Strain identifier
BacDive ID: 4310
Type strain:
Species: Budvicia aquatica
Strain Designation: 20186HG01, M350, Eb 13/82, aldova 20 186HGO1
Strain history: CIP <- 1988, P.A.D. Grimont, Inst. Pasteur, Paris, France: strain aldova 20 186HGO1
NCBI tax ID(s): 1111728 (strain), 82979 (species)
General
@ref: 1922
BacDive-ID: 4310
DSM-Number: 5075
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Budvicia aquatica 20186HG01 is a mesophilic, Gram-negative bacterium that was isolated from drinking water.
NCBI tax id
NCBI tax id | Matching level |
---|---|
82979 | species |
1111728 | strain |
strain history
@ref | history |
---|---|
1922 | <- ATCC <- E. Aldova and J. Sourek; Eb 13/82 <- A. Brezinova |
40577 | 1988, P.A.D. Grimont, Inst. Pasteur, Paris, France: strain aldova 20 186HGO1 |
116429 | CIP <- 1988, P.A.D. Grimont, Inst. Pasteur, Paris, France: strain aldova 20 186HGO1 |
doi: 10.13145/bacdive4310.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Enterobacterales
- family: Budviciaceae
- genus: Budvicia
- species: Budvicia aquatica
- full scientific name: Budvicia aquatica Bouvet et al. 1985
synonyms
- @ref: 20215
- synonym: Budvicia aquatica
@ref: 1922
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Enterobacteriales, not validated
family: Budviciaceae
genus: Budvicia
species: Budvicia aquatica
full scientific name: Budvicia aquatica Bouvet et al. 1985
strain designation: 20186HG01, M350, Eb 13/82, aldova 20 186HGO1
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.961
multimedia
@ref | multimedia content | caption | intellectual property rights |
---|---|---|---|
66793 | EM_DSM_5075_1.jpg | electron microscopic image | © HZI/Manfred Rohde |
66793 | EM_DSM_5075_2.jpg | electron microscopic image | © HZI/Manfred Rohde |
66793 | EM_DSM_5075_3.jpg | electron microscopic image | © HZI/Manfred Rohde |
66793 | EM_DSM_5075_4.jpg | electron microscopic image | © HZI/Manfred Rohde |
66793 | EM_DSM_5075_5.jpg | electron microscopic image | © HZI/Manfred Rohde |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
1922 | REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) | yes | https://mediadive.dsmz.de/medium/1a | Name: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water |
40577 | MEDIUM 3 - Columbia agar | yes | Columbia agar (39.000 g);distilled water (1000.000 ml) | |
116429 | CIP Medium 3 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
1922 | positive | growth | 26 | mesophilic |
40577 | positive | growth | 22 | psychrophilic |
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 98.949 |
compound production
- @ref: 1922
- compound: hydrogen sulfide
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 | no |
68368 | 35581 | indole | no |
68368 | 16136 | hydrogen sulfide | yes |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1922 | + | - | - | - | - | + | + | - | - | - | - | + | + | - | - | + | - | - | - | + | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
1922 | drinking water | ||||
116429 | Environment, Water | Bilà | Czech Republic | CZE | Europe |
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Freshwater
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
1922 | 1 | Risk group (German classification) |
116429 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 20218
- description: Budvicia aquatica 16S rRNA gene (strain DSM 5075)
- accession: AJ233407
- length: 1481
- database: ena
- NCBI tax ID: 1111728
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Budvicia aquatica DSM 5075 = ATCC 35567 | GCA_000427805 | scaffold | ncbi | 1111728 |
66792 | Budvicia aquatica DSM 5075 | 1111728.3 | wgs | patric | 1111728 |
66792 | Budvicia aquatica DSM 5075, ATCC 35567 | 2513237113 | draft | img | 1111728 |
GC content
- @ref: 1922
- GC-content: 46.0
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 81.823 | no |
flagellated | no | 57.483 | no |
gram-positive | no | 97.771 | no |
anaerobic | no | 91.527 | no |
aerobic | yes | 67.093 | no |
halophile | no | 94.749 | no |
spore-forming | no | 93.882 | no |
glucose-util | yes | 89.455 | no |
thermophile | no | 99.715 | yes |
glucose-ferment | yes | 86.886 | yes |
External links
@ref: 1922
culture collection no.: DSM 5075, ATCC 35567, CNCTC 20186, CIP 103240, CCUG 21129, JCM 3902, LMG 8813
straininfo link
- @ref: 73802
- straininfo: 1364
literature
- topic: Phylogeny
- Pubmed-ID: 22407790
- title: Budvicia diplopodorum sp. nov. and emended description of the genus Budvicia.
- authors: Lang E, Schumann P, Knapp BA, Kumar R, Sproer C, Insam H
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.036749-0
- year: 2012
- mesh: Animals, Arthropods/*microbiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Enterobacteriaceae/*classification/genetics/isolation & purification, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
- topic2: Genetics
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
1922 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5075) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-5075 | |||
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 | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
40577 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/15016 | ||||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
66793 | Mukherjee et al. | 10.1038/nbt.3886 | GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life | 35: 676-683 2017 | 28604660 | |
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
68368 | Automatically annotated from API 20E | |||||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
73802 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID1364.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
116429 | Curators of the CIP | Collection of Institut Pasteur (CIP 103240) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103240 |