Strain identifier

BacDive ID: 158322

Type strain: Yes

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)

For citation purpose refer to the digital object identifier (doi) of the current version.
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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

@refnamegrowthlinkcomposition
64998BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: 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
65345marine brothyes

culture temp

@refgrowthtypetemperaturerange
64998positivegrowth30mesophilic
65345positivegrowth4-45
65345positiveoptimum30-35mesophilic

culture pH

@refabilitytypepHPH range
65345positivegrowth5.5-9alkaliphile
65345positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 65345
  • oxygen tolerance: aerobe

nutrition type

  • @ref: 65345
  • type: chemoorganoheterotroph

halophily

@refsaltgrowthtested relationconcentration
65345NaClpositivegrowth0.5-10 %
65345NaClpositiveoptimum3.5-4 %

observation

  • @ref: 65345
  • observation: No growth was observed on oil and paraffin containing agar plates.

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6534548095(-)-D-fructose+carbon source
6534518287L-fucose+carbon source
6534512936D-galactose+carbon source
6534517315D-glucosamine+carbon source
6534516024D-mannose+carbon source
6534565327D-xylose+carbon source
6534530849L-arabinose+carbon source
6534536241protocatechuate+assimilation
65345323734-coumarate+assimilation
65345178794-hydroxybenzoate+assimilation
6534516449alanine+assimilation
6534529016arginine+assimilation
6534522653asparagine+assimilation
6534535391aspartate+assimilation
6534516150benzoate-assimilation
6534515956biotin+required for growth
6534517057cellobiose+carbon source
6534523248cinnamate-assimilation
6534516947citrate+assimilation
6534515356cysteine-assimilation
6534517634D-glucose+carbon source
6534516899D-mannitol+carbon source
6534516988D-ribose+carbon source
6534541808decane+assimilation
6534529749ferulate+assimilation
6534529987glutamate+assimilation
6534528300glutamine-assimilation
6534517754glycerol+assimilation
6534515428glycine-assimilation
6534545296hexadecane+assimilation
6534527570histidine+assimilation
6534524898isoleucine+assimilation
6534517716lactose-carbon source
6534525017leucine+assimilation
6534525094lysine-assimilation
6534516811methionine-assimilation
6534516301nitrite-reduction
6534532892nonane+assimilation
6534528044phenylalanine+assimilation
6534526271proline+assimilation
6534530762salicylate-assimilation
6534517822serine+assimilation
6534532954sodium acetate+assimilation
6534550144sodium pyruvate+assimilation
65345sodium(+)+required for growth
6534528017starch-carbon source
6534517992sucrose+carbon source
6534526986threonine+assimilation
6534527897tryptophan+assimilation
6534518186tyrosine+assimilation
6534527266valine+assimilation
6534516632vanillate+assimilation
6836925115malate+assimilation
6836917128adipate+assimilation
6836927689decanoate-assimilation
6836924265gluconate+assimilation
6836917306maltose+assimilation
6836959640N-acetylglucosamine+assimilation
6836916024D-mannose+assimilation
683695291gelatin-hydrolysis
683694853esculin+hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
65345catalase+1.11.1.6
65345cytochrome oxidase+1.9.3.1
65345amylase-
65345gelatinase-
65345lipase (Tween 80)-
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
68382alkaline phosphatase+3.1.3.1
68382lipase (C 14)-
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase-3.1.3.2
68382beta-galactosidase-3.2.1.23
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
64998-++/---+--------+/------
64998-++/-+/--+-----+/-+/--+-----
64998-+---+/---------------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
64998-----+-+++++/-+++-+++-
64998-----+-++/-+/-+-+++-+++-
64998-----+-++/-+/-+-+++-+++-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudesampling date
64998enrichment culture of surface seawater contaminated with weathered oil (slicks) from the Deep Water Horizon (DWH) oil spillGulf of Mexiko, (28° 43.967 N, 88° 22.993 W)USAUSANorth America28.7328-88.3832
65345oil-contaminated surface seawaterMacondo wellhead, Golf of Mexico28.7327-88.38322010-06-01

isolation source categories

Cat1Cat2Cat3
#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

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Tritonibacter horizontis O3.65GCA_001518015contigncbi1768241
66792Tritonibacter horizontis O3.652788500136draftimg1768241

GC content

@refGC-contentmethod
6499861.5
6534561.5genome 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

@idauthorstitledoi/urlcataloguejournalpubmed
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
64998Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-101689Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 101689)
65345Franziska Klotz, Thorsten Brinkhoff, Heike M. Freese, Matthias Wietz, Andreas Teske, Meinhard Simon, Helge-Ansgar GiebelTritonibacter horizontis gen. nov., sp. nov., a member of the Rhodobacteraceae, isolated from the Deepwater Horizon oil spill10.1099/ijsem.0.002573IJSEM 68: 736-744 201829458459
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
111132Reimer, 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 identifiers10.60712/SI-ID408172.1