Strain identifier
BacDive ID: 131728
Type strain:
Species: Hafnia alvei
Strain Designation: FB1
Strain history: <- J.-Y. Tan, Microbiome Group, University of Malaya, Malaysia; FB1
NCBI tax ID(s): 569 (species)
General
@ref: 23524
BacDive-ID: 131728
DSM-Number: 102038
keywords: genome sequence, Bacteria, mesophilic, human pathogen
description: Hafnia alvei FB1 is a mesophilic human pathogen that was isolated from packed fish balls.
NCBI tax id
- NCBI tax id: 569
- Matching level: species
strain history
- @ref: 23524
- history: <- J.-Y. Tan, Microbiome Group, University of Malaya, Malaysia; FB1
doi: 10.13145/bacdive131728.20230509.8.1
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 alvei
- full scientific name: Hafnia alvei Møller 1954 (Approved Lists 1980)
@ref: 23524
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Enterobacteriales, not validated
family: Hafniaceae
genus: Hafnia
species: Hafnia alvei
full scientific name: Hafnia alvei Møller 1954
strain designation: FB1
type strain: no
Culture and growth conditions
culture medium
- @ref: 23524
- name: NUTRIENT AGAR (DSMZ Medium 1)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1
- composition: Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
culture temp
- @ref: 23524
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
compound production
@ref | compound |
---|---|
23524 | N acyl homoserine lactones |
23524 | N-(3 oxohexanoyl)homoserine lactone |
23524 |
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 |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
23524 | - | - | + | + | + | - | - | - | - | + | - | + | + | - | - | + | - | - | - | + | - |
23524 | + | - | + | + | + | - | - | - | - | + | - | + | + | - | - | + | - | - | - | + | - |
Isolation, sampling and environmental information
isolation
- @ref: 23524
- sample type: packed fish balls
- geographic location: Kuala Lumpur
- country: Malaysia
- origin.country: MYS
- continent: Asia
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Food production | #Bottled, canned, packed food |
#Engineered | #Food production | #Food |
#Host | #Fishes |
Safety information
risk assessment
- @ref: 23524
- pathogenicity human: yes
- pathogenicity animal: yes
- biosafety level: 2
- biosafety level comment: Risk group (German classification)
Sequence information
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Hafnia alvei FB1 | GCA_000597785 | complete | ncbi | 1453496 |
66792 | Hafnia alvei FB1 | 1453496.3 | wgs | patric | 1453496 |
66792 | Hafnia alvei FB1 | 1453496.5 | complete | patric | 1453496 |
66792 | Hafnia alvei FB1 | 2667527506 | complete | img | 1453496 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | yes | 89.551 | no |
motile | yes | 89.551 | no |
flagellated | no | 50 | no |
flagellated | no | 50 | no |
gram-positive | no | 98.043 | no |
gram-positive | no | 98.043 | no |
anaerobic | no | 95.318 | no |
anaerobic | no | 95.318 | no |
halophile | no | 92.02 | no |
halophile | no | 92.02 | no |
spore-forming | no | 95.018 | no |
spore-forming | no | 95.018 | no |
glucose-util | yes | 94.672 | no |
glucose-util | yes | 94.672 | no |
aerobic | yes | 85.197 | no |
aerobic | yes | 85.197 | no |
thermophile | no | 99.034 | yes |
thermophile | no | 99.034 | yes |
glucose-ferment | yes | 93.762 | yes |
glucose-ferment | yes | 93.762 | yes |
External links
@ref: 23524
culture collection no.: DSM 102038
straininfo link
- @ref: 90119
- straininfo: 402774
Reference
@id | authors | title | doi/url | catalogue |
---|---|---|---|---|
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | 10.1099/ijsem.0.004332 | |
23524 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-102038 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102038) | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
68368 | Automatically annotated from API 20E | |||
90119 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID402774.1 |