Strain identifier

BacDive ID: 4931

Type strain: No

Species: Escherichia fergusonii

Strain Designation: Ef137

Strain history: <- V. Savini, Spirito Santo Hospital, Microbiology and Virology; Ef137

NCBI tax ID(s): 564 (species)

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General

@ref: 18119

BacDive-ID: 4931

DSM-Number: 25831

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

description: Escherichia fergusonii Ef137 is a mesophilic, motile human pathogen that was isolated from stool sample.

NCBI tax id

  • NCBI tax id: 564
  • Matching level: species

strain history

  • @ref: 18119
  • history: <- V. Savini, Spirito Santo Hospital, Microbiology and Virology; Ef137

doi: 10.13145/bacdive4931.20230509.8.1

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 fergusonii
  • full scientific name: Escherichia fergusonii Farmer et al. 1985

@ref: 18119

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Enterobacteriaceae

genus: Escherichia

species: Escherichia fergusonii

full scientific name: Escherichia fergusonii Farmer et al. 1985

strain designation: Ef137

type strain: no

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes96.833
6948099.976negative

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
18119NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
18119TRYPTICASE 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
18119COLUMBIA 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

culture temp

@refgrowthtypetemperaturerange
18119positivegrowth28mesophilic
18119positivegrowth30mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.572

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
18119+-++----+--++--+--++-

Isolation, sampling and environmental information

isolation

  • @ref: 18119
  • sample type: stool sample
  • geographic location: Abruzzo, Pescara (PE)
  • country: Italy
  • origin.country: ITA
  • continent: Europe
  • latitude: 42.4667
  • longitude: 14.2167

isolation source categories

  • Cat1: #Host Body Product
  • Cat2: #Gastrointestinal tract
  • Cat3: #Feces (Stool)

Safety information

risk assessment

  • @ref: 18119
  • pathogenicity human: yes
  • pathogenicity animal: yes
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

Genome sequences

  • @ref: 66792
  • description: Escherichia fergusonii strain FDAARGOS 1438
  • accession: 564.167
  • assembly level: complete
  • database: patric
  • NCBI tax ID: 564

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveno98.355no
anaerobicno97.206no
halophileno84.959no
spore-formingno94.145no
glucose-utilyes92.187no
thermophileno98.539no
flagellatedno50.625no
motileyes88.469no
aerobicyes89.878no
glucose-fermentyes91.222yes

External links

@ref: 18119

culture collection no.: DSM 25831

straininfo link

  • @ref: 74428
  • straininfo: 401795

Reference

@idauthorscataloguedoi/urltitle
18119Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25831)https://www.dsmz.de/collection/catalogue/details/culture/DSM-25831
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
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
74428Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID401795.1StrainInfo: A central database for resolving microbial strain identifiers