Strain identifier

BacDive ID: 4427

Type strain: No

Species: Escherichia coli

Strain Designation: Seattle 1946

Strain history: Y. Kosako <-- R. Sakazaki <-- ATCC 25922 <-- FDA strain Seattle 1946 <-- F. Schoenknecht.

NCBI tax ID(s): 1236527 (strain), 1322345 (strain), 562 (species)

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General

@ref: 552

BacDive-ID: 4427

DSM-Number: 1103

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile, antibiotic resistance, human pathogen

description: Escherichia coli Seattle 1946 is a mesophilic, motile human pathogen that has multiple antibiotic resistances and was isolated from clinical isolate.

NCBI tax id

NCBI tax idMatching level
1322345strain
1236527strain
562species

strain history

@refhistory
552<- ATCC <- FDA, strain Seattle 1946 <- F. Schoenknecht
67770Y. Kosako <-- R. Sakazaki <-- ATCC 25922 <-- FDA strain Seattle 1946 <-- F. Schoenknecht.

doi: 10.13145/bacdive4427.20230509.8.1

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: 552

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: Seattle 1946

type strain: no

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes96.319
6948099.994negative

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
552NUTRIENT 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
41789MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)

culture temp

@refgrowthtypetemperaturerange
552positivegrowth37mesophilic
41789positivegrowth30mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

antibiogram

@refmediumincubation temperatureincubation timeoxygen conditionPenicillin Goxacillinampicillinticarcillinmezlocillincefalotincefazolincefotaximeaztreonamimipenemtetracyclinechloramphenicolgentamycinamikacinvancomycinerythromycinlincomycinofloxacinnorfloxacincolistinpipemidic acidnitrofurantoinbacitracinpolymyxin bkanamycinneomycindoxycyclineceftriaxoneclindamycinfosfomycinmoxifloxacinlinezolidnystatinquinupristin/dalfopristinteicoplaninpiperacillin/tazobactam
552Mueller-Hinton Agar371aerob0020282418263434302828-3022-2424-26010032-3434142824014-162220-22223403232600024
552Mueller-Hinton Agar37aerob0018-203024-261826-283634-363428-30302424810036381428-30240162220-22223403434-366-800026
552Mueller-Hinton Agar331aerob0018302420283838343024-2622220108404014-163226016221824-2636032-3438-40000026
552Mueller-Hinton Agar301aerob0018-203026203038383630302424014040-42421430-3224-260162420243803240600026-28
552Mueller-Hinton Agar37001830282232-3440403830-322824-2624-261012-140383816-18302601624-262026n.d.n.d.n.d.n.d.n.d.n.d.n.d.n.d.n.d.
552Mueller-Hinton Agar37aerob00182824182634343426242020060323214282401620182036032-3430606026
552Mueller-Hinton Agar37aerob00182824182634343426242020060323214282401620182036032-3430606026

spore formation

@refspore formationconfidence
69481no100
69480no99.895

compound production

  • @ref: 552
  • compound: extended spectrum ß-lactamase ESBL

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
6836825094lysine+degradation

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
68368lysine decarboxylase+4.1.1.18

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    46634C12:04.112
    46634C13:01.713
    46634C14:08.314
    46634C15:08.115
    46634C16:018.916
    46634C17:01.817
    46634C13:0 3OH/C15:1 i I/H2.314.469
    46634C14:0 3OH/C16:1 ISO I10.215.485
    46634C16:1 ω7c24.515.819
    46634C17:0 CYCLO5.316.888
    46634C17:1 ω8c0.916.792
    46634C18:1 ω7c /12t/9t12.917.824
    46634Unidentified1.116.301
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
552++++----+--++-++-+-+-
552+-+-----+--++-++-+-+-
552+-++----+--++-++-+-+
552+-++----+--++-++-+-+
552--++----+--++-++-+-+
552+-++----+--++-++-+-+-
552+-++----+--++-++-+-+-
552+-++----+--++-++-+-+-
552+-++----+--++-++-+-+-
552+-++----+--++-++-+-+-
552+-++----+--++-++-+-+-
552+-++----+--++-++-+-+-

Isolation, sampling and environmental information

isolation

@refsample type
552clinical isolate
46634Human

isolation source categories

Cat1Cat2Cat3
#Infection#Medical environment#Clinic
#Infection#Patient
#Infection#Patient#Specimen

taxonmaps

  • @ref: 69479
  • File name: preview.99_8.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_7;97_7;98_7;99_8&stattab=map
  • Last taxonomy: Enterobacteriaceae
  • 16S sequence: KC429776
  • Sequence Identity:
  • Total samples: 97630
  • soil counts: 2111
  • aquatic counts: 5613
  • animal counts: 88071
  • plant counts: 1835

