxacillinampicillinticarcillinmezlocillincefalotincefazolincefotaximeaztreonamimipenemtetracyclinechloramphenicolgentamycinamikacinvancomycinerythromycinlincomycinofloxacinnorfloxacincolistinpipemidic acidnitrofurantoinbacitracinpolymyxin bkanamycinneomycindoxycyclineceftriaxoneclindamycinfosfomycinmoxifloxacinlinezolidnystatinquinupristin/dalfopristinteicoplaninpiperacillin/tazobactam
24520Mueller-Hinton Agar37aerob00001614-1622323632-340024260000012-14022014-16222010-12320360000024
24520Mueller-Hinton Agar37aerob000016142232-343634-360024240000010-12022014222010320360000024-26
24520Mueller-Hinton Agar37aerob000016142232343200222468-1000012022016242010-1230-320340000024

spore formation

@refspore formationconfidence
69481no100
69480no99.873

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836827613amygdalin-fermentation
6836828053melibiose+fermentation
6836817992sucrose+fermentation
6836862345L-rhamnose+fermentation
6836830911sorbitol+fermentation
6836817268myo-inositol-fermentation
6836816899D-mannitol+fermentation
6836817634D-glucose+fermentation
683685291gelatin-hydrolysis
6836816199urea-hydrolysis
6836818257ornithine-degradation
6836825094lysine+degradation
6836829016arginine-hydrolysis
6837418257ornithine-degradation
6837429016arginine-hydrolysis
6837425094lysine+degradation
6837416199urea-hydrolysis
6837418403L-arabitol-builds acid from
6837418024D-galacturonic acid+builds acid from
68374Potassium 5-ketogluconate-builds acid from
6837416899D-mannitol+builds acid from
6837417306maltose+builds acid from
6837415963ribitol-builds acid from
6837418394palatinose-builds acid from
6837415792malonate-assimilation
6837427897tryptophan+energy source
6837417634D-glucose+builds acid from
6837417992sucrose+builds acid from
6837430849L-arabinose+builds acid from
6837418333D-arabitol-builds acid from
6837427082trehalose+builds acid from
6837462345L-rhamnose+builds acid from
6837417268myo-inositol-builds acid from
6837417057cellobiose-builds acid from
6837430911sorbitol-builds acid from

metabolite production

@refChebi-IDmetaboliteproduction
6837435581indoleyes
6836816136hydrogen sulfideno

metabolite tests

  • @ref: 68374
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: +

enzymes

@refvalueactivityec
68374L-aspartate arylamidase-3.4.11.21
68374alpha-maltosidase-
68374alpha-galactosidase+3.2.1.22
68374alpha-glucosidase-3.2.1.20
68374beta-galactosidase+3.2.1.23
68374N-acetyl-beta-glucosaminidase-3.2.1.52
68374beta-glucuronidase+3.2.1.31
68374beta-glucosidase-3.2.1.21
68374lipase-
68374urease-3.5.1.5
68374lysine decarboxylase+4.1.1.18
68374arginine dihydrolase-3.5.3.6
68374ornithine decarboxylase-4.1.1.17
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
24520+-+-+----+/--++-++++-+-
24520+-+-----+--++-++++--+
24520+-+-----++-++-++++-+-
63750+-+-----+--++-++++-+-

API ID32E

@refODCADH ArgLDC LysURELARLGAT5KGLIPRPbeta GLUMANMALADOPLEbeta GURMNTINDbeta NAGbeta GALGLUSACLARADARLalpha GLUalpha GALTRERHAINOCELSORalphaMALAspA
63750--+--+--+-++--+-+-++++--+++-----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
24520bloodculture, human bacteraemiaGreater LondonUnited KingdomGBREurope
63750Human bloodGreater LondonUnited KingdomGBREurope2013-10-01

isolation source categories

Cat1Cat2Cat3
#Infection#Patient#Blood culture
#Host#Human

Safety information

risk assessment

  • @ref: 24520
  • 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 E2GCA_020883515completencbi562
66792Escherichia coli E2GCA_018884065completencbi562
66792Escherichia coli NCTC13846GCA_900448335contigncbi562
66792Escherichia coli E2GCA_900536525contigncbi562
66792Escherichia coli E2GCA_003328095contigncbi562
66792Escherichia coli E2GCA_900169685scaffoldncbi562
66792Escherichia coli E2GCA_001509655scaffoldncbi562
66792Escherichia coli E2GCA_017162475contigncbi562
66792Escherichia coli E2GCA_001693555scaffoldncbi562
66792Escherichia coli E2GCA_002277135scaffoldncbi562
66792Escherichia coli E2GCA_020556585contigncbi562
66792Escherichia coli strain NCTC13846562.34155wgspatric562
66792Escherichia coli E22728368974draftimg562
66792Escherichia coli E2GCA_025369675completencbi562

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno58.256no
gram-positiveno98.363no
anaerobicno95.018no
aerobicyes85.324yes
halophileno88.942no
spore-formingno93.529no
motileyes90.237no
thermophileno98.956yes
glucose-utilyes94.386no
glucose-fermentyes92.453yes

External links

@ref: 24520

culture collection no.: DSM 105182, NCTC 13846, CCUG 70662

straininfo link

  • @ref: 91034
  • straininfo: 402814

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
24520Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-105182Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 105182)
63750Curators of the CCUGhttps://www.ccug.se/strain?id=70662Culture Collection University of Gothenburg (CCUG) (CCUG 70662)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
68368Automatically annotated from API 20E
68374Automatically annotated from API ID32E
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions 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
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
91034Reimer, 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 identifiers10.60712/SI-ID402814.1