Strain identifier
BacDive ID: 24523
Type strain:
Species: Epibacterium ulvae
Strain Designation: U95
Strain history: <- S. Egan, University of New South Wales; U95 <- A. Penesyan
NCBI tax ID(s): 1156985 (species)
General
@ref: 21250
BacDive-ID: 24523
DSM-Number: 24752
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped
description: Epibacterium ulvae U95 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from surface of the marine green alga Ulva australis collected from a rocky intertidal zone.
NCBI tax id
- NCBI tax id: 1156985
- Matching level: species
strain history
- @ref: 21250
- history: <- S. Egan, University of New South Wales; U95 <- A. Penesyan
doi: 10.13145/bacdive24523.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Rhodobacterales
- family: Roseobacteraceae
- genus: Epibacterium
- species: Epibacterium ulvae
- full scientific name: Epibacterium ulvae Penesyan et al. 2013
synonyms
- @ref: 20215
- synonym: Tritonibacter ulvae
@ref: 21250
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Not assigned to order
family: Rhodobacteraceae
genus: Epibacterium
species: Epibacterium ulvae
full scientific name: Epibacterium ulvae Penesyan et al. 2013
strain designation: U95
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
30714 | negative | 2.5 µm | 0.5 µm | rod-shaped | yes | |
69480 | negative | 99.996 |
colony morphology
- @ref: 21250
- incubation period: 3-7 days
pigmentation
- @ref: 30714
- production: yes
Culture and growth conditions
culture medium
- @ref: 21250
- 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 | growth | type | temperature | range |
---|---|---|---|---|
21250 | positive | growth | 25 | mesophilic |
30714 | positive | growth | 12-34 | |
30714 | positive | optimum | 25 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
30714 | positive | growth | 06-09 | alkaliphile |
30714 | positive | optimum | 7.5 |
Physiology and metabolism
oxygen tolerance
- @ref: 30714
- oxygen tolerance: aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.998 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
30714 | NaCl | positive | growth | 01-06 % |
30714 | NaCl | positive | optimum | 2.5 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
30714 | 16947 | citrate | + | carbon source |
30714 | 28757 | fructose | + | carbon source |
30714 | 28260 | galactose | + | carbon source |
30714 | 17234 | glucose | + | carbon source |
30714 | 17754 | glycerol | + | carbon source |
30714 | 24996 | lactate | + | carbon source |
30714 | 17306 | maltose | + | carbon source |
30714 | 29864 | mannitol | + | carbon source |
30714 | 37684 | mannose | + | carbon source |
30714 | 17272 | propionate | + | carbon source |
30714 | 30031 | succinate | + | carbon source |
30714 | 17992 | sucrose | + | carbon source |
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 |
---|---|---|---|
21250 | catalase | + | 1.11.1.6 |
21250 | cytochrome-c oxidase | + | 1.9.3.1 |
30714 | catalase | + | 1.11.1.6 |
30714 | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
21250 | - | - | - | - | + | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
- @ref: 21250
- sample type: surface of the marine green alga Ulva australis collected from a rocky intertidal zone
- host species: Ulva australis
- geographic location: near Sydney (33° 51'09''S, 151° 16'00''E), Clovelly, Sharks Point
- country: Australia
- origin.country: AUS
- continent: Australia and Oceania
- latitude: 33.8525
- longitude: 151.267
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Marine |
#Environmental | #Terrestrial | #Tidal flat |
#Host | #Algae | #Green algae |
Safety information
risk assessment
- @ref: 21250
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 21250
- description: Epibacterium ulvae strain U95 16S ribosomal RNA gene, partial sequence
- accession: JN935021
- length: 1326
- database: ena
- NCBI tax ID: 1156985
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Epibacterium ulvae U95 | GCA_002796795 | scaffold | ncbi | 1156985 |
66792 | Epibacterium ulvae U95 | GCA_900102795 | contig | ncbi | 1156985 |
66792 | Epibacterium ulvae U95 | 2622736501 | draft | img | 1156985 |
GC content
@ref | GC-content | method |
---|---|---|
21250 | 52.6 | high performance liquid chromatography (HPLC) |
30714 | 52.6 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
flagellated | no | 60.441 | no |
gram-positive | no | 98.367 | yes |
anaerobic | no | 98.871 | yes |
aerobic | yes | 87.005 | yes |
halophile | yes | 62.683 | no |
spore-forming | no | 92.853 | no |
thermophile | no | 97.638 | yes |
glucose-util | yes | 82.16 | no |
motile | yes | 77.657 | yes |
glucose-ferment | no | 89.073 | yes |
External links
@ref: 21250
culture collection no.: DSM 24752, LMG 26464
straininfo link
- @ref: 88378
- straininfo: 377580
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 22904216 | Epibacterium ulvae gen. nov., sp. nov., epibiotic bacteria isolated from the surface of a marine alga. | Penesyan A, Breider S, Schumann P, Tindall BJ, Egan S, Brinkhoff T | Int J Syst Evol Microbiol | 10.1099/ijs.0.042838-0 | 2012 | Australia, Bacterial Typing Techniques, Bacteriochlorophyll A/analysis, Base Composition, DNA, Bacterial/genetics, DNA, Ribosomal Spacer/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Roseobacter/*classification/genetics/isolation & purification, Seawater, Sequence Analysis, DNA, Ubiquinone/analysis, Ulva/*microbiology, Water Microbiology | Genetics |
Genetics | 33902719 | Genome sequence of Epibacterium ulvae strain DSM 24752(T), an indigoidine-producing, macroalga-associated member of the marine Roseobacter group. | Breider S, Sehar S, Berger M, Thomas T, Brinkhoff T, Egan S | Environ Microbiome | 10.1186/s40793-019-0343-5 | 2019 |
Reference
@id | authors | title | doi/url | catalogue | ID_cross_reference | pubmed | journal |
---|---|---|---|---|---|---|---|
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 | ||||
21250 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-24752 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24752) | ||||
30714 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 27045 | 28776041 | ||
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 | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
68369 | Automatically annotated from API 20NE | ||||||
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 | ||||
88378 | 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-ID377580.1 |