Strain identifier
BacDive ID: 4939
Type strain:
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)
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
@ref | name | growth | link |
---|---|---|---|
16709 | TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium92.pdf |
16709 | COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) | yes | https://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
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
68368 | 30849 | L-arabinose | + | fermentation |
68368 | 27613 | amygdalin | - | fermentation |
68368 | 28053 | melibiose | - | fermentation |
68368 | 17992 | sucrose | - | fermentation |
68368 | 62345 | L-rhamnose | + | fermentation |
68368 | 30911 | sorbitol | - | fermentation |
68368 | 17268 | myo-inositol | - | fermentation |
68368 | 16899 | D-mannitol | + | fermentation |
68368 | 17634 | D-glucose | + | fermentation |
68368 | 5291 | gelatin | - | hydrolysis |
68368 | 27897 | tryptophan | - | energy source |
68368 | 16199 | urea | - | hydrolysis |
68368 | 16947 | citrate | - | assimilation |
68368 | 18257 | ornithine | + | degradation |
68368 | 25094 | lysine | + | degradation |
68368 | 29016 | arginine | - | hydrolysis |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68368 | 15688 | acetoin | yes |
68368 | 35581 | indole | no |
68368 | 16136 | hydrogen sulfide | no |
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | indole test |
---|---|---|---|---|
68368 | 15688 | acetoin | + | |
68368 | 35581 | indole | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68368 | cytochrome oxidase | - | 1.9.3.1 |
68368 | gelatinase | - | |
68368 | tryptophan deaminase | - | 4.1.99.1 |
68368 | urease | - | 3.5.1.5 |
68368 | ornithine decarboxylase | + | 4.1.1.17 |
68368 | lysine decarboxylase | + | 4.1.1.18 |
68368 | arginine dihydrolase | - | 3.5.3.6 |
68368 | beta-galactosidase | + | 3.2.1.23 |
API 20E
@ref | ONPG | ADH Arg | LDC Lys | ODC | CIT | H2S | URE | TDA Trp | IND | VP | GEL | GLU | MAN | INO | Sor | RHA | SAC | MEL | AMY | ARA | OX |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
44201 | + | - | + | + | - | - | - | - | - | + | - | + | + | - | - | + | - | - | - | + | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
---|---|---|---|---|---|---|---|
16709 | human clinical isolate | Copenhagen | Denmark | DNK | Europe | 55.6761 | 12.5683 |
44201 | Human clinical isolate,no more information ! | Copenhagen | Denmark | DNK | Europe |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#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
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
16709 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23255) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23255 | |
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |
44201 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 429) | https://www.ccug.se/strain?id=429 | |
68368 | Automatically annotated from API 20E | |||
69479 | João 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 | |
74435 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID54609.1 | StrainInfo: A central database for resolving microbial strain identifiers |