Strain identifier

BacDive ID: 5241

Type strain: Yes

Species: Cronobacter dublinensis subsp. lausannensis

Strain Designation: E515

Strain history: LMG 23824 <-- A. Lehner E515 <-- C. Iversen.

NCBI tax ID(s): 1159560 (strain), 413500 (subspecies)

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General

@ref: 7667

BacDive-ID: 5241

DSM-Number: 18706

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative

description: Cronobacter dublinensis subsp. lausannensis E515 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from water fountain basin.

NCBI tax id

NCBI tax idMatching level
413500subspecies
1159560strain

strain history

@refhistory
7667<- A. Lehner; E515 <- C. Iversen and S. A. Nestec;
67770LMG 23824 <-- A. Lehner E515 <-- C. Iversen.

doi: 10.13145/bacdive5241.20250331.9.3

Name and taxonomic classification

LPSN

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

@ref: 7667

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Enterobacteriaceae

genus: Cronobacter

species: Cronobacter dublinensis subsp. lausannensis

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

strain designation: E515

type strain: yes

Morphology

cell morphology

@refgram stainconfidence
125438negative99
125439negative98.1

Culture and growth conditions

culture medium

@refnamegrowthlink
7667TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium92.pdf
7667COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium693.pdf

culture temp

@refgrowthtypetemperature
7667positivegrowth37
61595positivegrowth30
67770positivegrowth30

Physiology and metabolism

oxygen tolerance

  • @ref: 61595
  • oxygen tolerance: aerobe

spore formation

  • @ref: 125439
  • spore formation: no
  • confidence: 96.8

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6837417057cellobiose-builds acid from
6837430911sorbitol-builds acid from
6837417268myo-inositol-builds acid from
6837427082trehalose+builds acid from
6837462345L-rhamnose+builds acid from
6837430849L-arabinose-builds acid from
6837415792malonate-assimilation
6837427897tryptophan+energy source
68374Potassium 5-ketogluconate-builds acid from
6837418024D-galacturonic acid+builds acid from
6837418403L-arabitol-builds acid from
6837416199urea-hydrolysis
6837429016arginine+hydrolysis
6837425094lysine-degradation
6837418333D-arabitol-builds acid from
6837417992sucrose+builds acid from
6837417634D-glucose+builds acid from
6837418394palatinose-builds acid from
6837415963ribitol-builds acid from
6837417306maltose-builds acid from
6837416899D-mannitol+builds acid from
6837418257ornithine+degradation

metabolite production

  • @ref: 68374
  • Chebi-ID: 35581
  • metabolite: indole
  • production: yes

metabolite tests

  • @ref: 68374
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: +

enzymes

@refvalueactivityec
68374alpha-maltosidase+
68374alpha-glucosidase+3.2.1.20
68374beta-galactosidase+3.2.1.23
68374L-aspartate arylamidase-3.4.11.21
68374alpha-galactosidase+3.2.1.22
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

API ID32E

@refODCADH ArgLDC LysURELARLGAT5KGLIPRPbeta GLUMANMALADOPLEbeta GURMNTINDbeta NAGbeta GALGLUSACLARADARLalpha GLUalpha GALTRERHAINOCELSORalphaMALAspA
61595++---+-+-++-----+-+++--++++---+-

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentsampling date
7667water fountain basinSwitzerlandCHEEurope
61595Water fountain,basinSwitzerlandCHEEurope2004
67770Basin of a water fountain

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic

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: EF059841
  • Sequence Identity:
  • Total samples: 26535
  • soil counts: 1166
  • aquatic counts: 2553
  • animal counts: 20787
  • plant counts: 2029

Safety information

risk assessment

  • @ref: 7667
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Cronobacter dublinensis subsp. lausannensis LMG 23824 strain E515 16S ribosomal RNA gene, partial sequence
  • accession: EF059841
  • length: 1417
  • database: nuccore
  • NCBI tax ID: 1159560

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cronobacter dublinensis subsp. lausannensis LMG 238241159560.3wgspatric1159560
66792Cronobacter dublinensis lausannensis LMG 238242548876991draftimg1159560
67770Cronobacter dublinensis subsp. lausannensis LMG 23824GCA_000409365contigncbi1159560

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthaerobe87.3
125439BacteriaNetgram_stainReaction to gram-stainingnegative98.1
125439BacteriaNetmotilityAbility to perform movementyes62.4
125439BacteriaNetspore_formationAbility to form endo- or exosporesno96.8
125438gram-positivegram-positivePositive reaction to Gram-stainingno99no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no94.616yes
125438spore-formingspore-formingAbility to form endo- or exosporesno88.804no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no62.786no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno99.8yes
125438motile2+flagellatedAbility to perform flagellated movementyes74.797no

External links

@ref: 7667

culture collection no.: CCUG 58095, DSM 18706, LMG 23824, JCM 16469

straininfo link

  • @ref: 74732
  • straininfo: 354306

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
7667Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18706)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18706
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
61595Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 58095)https://www.ccug.se/strain?id=58095
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/
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
74732Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID354306.1StrainInfo: A central database for resolving microbial strain identifiers
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