Strain identifier
BacDive ID: 158322
Type strain:
Species: Epibacterium horizontis
Strain Designation: O3.65
Strain history: <- H.-A. Giebel, Institute for Chemistry and Biology of the Marine Environment (ICBM), Carl-von-Ossietzky University Oldenburg; O3.65 <- K. Grosser and H.-A. Giebel, Institute for Chemistry and Biology of the Marine Environment (ICBM), Carl-von-Ossietzky University Oldenburg; O3.65
NCBI tax ID(s): 1768241 (species)
General
@ref: 64998
BacDive-ID: 158322
DSM-Number: 101689
keywords: genome sequence, 16S sequence, Bacteria, aerobe, chemoorganoheterotroph, mesophilic, Gram-negative, motile, rod-shaped, colony-forming
description: Epibacterium horizontis O3.65 is an aerobe, chemoorganoheterotroph, mesophilic bacterium that forms circular colonies and was isolated from enrichment culture of surface seawater contaminated with weathered oil from the Deep Water Horizon oil spill.
NCBI tax id
- NCBI tax id: 1768241
- Matching level: species
strain history
- @ref: 64998
- history: <- H.-A. Giebel, Institute for Chemistry and Biology of the Marine Environment (ICBM), Carl-von-Ossietzky University Oldenburg; O3.65 <- K. Grosser and H.-A. Giebel, Institute for Chemistry and Biology of the Marine Environment (ICBM), Carl-von-Ossietzky University Oldenburg; O3.65
doi: 10.13145/bacdive158322.20230509.8.1
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 horizontis
- full scientific name: Epibacterium horizontis (Klotz et al. 2018) Liang et al. 2021
synonyms
- @ref: 20215
- synonym: Tritonibacter horizontis
@ref: 64998
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhodobacterales
family: Rhodobacteraceae
genus: Tritonibacter
species: Tritonibacter horizontis
full scientific name: Tritonibacter horizontis Klotz et al. 2018
strain designation: O3.65
type strain: yes
Morphology
cell morphology
- @ref: 65345
- gram stain: negative
- cell length: 1.3-2.2 µm
- cell width: 0.6-1 µm
- cell shape: rod-shaped
- motility: yes
- flagellum arrangement: monotrichous, polar
colony morphology
- @ref: 65345
- colony color: light beige
- colony shape: circular
- medium used: marine broth
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
64998 | BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) | yes | https://mediadive.dsmz.de/medium/514 | 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 |
65345 | marine broth | yes |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
64998 | positive | growth | 30 | mesophilic |
65345 | positive | growth | 4-45 | |
65345 | positive | optimum | 30-35 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
65345 | positive | growth | 5.5-9 | alkaliphile |
65345 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
- @ref: 65345
- oxygen tolerance: aerobe
nutrition type
- @ref: 65345
- type: chemoorganoheterotroph
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
65345 | NaCl | positive | growth | 0.5-10 % |
65345 | NaCl | positive | optimum | 3.5-4 % |
observation
- @ref: 65345
- observation: No growth was observed on oil and paraffin containing agar plates.
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
65345 | 48095 | (-)-D-fructose | + | carbon source |
65345 | 18287 | L-fucose | + | carbon source |
65345 | 12936 | D-galactose | + | carbon source |
65345 | 17315 | D-glucosamine | + | carbon source |
65345 | 16024 | D-mannose | + | carbon source |
65345 | 65327 | D-xylose | + | carbon source |
65345 | 30849 | L-arabinose | + | carbon source |
65345 | 36241 | protocatechuate | + | assimilation |
65345 | 32373 | 4-coumarate | + | assimilation |
65345 | 17879 | 4-hydroxybenzoate | + | assimilation |
65345 | 16449 | alanine | + | assimilation |
65345 | 29016 | arginine | + | assimilation |
65345 | 22653 | asparagine | + | assimilation |
65345 | 35391 | aspartate | + | assimilation |
65345 | 16150 | benzoate | - | assimilation |
65345 | 15956 | biotin | + | required for growth |
65345 | 17057 | cellobiose | + | carbon source |
65345 | 23248 | cinnamate | - | assimilation |
65345 | 16947 | citrate | + | assimilation |
65345 | 15356 | cysteine | - | assimilation |
65345 | 17634 | D-glucose | + | carbon source |
65345 | 16899 | D-mannitol | + | carbon source |
65345 | 16988 | D-ribose | + | carbon source |
65345 | 41808 | decane | + | assimilation |
65345 | 29749 | ferulate | + | assimilation |
65345 | 29987 | glutamate | + | assimilation |
65345 | 28300 | glutamine | - | assimilation |
65345 | 17754 | glycerol | + | assimilation |
65345 | 15428 | glycine | - | assimilation |
65345 | 45296 | hexadecane | + | assimilation |
65345 | 27570 | histidine | + | assimilation |
65345 | 24898 | isoleucine | + | assimilation |
65345 | 17716 | lactose | - | carbon source |
65345 | 25017 | leucine | + | assimilation |
65345 | 25094 | lysine | - | assimilation |