Safety information

risk assessment

  • @ref: 552
  • pathogenicity human: yes
  • pathogenicity animal: yes
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Escherichia coli strain ATCC 25922 16S ribosomal RNA gene, partial sequenceDQ3608441532ena562
20218Escherichia coli strain ATCC 25922 16S ribosomal RNA gene, partial sequenceDQ6830691101ena562
20218Escherichia coli partial 16S rRNA gene, strain ATCC 25922FM207087392ena562
20218Escherichia coli strain ATCC 25922 16S ribosomal RNA gene, partial sequenceKC4297761355ena562
20218E.coli (ATCC 25922) gene for 16S rRNAX807241452ena562
552Escherichia coli partial 16S rRNA gene, strain DSM 1103HE9782701501ena562
67770Escherichia coli gene for 16S rRNA, partial sequence, strain: JCM 5491AB5947521464ena562

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Escherichia coli ATCC 25922GCA_017357505completencbi562
66792Escherichia coli ATCC 25922GCA_012974805completencbi562
66792Escherichia coli ATCC 25922GCA_000743255completencbi1322345
66792Escherichia coli ATCC 25922GCA_001997075scaffoldncbi562
66792Escherichia coli ATCC 25922GCA_015163465contigncbi562
66792Escherichia coli ATCC 25922-1GCA_007844345scaffoldncbi562
66792Escherichia coli ATCC 25922-2GCA_007844295scaffoldncbi562
66792Escherichia coli ATCC 25922GCA_000401755contigncbi1322345
66792Escherichia coli JCM 5491GCA_000614625contigncbi1236527
66792Escherichia coli ATCC 259221322345.19completepatric1322345
66792Escherichia coli ATCC 259221322345.34plasmidpatric1322345
66792Escherichia coli ATCC 259221322345.39wgspatric1322345
66792Escherichia coli ATCC 259221322345.33plasmidpatric1322345
66792Escherichia coli ATCC 259221322345.3wgspatric1322345
66792Escherichia coli JCM 54911236527.3wgspatric1236527
66792Escherichia coli strain ATCC 25922562.60289completepatric562
66792Escherichia coli strain ATCC 25922562.72354completepatric562
66792Escherichia coli strain ATCC 25922562.67333wgspatric562
66792Escherichia coli strain ATCC 25922562.50572wgspatric562
66792Escherichia coli strain ATCC 25922562.15133wgspatric562
66792Escherichia coli strain ATCC 25922-1562.50571wgspatric562
66792Escherichia coli strain ATCC 25922-2562.50570wgspatric562
66792Escherichia coli ATCC 259222545824741draftimg1322345
66792Escherichia coli ATCC 259222597490154completeimg1322345
66792Escherichia coli JCM 54912585427870draftimg1236527
67770Escherichia coli ATCC 25922GCA_004151095contigncbi1322345
67770Escherichia coli ATCC 25922GCA_007844355scaffoldncbi562
66792Escherichia coli ATCC 25922GCA_026914045contigncbi562
66792Escherichia coli ATCC 25922GCA_028596225completencbi562

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes90.224no
flagellatedno59.855no
gram-positiveno98.21no
anaerobicno95.448no
aerobicyes85.899no
halophileno90.731no
spore-formingno95.005no
glucose-utilyes94.223no
thermophileno99.377yes
glucose-fermentyes93.744yes

External links

@ref: 552

culture collection no.: DSM 1103, ATCC 25922, NCIB 12210, WDCM 00013, CCUG 17620, CCUG 7736, CCUG 21456, JCM 5491, CCM 3954, CIP 76.24, IFO 15034, KCTC 1682, LMG 8223, NBRC 15034, NCIMB 12110

straininfo link

  • @ref: 73917
  • straininfo: 2805

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
552Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 1103)https://www.dsmz.de/collection/catalogue/details/culture/DSM-1103
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
41789Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/10794
46634Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 17620)https://www.ccug.se/strain?id=17620
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68368Automatically annotated from API 20E
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.https://microbeatlas.org/MicrobeAtlas 1.0 beta
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
73917Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID2805.1StrainInfo: A central database for resolving microbial strain identifiers