Strain identifier

BacDive ID: 4507

Type strain: No

Species: Escherichia coli

Strain Designation: C

Strain history: CIP <- 1995, ATCC <- R.L. Sinsheimer: strain C

NCBI tax ID(s): 562 (species)

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General

@ref: 1768

BacDive-ID: 4507

DSM-Number: 4860

keywords: genome sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Escherichia coli C is an aerobe, mesophilic, Gram-negative bacterium of the family Enterobacteriaceae.

NCBI tax id

  • NCBI tax id: 562
  • Matching level: species

strain history

@refhistory
1768<- NCIMB <- D.E. Bradley
118680CIP <- 1995, ATCC <- R.L. Sinsheimer: strain C

doi: 10.13145/bacdive4507.20250331.9.3

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: 1768

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: C

type strain: no

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
118680negativerod-shapedyes
125438negative99.75

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
1768LB (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
41572MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
118680CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
118680CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperature
1768positivegrowth37
41572positivegrowth30
58384positivegrowth37
118680positivegrowth10-41
118680nogrowth5

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
58384aerobe
118680facultative anaerobe
125439aerobe91.5

spore formation

  • @ref: 125439
  • spore formation: no
  • confidence: 90

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6837430911sorbitol-builds acid from
6837417268myo-inositol-builds acid from
6837417057cellobiose-builds acid from
6837462345L-rhamnose+builds acid from
6837418333D-arabitol+builds acid from
6837427082trehalose+builds acid from
6837418394palatinose-builds acid from
6837416899D-mannitol+builds acid from
68374Potassium 5-ketogluconate-builds acid from
6837418024D-galacturonic acid+builds acid from
6837418403L-arabitol-builds acid from
6837416199urea-hydrolysis
6837418257ornithine-degradation
11868029864mannitol+fermentation
11868016947citrate-carbon source
11868017234glucose+fermentation
11868017716lactose+fermentation
11868017632nitrate+reduction
11868016301nitrite-reduction
11868015792malonate-assimilation
118680132112sodium thiosulfate-builds gas from
11868017234glucose+degradation
6837430849L-arabinose+builds acid from
6837417992sucrose-builds acid from
6837417634D-glucose+builds acid from
6837427897tryptophan+energy source
6837415792malonate-assimilation
6837415963ribitol+builds acid from
6837417306maltose+builds acid from
6837425094lysine-degradation
6837429016arginine-hydrolysis
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

antibiotic resistance

  • @ref: 118680
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6837435581indoleyes
11868035581indoleyes
6836815688acetoinno
6836835581indoleyes
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-testmethylred-test
6837435581indole+
11868015688acetoin-
11868017234glucose+
6836815688acetoin-
6836835581indole+

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase-3.2.1.21
68382beta-glucuronidase+3.2.1.31
68382beta-galactosidase+3.2.1.23
68382alpha-galactosidase+3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382trypsin+3.4.21.4
68382cystine arylamidase+3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
118680oxidase-
118680beta-galactosidase+3.2.1.23
118680alcohol dehydrogenase-1.1.1.1
118680gelatinase-
118680catalase+1.11.1.6
118680lysine decarboxylase-4.1.1.18
118680ornithine decarboxylase-4.1.1.17
118680tryptophan deaminase-
118680urease-3.5.1.5
68374beta-galactosidase+3.2.1.23
68374lysine decarboxylase-4.1.1.18
68374arginine dihydrolase-3.5.3.6
68374ornithine decarboxylase-4.1.1.17
68374L-aspartate arylamidase-3.4.11.21
68374alpha-maltosidase-
68374alpha-galactosidase+3.2.1.22
68374alpha-glucosidase-3.2.1.20
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
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 zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
118680-++--++++-++++++----

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
1768+-+-----+--++-++-+-+
1768+-+-----+--++-++-+-+-

API ID32E

@refODCADH ArgLDC LysURELARLGAT5KGLIPRPbeta GLUMANMALADOPLEbeta GURMNTINDbeta NAGbeta GALGLUSACLARADARLalpha GLUalpha GALTRERHAINOCELSORalphaMALAspA
58384-----+--+-+++-+-+-++-++-+++-----

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
118680+++++-+--++++++--+--++-++-+----+-+--++-----++--+++----++---++-------++-----++--++-+---+--++++++-+--

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
17681Risk group (German classification)
1186801Risk group (French classification)

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Escherichia coli CGCA_003287245completencbi562
66792Escherichia coli CGCA_002079225completencbi498388
66792Escherichia coli C CGCA_002092895scaffoldncbi498388
66792Escherichia coli C2875683775completeimg498388
66792Escherichia coli C2913137851completeimg498388

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno99.75no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no96.62yes
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no69.453no
125438spore-formingspore-formingAbility to form endo- or exosporesno88.95no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno98.5yes
125438motile2+flagellatedAbility to perform flagellated movementyes75.85no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno90
125439BacteriaNetmotilityAbility to perform movementyes64.3
125439BacteriaNetgram_stainReaction to gram-stainingnegative85.8
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthaerobe91.5

External links

@ref: 1768

culture collection no.: DSM 4860, ATCC 13706, NCIB 10544, CCUG 48888, CIP 104337, ATCC 25312, NCIMB 12416

straininfo link

  • @ref: 74000
  • straininfo: 35862

Reference

@idauthorscataloguedoi/urltitle
1768Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 4860)https://www.dsmz.de/collection/catalogue/details/culture/DSM-4860
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
41572Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16235
58384Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 48888)https://www.ccug.se/strain?id=48888
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
68374Automatically annotated from API ID32E
68382Automatically annotated from API zym
74000Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID35862.1StrainInfo: A central database for resolving microbial strain identifiers
118680Curators of the CIPCollection of Institut Pasteur (CIP 104337)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104337
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1