65345 | 16811 | methionine | - | assimilation |
65345 | 16301 | nitrite | - | reduction |
65345 | 32892 | nonane | + | assimilation |
65345 | 28044 | phenylalanine | + | assimilation |
65345 | 26271 | proline | + | assimilation |
65345 | 30762 | salicylate | - | assimilation |
65345 | 17822 | serine | + | assimilation |
65345 | 32954 | sodium acetate | + | assimilation |
65345 | 50144 | sodium pyruvate | + | assimilation |
65345 | sodium(+) | + | required for growth | |
65345 | 28017 | starch | - | carbon source |
65345 | 17992 | sucrose | + | carbon source |
65345 | 26986 | threonine | + | assimilation |
65345 | 27897 | tryptophan | + | assimilation |
65345 | 18186 | tyrosine | + | assimilation |
65345 | 27266 | valine | + | assimilation |
65345 | 16632 | vanillate | + | assimilation |
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 | 16024 | D-mannose | + | 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 |
---|---|---|---|
65345 | catalase | + | 1.11.1.6 |
65345 | cytochrome oxidase | + | 1.9.3.1 |
65345 | amylase | - | |
65345 | gelatinase | - | |
65345 | lipase (Tween 80) | - | |
68369 | gelatinase | - | |
68369 | beta-glucosidase | + | 3.2.1.21 |
68369 | urease | - | 3.5.1.5 |
68369 | arginine dihydrolase | - | 3.5.3.6 |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68382 | lipase (C 14) | - | |
68382 | valine arylamidase | - | |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | trypsin | - | 3.4.21.4 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | acid phosphatase | - | 3.1.3.2 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | alpha-glucosidase | - | 3.2.1.20 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
64998 | - | + | +/- | - | - | + | - | - | - | - | - | - | - | - | +/- | - | - | - | - | - |
64998 | - | + | +/- | +/- | - | + | - | - | - | - | - | +/- | +/- | - | + | - | - | - | - | - |
64998 | - | + | - | - | - | +/- | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
64998 | - | - | - | - | - | + | - | + | + | + | + | +/- | + | + | + | - | + | + | + | - |
64998 | - | - | - | - | - | + | - | + | +/- | +/- | + | - | + | + | + | - | + | + | + | - |
64998 | - | - | - | - | - | + | - | + | +/- | +/- | + | - | + | + | + | - | + | + | + | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | latitude | longitude | sampling date |
---|---|---|---|---|---|---|---|---|
64998 | enrichment culture of surface seawater contaminated with weathered oil (slicks) from the Deep Water Horizon (DWH) oil spill | Gulf of Mexiko, (28° 43.967 N, 88° 22.993 W) | USA | USA | North America | 28.7328 | -88.3832 | |
65345 | oil-contaminated surface seawater | Macondo wellhead, Golf of Mexico | 28.7327 | -88.3832 | 2010-06-01 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Laboratory | #Lab enrichment |
#Environmental | #Aquatic | #Marine |
#Engineered | #Contamination | #Oil (Fuel) |
#Environmental | #Aquatic | #Surface water |
Sequence information
16S sequences
- @ref: 64998
- description: Tritonibacter horizontis strain O3.65, whole genome shotgun sequencing project
- accession: LPUY00000000.1
- length: 139
- database: ena
- NCBI tax ID: 1768241
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Tritonibacter horizontis O3.65 | GCA_001518015 | contig | ncbi | 1768241 |
66792 | Tritonibacter horizontis O3.65 | 2788500136 | draft | img | 1768241 |
GC content
@ref | GC-content | method |
---|---|---|
64998 | 61.5 | |
65345 | 61.5 | genome sequence analysis |
External links
@ref: 64998
culture collection no.: DSM 101689, LMG 29740
straininfo link
- @ref: 111132
- straininfo: 408172
literature
- topic: Phylogeny
- Pubmed-ID: 29458459
- title: Tritonibacter horizontis gen. nov., sp. nov., a member of the Rhodobacteraceae, isolated from the Deepwater Horizon oil spill.
- authors: Klotz F, Brinkhoff T, Freese HM, Wietz M, Teske A, Simon M, Giebel HA
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.002573
- year: 2018
- mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gulf of Mexico, Heterotrophic Processes, *Petroleum Pollution, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistry, Water Pollutants, Chemical
- 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 | |||
64998 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-101689 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 101689) | |||
65345 | Franziska Klotz, Thorsten Brinkhoff, Heike M. Freese, Matthias Wietz, Andreas Teske, Meinhard Simon, Helge-Ansgar Giebel | Tritonibacter horizontis gen. nov., sp. nov., a member of the Rhodobacteraceae, isolated from the Deepwater Horizon oil spill | 10.1099/ijsem.0.002573 | IJSEM 68: 736-744 2018 | 29458459 | |
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 | |||||
68382 | Automatically annotated from API zym | |||||
111132 | 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-ID408172.1 |