Strain identifier

BacDive ID: 5220

Type strain: Yes

Species: Yersinia rohdei

Strain Designation: H 271-36/78, H271-36/78, 3022-85

Strain history: CIP <- 1988, ATCC <- D.J. Brenner, CDC, Atlanta, Georgia, USA: strain 3022-85 <- S. Aleksic: strain H271-36/78

NCBI tax ID(s): 527004 (strain), 29485 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 7468

BacDive-ID: 5220

DSM-Number: 18270

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped, human pathogen

description: Yersinia rohdei H 271-36/78 is an aerobe, mesophilic, Gram-negative human pathogen that was isolated from dog faeces.

NCBI tax id

NCBI tax idMatching level
29485species
527004strain

strain history

@refhistory
7468<- CCUG <- S. Aleksic, Inst. of Hygiene, Hamburg; H 271-36/78
67770CDC 3022-85.
122247CIP <- 1988, ATCC <- D.J. Brenner, CDC, Atlanta, Georgia, USA: strain 3022-85 <- S. Aleksic: strain H271-36/78

doi: 10.13145/bacdive5220.20230509.8.1

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 rohdei
  • full scientific name: Yersinia rohdei Aleksic et al. 1987

@ref: 7468

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Yersiniaceae

genus: Yersinia

species: Yersinia rohdei

full scientific name: Yersinia rohdei Aleksic et al. 1987

strain designation: H 271-36/78, H271-36/78, 3022-85

type strain: yes

Morphology

cell morphology

  • @ref: 122247
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7468TRYPTICASE 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
36553MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
122247CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3
122247CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
7468positivegrowth30mesophilic
36553positivegrowth30mesophilic
54500positivegrowth26-30mesophilic
67770positivegrowth36mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 54500
  • oxygen tolerance: aerobe

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling dateisolation date
7468dog faecesHamburgGermanyDEUEurope
54500Dog fecesGermanyDEUEurope1978
67770Dog feces
122247Animal, Dog, fecesGermanyDEUEurope1978

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Canidae (Dog)
#Host Body Product#Gastrointestinal tract#Feces (Stool)

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
7468yes, in single cases1Risk group (German classification)
1222472Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Yersinia rohdei strain ATCC 43380 16S ribosomal RNA gene, partial sequenceAY332843501ena29485
7468Yersinia rohdei 16S ribosomal RNA gene, partial sequenceAF3663841461ena29485

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Yersinia rohdei ATCC 43380527004.3wgspatric527004
66792Yersinia rohdei ATCC 43380645058789draftimg527004
67770Yersinia rohdei ATCC 43380GCA_000173775contigncbi527004

GC content

  • @ref: 67770
  • GC-content: 49.1
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveno98.922no
anaerobicno94.65no
halophileno94.502no
spore-formingno94.365no
glucose-utilyes93.626no
thermophileno98.899no
motileyes90.497no
aerobicyes88.56yes
flagellatedyes56.985no
glucose-fermentyes92.915no

External links

@ref: 7468

culture collection no.: DSM 18270, ATCC 43380, CCUG 38833, CDC 3022-85, CIP 103163, LMG 8454, JCM 7376, NBRC 105715

straininfo link

  • @ref: 74712
  • straininfo: 6457

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7468Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18270)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18270
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
36553Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/14930
54500Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 38833)https://www.ccug.se/strain?id=38833
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/
74712Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID6457.1StrainInfo: A central database for resolving microbial strain identifiers
122247Curators of the CIPCollection of Institut Pasteur (CIP 103163)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103163