Strain identifier

BacDive ID: 4881

Type strain: No

Species: Escherichia coli

Strain Designation: K12 O Rough H48

Strain history: CIP <- 1954, E. Wollman, Inst. Pasteur, Paris, France <- 1922, J. Lederberg: strain K-12, wild type

NCBI tax ID(s): 562 (species)

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General

@ref: 4259

BacDive-ID: 4881

DSM-Number: 11250

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, motile

description: Escherichia coli K12 O Rough H48 is a facultative anaerobe, mesophilic, motile bacterium that was isolated from human faeces, 1922.

NCBI tax id

  • NCBI tax id: 562
  • Matching level: species

strain history

@refhistory
4259<- CIP <- E. Wollman, Inst. Pasteur {1954} <- J. Lederberg {1922}
118690CIP <- 1954, E. Wollman, Inst. Pasteur, Paris, France <- 1922, J. Lederberg: strain K-12, wild type

doi: 10.13145/bacdive4881.20230509.8.1

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: 4259

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: K12 O Rough H48

type strain: no

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes97.485
6948099.982negative
118690yesnegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4259LB (Luria-Bertani) MEDIUM (DSMZ Medium 381)yeshttps://mediadive.dsmz.de/medium/381Name: 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
41793MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
118690CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
4259positivegrowth37mesophilic
41793positivegrowth30mesophilic
118690positivegrowth10-41
118690nogrowth5psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 118690
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.646

compound production

  • @ref: 4259
  • compound: apotryptophanase

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836817268myo-inositol-fermentation
683685291gelatin-hydrolysis
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836829016arginine-hydrolysis
11869029864mannitol+fermentation
11869016947citrate-carbon source
11869017234glucose+fermentation
11869017716lactose+fermentation
11869017632nitrate+reduction
11869016301nitrite+reduction
11869015792malonate-assimilation
118690132112sodium thiosulfate-builds gas from

antibiotic resistance

  • @ref: 118690
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

@refChebi-IDmetaboliteproduction
6836816136hydrogen sulfideno
11869035581indoleyes

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11869015688acetoin-
11869017234glucose+

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase+3.2.1.31
68382beta-galactosidase+3.2.1.23
68382alpha-galactosidase+3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin+3.4.21.4
68382cystine arylamidase+3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)-
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
68368cytochrome oxidase-1.9.3.1
68368gelatinase-
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase+3.2.1.23
118690oxidase-
118690beta-galactosidase+3.2.1.23
118690alcohol dehydrogenase-1.1.1.1
118690gelatinase-
118690catalase+1.11.1.6
118690lysine decarboxylase+4.1.1.18
118690ornithine decarboxylase-4.1.1.17
118690phenylalanine ammonia-lyase-4.3.1.24
118690tryptophan deaminase-
118690urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
118690-++--++++-++++++----

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
4259+-+-----+--++-++-+-+-
4259+--------+/--+/-----+/--+/-+/-
4259+-+-----+--++-++-+-+
4259+-+-----+--++-++-+-+-
4259+-+-----+--++-++-+-+-

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
118690+++++-+--+++-++----+++-++------+-+--+------++---++----++---++--------------+---++-+---+--+-+--+---+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
4259human faeces, 1922CaliforniaUSAUSANorth America
118690Human, FecesCaliforniaUnited States of AmericaUSANorth America

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body Product#Gastrointestinal tract#Feces (Stool)

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
42591Risk group (German classification)
1186901Risk group (French classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Escherichia coli gene for 16S rRNA, partial sequence, strain: NBRC 3301
  • accession: AB680053
  • length: 1467
  • database: ena
  • NCBI tax ID: 562

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Escherichia coli NBRC 3301GCA_010509415completencbi562
66792Escherichia coli NBRC 3301GCA_006538505contigncbi562
66792Escherichia coli NCTC10538GCA_900448235contigncbi562
66792Escherichia coli strain NBRC 3301562.50454wgspatric562
66792Escherichia coli strain NBRC3301 strain NBRC 3301562.58158completepatric562
66792Escherichia coli strain NCTC10538562.34148wgspatric562

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes87.925no
flagellatedno60.812no
gram-positiveno98.302no
anaerobicno94.863no
aerobicyes86.293no
halophileno90.355no
spore-formingno93.878no
thermophileno98.916no
glucose-utilyes93.551no
glucose-fermentyes91.86no

External links

@ref: 4259

culture collection no.: DSM 11250, CIP 54.117, IFO 3301, NBRC 3301, NCDO 1984, NCIB 10083, NCTC 10538, NCIMB 10083

straininfo link

  • @ref: 74379
  • straininfo: 11469

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
4259Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 11250)https://www.dsmz.de/collection/catalogue/details/culture/DSM-11250
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
41793Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18667
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
68382Automatically annotated from API zym
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
74379Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID11469.1StrainInfo: A central database for resolving microbial strain identifiers
118690Curators of the CIPCollection of Institut Pasteur (CIP 54.117)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2054.117