Strain identifier
BacDive ID: 132286
Type strain: 
Species: Hydromonas duriensis
Strain Designation: A2P5
Strain history: <- C. M. Manaia, Centro de Biotecnologia e Química Fina, Universidade Católica Portuguesa, Porto, Portugal; A2P5 <- Vaz-Moreira et al., Universidade Porto
NCBI tax ID(s): 1527608 (species)
version 9.1 (current version)
General
@ref: 24075
BacDive-ID: 132286
DSM-Number: 102852
keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative
description: Hydromonas duriensis A2P5 is an aerobe, Gram-negative bacterium that was isolated from freshwater.
NCBI tax id
- NCBI tax id: 1527608
- Matching level: species
strain history
- @ref: 24075
- history: <- C. M. Manaia, Centro de Biotecnologia e Química Fina, Universidade Católica Portuguesa, Porto, Portugal; A2P5 <- Vaz-Moreira et al., Universidade Porto
doi: 10.13145/bacdive132286.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Burkholderiaceae
- genus: Hydromonas
- species: Hydromonas duriensis
- full scientific name: Hydromonas duriensis Vaz-Moreira et al. 2015
@ref: 24075
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Burkholderiaceae
genus: Hydromonas
species: Hydromonas duriensis
full scientific name: Hydromonas duriensis Vaz-Moreira et al. 2015
strain designation: A2P5
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 98
colony morphology
- @ref: 63289
- incubation period: 3 days
Culture and growth conditions
culture medium
- @ref: 24075
- name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)
- growth: yes
- link: https://mediadive.dsmz.de/medium/535
- composition: Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 63289 | positive | growth | 30 |
| 24075 | positive | growth | 28 |
Physiology and metabolism
oxygen tolerance
- @ref: 63289
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69480 | no | 93.222 |
| 69481 | no | 100 |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 68369 | 25115 | malate | - | assimilation |
| 68369 | 17128 | adipate | - | assimilation |
| 68369 | 27689 | decanoate | - | assimilation |
| 68369 | 24265 | gluconate | - | assimilation |
| 68369 | 17306 | maltose | - | assimilation |
| 68369 | 59640 | N-acetylglucosamine | + | assimilation |
| 68369 | 16899 | D-mannitol | + | assimilation |
| 68369 | 16024 | D-mannose | - | assimilation |
| 68369 | 30849 | L-arabinose | - | assimilation |
| 68369 | 17634 | D-glucose | + | assimilation |
| 68369 | 5291 | gelatin | - | hydrolysis |
| 68369 | 4853 | esculin | - | hydrolysis |
| 68369 | 16199 | urea | - | hydrolysis |
| 68369 | 29016 | arginine | - | hydrolysis |
| 68369 | 17634 | D-glucose | - | fermentation |
| 68369 | 27897 | tryptophan | - | energy source |
| 68369 | 17632 | nitrate | + | reduction |
metabolite production
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 68369 | cytochrome oxidase | + | 1.9.3.1 |
| 68369 | gelatinase | - | |
| 68369 | beta-glucosidase | - | 3.2.1.21 |
| 68369 | urease | - | 3.5.1.5 |
| 68369 | arginine dihydrolase | - | 3.5.3.6 |
API 20NE
| @ref | NO3 | TRP | GLU_ Ferm | ADH Arg | URE | ESC | GEL | PNPG | GLU_ Assim | ARA | MNE | MAN | NAG | MAL | GNT | CAP | ADI | MLT | CIT | PAC | OX |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 24075 | + | - | - | - | - | - | - | + | + | - | - | + | + | - | - | - | - | - | - | - | + |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | sampling date |
|---|---|---|---|---|---|---|
| 24075 | freshwater | Porto, Duoro river | Portugal | PRT | Europe | |
| 63289 | Surface water | Porto | Portugal | PRT | Europe | 2009-12-01 |
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Freshwater
taxonmaps
- @ref: 69479
- File name: preview.99_65836.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_12;96_28536;97_35961;98_46474;99_65836&stattab=map
- Last taxonomy: Hydromonas duriensis subclade
- 16S sequence: LM653273
- Sequence Identity:
- Total samples: 2397
- soil counts: 51
- aquatic counts: 1341
- animal counts: 590
- plant counts: 415
Safety information
risk assessment
- @ref: 24075
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 24075
- description: Hydromonas duriensis partial 16S rRNA gene, type strain A2P5T
- accession: LM653273
- length: 1418
- database: nuccore
- NCBI tax ID: 1527608
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Hydromonas duriensis DSM 102852 | GCA_004363775 | scaffold | ncbi | 1527608 |
| 66792 | Hydromonas duriensis strain DSM 102852 | 1527608.3 | wgs | patric | 1527608 |
| 66792 | Hydromonas duriensis DSM 102852 | 2770939569 | draft | img | 1527608 |
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 100 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 98 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 94.209 | yes |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 76.623 | yes |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 93.222 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 95.167 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 81.962 | no |
External links
@ref: 24075
culture collection no.: DSM 102852, CCUG 66137, LMG 28428
straininfo link
- @ref: 90633
- straininfo: 397052
literature
- topic: Phylogeny
- Pubmed-ID: 26303147
- title: Hydromonas duriensis gen. nov., sp. nov., isolated from freshwater.
- authors: Vaz-Moreira I, Narciso-da-Rocha C, De Brandt E, Vandamme P, Silva Ferreira AC, Lobo-da-Cunha A, Nunes OC, Manaia CM
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.000546
- year: 2015
- mesh: Bacterial Typing Techniques, Base Composition, Burkholderiaceae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fresh Water/*microbiology, Phospholipids/chemistry, *Phylogeny, Portugal, RNA, Ribosomal, 16S/genetics, Rivers/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry
- topic2: Transcriptome
Reference
| @id | authors | title | doi/url | catalogue | journal | pubmed |
|---|---|---|---|---|---|---|
| 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 | |||
| 24075 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-102852 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102852) | |||
| 63289 | Curators of the CCUG | https://www.ccug.se/strain?id=66137 | Culture Collection University of Gothenburg (CCUG) (CCUG 66137) | |||
| 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 | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 10.1093/nar/gkaa1025 | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 68369 | Automatically annotated from API 20NE | |||||
| 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |||
| 90633 | 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-ID397052.1 |