Strain identifier

BacDive ID: 5221

Type strain: Yes

Species: Yersinia aldovae

Strain history: CIP <- 1988, ATCC <- G. Huntley-Carter <- H.H. Mollaret, Inst. Pasteur, Paris, France: strain CNY 6005 <- E. Aldova

NCBI tax ID(s): 527002 (strain), 29483 (species)

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General

@ref: 7490

BacDive-ID: 5221

DSM-Number: 18303

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

description: Yersinia aldovae DSM 18303 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from drinking water.

NCBI tax id

NCBI tax idMatching level
29483species
527002strain

strain history

@refhistory
7490<- CCUG <- ATCC <- G. P. Huntley-Carter <- H. Bercovier <- E. Aldovà, Czecheslovakia
67770Y. Kosako 85558 <-- R. Sakazaki 85020 <-- CDC 669-83.
116210CIP <- 1988, ATCC <- G. Huntley-Carter <- H.H. Mollaret, Inst. Pasteur, Paris, France: strain CNY 6005 <- E. Aldova

doi: 10.13145/bacdive5221.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Yersiniaceae
  • genus: Yersinia
  • species: Yersinia aldovae
  • full scientific name: Yersinia aldovae Bercovier et al. 1984

@ref: 7490

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Yersiniaceae

genus: Yersinia

species: Yersinia aldovae

full scientific name: Yersinia aldovae Bercovier et al. 1984

type strain: yes

Morphology

cell morphology

  • @ref: 116210
  • gram stain: negative
  • cell shape: oval-shaped
  • motility: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7490TRYPTICASE 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
34373MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
116210CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
116210CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
7490positivegrowth30mesophilic
34373positivegrowth30mesophilic
46886positivegrowth30mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
46886aerobe
116210facultative anaerobe

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose+builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose-builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose+builds acid from27082
68371sucrose-builds acid from17992
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371maltose-builds acid from17306
68371cellobiose-builds acid from17057
68371salicin-builds acid from17814
68371esculin-builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol+builds acid from17924
68371D-mannitol+builds acid from16899
68371galactitol-builds acid from16813
68371L-rhamnose+builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose+builds acid from65327
68371D-ribose+builds acid from16988
68371L-arabinose+builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
116210nitrate+reduction17632
116210nitrite-reduction16301

metabolite production

  • @ref: 116210
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
116210oxidase-
116210catalase+1.11.1.6
116210urease+3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    46886C12:08.112
    46886C14:01.614
    46886C15:04.515
    46886C16:027.316
    46886C17:01.517
    46886C12:0 ALDE ?1.710.915
    46886C14:0 3OH/C16:1 ISO I6.315.485
    46886C16:1 ω7c40.515.819
    46886C17:0 CYCLO1.416.888
    46886C18:1 ω7c /12t/9t6.317.824
    46886unknown 13.9610.813.961
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
116210+/---+++---++++-+-+/-++--+---------+-----------+--+/---

Isolation, sampling and environmental information

isolation

@refsample typecountrycontinentorigin.country
7490drinking waterCzechoslovakiaEurope
46886Drinking waterCzechoslovakiaEurope
67770Drinking water
116210Environment, Drinking waterCzech RepublicEuropeCZE

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Freshwater

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
74901Risk group (German classification)
1162102Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Yersinia aldovae 16S ribosomal RNA gene, partial sequenceAF3663761461ena29483
20218Yersinia aldovae strain CCUG 18770 16S ribosomal RNA gene, partial sequenceEF1791251461ena29483
20218Yersinia aldovae ATCC 35236 16S ribosomal RNA gene, partial sequenceFJ518719410ena527002
67770Yersinia aldovae (ATCC 35236) partial 16S ribosomal RNA geneX752771486ena29483

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Yersinia aldovae ATCC 35236527002.3wgspatric527002
66792Yersinia aldovae ATCC 35236645058792draftimg527002
67770Yersinia aldovae ATCC 35236GCA_000173735contigncbi527002

GC content

  • @ref: 67770
  • GC-content: 48
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveno98.536no
anaerobicno96.018yes
halophileno94.253no
spore-formingno93.602no
glucose-utilyes94.982no
thermophileno99.018yes
aerobicyes91.353yes
motileyes90.603no
flagellatedyes61.087no
glucose-fermentyes94.541no

External links

@ref: 7490

culture collection no.: DSM 18303, ATCC 35236, CCUG 18770, CDC 669-83, CNY 6005, JCM 5892, CECT 4314, CIP 103162

straininfo link

  • @ref: 74713
  • straininfo: 10847

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7490Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18303)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18303
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
34373Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/14929
46886Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 18770)https://www.ccug.se/strain?id=18770
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/
68371Automatically annotated from API 50CH acid
74713Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID10847.1StrainInfo: A central database for resolving microbial strain identifiers
116210Curators of the CIPCollection of Institut Pasteur (CIP 103162)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103162