Strain identifier
BacDive ID: 17880
Type strain: 
Species: Breoghania corrubedonensis
Strain Designation: UBF-P1
Strain history: <- M. Grifoll, Univ. Barcelona, Spain; UBF-P1 <- S. Gallego
NCBI tax ID(s): 665038 (species)
version 8.1 (current version)
General
@ref: 16818
BacDive-ID: 17880
DSM-Number: 23382
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Breoghania corrubedonensis UBF-P1 is a mesophilic, Gram-negative bacterium that was isolated from oil-contaminated beach sand.
NCBI tax id
- NCBI tax id: 665038
- Matching level: species
strain history
- @ref: 16818
- history: <- M. Grifoll, Univ. Barcelona, Spain; UBF-P1 <- S. Gallego
doi: 10.13145/bacdive17880.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Breoghaniaceae
- genus: Breoghania
- species: Breoghania corrubedonensis
- full scientific name: Breoghania corrubedonensis Gallego et al. 2011
@ref: 16818
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Breoghaniaceae
genus: Breoghania
species: Breoghania corrubedonensis
full scientific name: Breoghania corrubedonensis Gallego et al. 2011
strain designation: UBF-P1
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.999
Culture and growth conditions
culture medium
- @ref: 16818
- name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
- growth: yes
- link: https://mediadive.dsmz.de/medium/514
- composition: Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
culture temp
- @ref: 16818
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.995 |
Isolation, sampling and environmental information
isolation
- @ref: 16818
- sample type: oil-contaminated beach sand
- geographic location: Galicia, Corrubedo
- country: Spain
- origin.country: ESP
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Contamination | #Oil (Fuel) |
| #Environmental | #Terrestrial | #Coast |
| #Environmental | #Terrestrial | #Sandy |
taxonmaps
- @ref: 69479
- File name: preview.99_24357.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_12209;97_14808;98_18321;99_24357&stattab=map
- Last taxonomy: Breoghania corrubedonensis subclade
- 16S sequence: GQ272328
- Sequence Identity:
- Total samples: 304
- soil counts: 86
- aquatic counts: 172
- animal counts: 24
- plant counts: 22
Safety information
risk assessment
- @ref: 16818
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 16818
- description: Breoghania corrubedonensis strain UBF-P1 16S ribosomal RNA gene, partial sequence
- accession: GQ272328
- length: 1481
- database: ena
- NCBI tax ID: 665038
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Breoghania corrubedonensis DSM 23382 | GCA_003053845 | contig | ncbi | 665038 |
| 66792 | Breoghania corrubedonensis strain DSM 23382 | 665038.4 | wgs | patric | 665038 |
| 66792 | Breoghania corrubedonensis DSM 23382 | 2734482291 | draft | img | 665038 |
GC content
- @ref: 16818
- GC-content: 63.9
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| gram-positive | no | 98.772 | no |
| anaerobic | no | 91.133 | no |
| halophile | no | 73.355 | no |
| spore-forming | no | 95.11 | no |
| glucose-util | yes | 88.474 | no |
| thermophile | no | 97.138 | yes |
| flagellated | no | 64.634 | no |
| aerobic | yes | 54.424 | no |
| glucose-ferment | no | 87.05 | no |
| motile | yes | 82.307 | no |
External links
@ref: 16818
culture collection no.: DSM 23382, CECT 7622, LMG 25482
straininfo link
- @ref: 86869
- straininfo: 364785
literature
- topic: Phylogeny
- Pubmed-ID: 20801595
- title: Breoghania corrubedonensis gen. nov. sp. nov., a novel alphaproteobacterium isolated from a Galician beach (NW Spain) after the Prestige fuel oil spill, and emended description of the family Cohaesibacteraceae and the species Cohaesibacter gelatinilyticus.
- authors: Gallego S, Vila J, Maria Nieto J, Urdiain M, Rossello-Mora R, Grifoll M
- journal: Syst Appl Microbiol
- DOI: 10.1016/j.syapm.2010.06.005
- year: 2010
- mesh: Alphaproteobacteria/*classification/genetics/growth & development/*isolation & purification, Base Composition, Carbon/metabolism, Cluster Analysis, Culture Media/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, *Environmental Microbiology, Environmental Pollutants, Fatty Acids/analysis, Fuel Oils, Molecular Sequence Data, Phospholipids/analysis, Phylogeny, Pyrenes/metabolism, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Sequence Analysis, DNA, Spain
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 16818 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23382) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23382 | |||
| 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 | |||
| 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) | |||
| 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 | |
| 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 | |||
| 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 | |||
| 86869 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID364785.1 | StrainInfo: A central database for resolving microbial strain identifiers |