Strain identifier

BacDive ID: 5240

Type strain: Yes

Species: Cronobacter dublinensis subsp. lactaridi

Strain Designation: E464

Strain history: LMG 23825 <-- A. Lehner E464 <-- C. Iversen.

NCBI tax ID(s): 1159496 (strain), 413499 (subspecies)

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General

@ref: 7668

BacDive-ID: 5240

DSM-Number: 18707

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, motile

description: Cronobacter dublinensis subsp. lactaridi E464 is an aerobe, mesophilic, motile bacterium that was isolated from milk powder production facility.

NCBI tax id

NCBI tax idMatching level
413499subspecies
1159496strain

strain history

@refhistory
7668<- A. Lehner; E464 <- C. Iversen, Nestec S. A.
67770LMG 23825 <-- A. Lehner E464 <-- C. Iversen.

doi: 10.13145/bacdive5240.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Enterobacteriaceae
  • genus: Cronobacter
  • species: Cronobacter dublinensis subsp. lactaridi
  • full scientific name: Cronobacter dublinensis subsp. lactaridi Iversen et al. 2008

@ref: 7668

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Enterobacteriaceae

genus: Cronobacter

species: Cronobacter dublinensis subsp. lactaridi

full scientific name: Cronobacter dublinensis subsp. lactaridi Iversen et al. 2008

strain designation: E464

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes96.168
6948099.881negative

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7668TRYPTICASE 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
7668TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
7668COLUMBIA 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
7668positivegrowth37mesophilic
61594positivegrowth30mesophilic
67770positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 61594
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.615

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
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
6836815688acetoinyes
6836835581indoleyes
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-test
6837435581indole+
6836815688acetoin+
6836835581indole+

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
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
7668++-++---++++++-+++++-

API ID32E

@refODCADH ArgLDC LysURELARLGAT5KGLIPRPbeta GLUMANMALADOPLEbeta GURMNTINDbeta NAGbeta GALGLUSACLARADARLalpha GLUalpha GALTRERHAINOCELSORalphaMALAspA
61594++---+-+-+------+++++--+++----+-

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentlatitudelongitudesampling date
7668milk powder production facilitySwitzerlandCHEEurope46.81328.2242
61594Milk powder,production facilitySwitzerlandCHEEurope2003
67770Dried milk production facility

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Dairy product
#Engineered#Industrial#Plant (Factory)
#Host Body Product#Fluids#Milk

taxonmaps

  • @ref: 69479
  • File name: preview.99_317.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_7;97_241;98_270;99_317&stattab=map
  • Last taxonomy: Cronobacter
  • 16S sequence: EF059838
  • Sequence Identity:
  • Total samples: 26535
  • soil counts: 1166
  • aquatic counts: 2553
  • animal counts: 20787
  • plant counts: 2029

Safety information

risk assessment

  • @ref: 7668
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Cronobacter dublinensis subsp. lactaridi LMG 23825 strain E464 16S ribosomal RNA gene, partial sequence
  • accession: EF059838
  • length: 1380
  • database: ena
  • NCBI tax ID: 1159496

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cronobacter dublinensis subsp. lactaridi LMG 238251159496.3wgspatric1159496
66792Cronobacter dublinensis lactaridi LMG 238252548876989draftimg1159496
67770Cronobacter dublinensis subsp. lactaridi LMG 23825GCA_000409345contigncbi1159496

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes91.716no
gram-positiveno97.828no
anaerobicno96.772yes
aerobicyes79.098yes
halophileno78.124no
spore-formingno94.033no
flagellatedno79.286no
thermophileno99.242yes
glucose-utilyes95.777no
glucose-fermentyes93.053no

External links

@ref: 7668

culture collection no.: DSM 18707, LMG 23825, CCUG 58094, JCM 16468

straininfo link

  • @ref: 74731
  • straininfo: 354305

literature

  • topic: Phylogeny
  • Pubmed-ID: 18523192
  • title: Cronobacter gen. nov., a new genus to accommodate the biogroups of Enterobacter sakazakii, and proposal of Cronobacter sakazakii gen. nov., comb. nov., Cronobacter malonaticus sp. nov., Cronobacter turicensis sp. nov., Cronobacter muytjensii sp. nov., Cronobacter dublinensis sp. nov., Cronobacter genomospecies 1, and of three subspecies, Cronobacter dublinensis subsp. dublinensis subsp. nov., Cronobacter dublinensis subsp. lausannensis subsp. nov. and Cronobacter dublinensis subsp. lactaridi subsp. nov.
  • authors: Iversen C, Mullane N, McCardell B, Tall BD, Lehner A, Fanning S, Stephan R, Joosten H
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.65577-0
  • year: 2008
  • mesh: Bacterial Typing Techniques, Cronobacter sakazakii/*classification/genetics/metabolism/physiology, DNA, Bacterial/analysis, Enterobacteriaceae/*classification/genetics/metabolism/physiology, Genes, rRNA, Malonates/metabolism, Microarray Analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, RNA, Ribosomal, 16S/genetics, Reagent Kits, Diagnostic, Sequence Analysis, DNA, Species Specificity
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7668Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18707)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18707
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
61594Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 58094)https://www.ccug.se/strain?id=58094
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
68374Automatically annotated from API ID32E
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
74731Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID354305.1StrainInfo: A central database for resolving microbial strain identifiers