Strain identifier

BacDive ID: 4939

Type strain: No

Species: Hafnia paralvei

Strain Designation: U-5

Strain history: <- CCUG; CCUG 429 <- U. Arfwidsson; <- H. Lautrop, SSI Copenhagen; U-5

NCBI tax ID(s): 546367 (species)

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

@ref: 16709

BacDive-ID: 4939

DSM-Number: 23255

keywords: 16S sequence, Bacteria, mesophilic, human pathogen

description: Hafnia paralvei U-5 is a mesophilic human pathogen that was isolated from human clinical isolate.

NCBI tax id

  • NCBI tax id: 546367
  • Matching level: species

strain history

  • @ref: 16709
  • history: <- CCUG; CCUG 429 <- U. Arfwidsson; <- H. Lautrop, SSI Copenhagen; U-5

doi: 10.13145/bacdive4939.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Hafniaceae
  • genus: Hafnia
  • species: Hafnia paralvei
  • full scientific name: Hafnia paralvei Huys et al. 2010

@ref: 16709

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Hafniaceae

genus: Hafnia

species: Hafnia paralvei

full scientific name: Hafnia paralvei Huys et al. 2010

strain designation: U-5

type strain: no

Morphology

multimedia

  • @ref: 16709
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_23255.jpg
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlink
16709TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium92.pdf
16709COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium693.pdf

culture temp

  • @ref: 16709
  • growth: positive
  • type: growth
  • temperature: 30
  • range: mesophilic

Physiology and metabolism

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

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
6836835581indoleno
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
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
44201+-++-----+-++--+---+-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
16709human clinical isolateCopenhagenDenmarkDNKEurope55.676112.5683
44201Human clinical isolate,no more information !CopenhagenDenmarkDNKEurope

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_2022.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_106;97_324;98_734;99_2022&stattab=map
  • Last taxonomy: Yersiniaceae
  • 16S sequence: FM179944
  • Sequence Identity:
  • Total samples: 7454
  • soil counts: 435
  • aquatic counts: 1050
  • animal counts: 4808
  • plant counts: 1161

Safety information

risk assessment

  • @ref: 16709
  • pathogenicity human: yes
  • pathogenicity animal: yes
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16709
  • description: Hafnia alvei genomosp. 2 partial 16S rRNA gene, culture collection CCUG 429
  • accession: FM179944
  • length: 1495
  • database: ena
  • NCBI tax ID: 546367

External links

@ref: 16709

culture collection no.: DSM 23255, CCUG 429

straininfo link

  • @ref: 74435
  • straininfo: 54609

Reference

@idauthorscataloguedoi/urltitle
16709Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23255)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23255
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
44201Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 429)https://www.ccug.se/strain?id=429
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
74435Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID54609.1StrainInfo: A central database for resolving microbial strain identifiers