Strain identifier

BacDive ID: 13843

Type strain: Yes

Species: Epibacterium multivorans

Strain Designation: MD5

Strain history: <- CECT <- M. J. Pujalte, Univ. Valencia, Spain

NCBI tax ID(s): 928856 (species)

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General

@ref: 18233

BacDive-ID: 13843

DSM-Number: 26470

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile

description: Epibacterium multivorans MD5 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from surface seawater.

NCBI tax id

  • NCBI tax id: 928856
  • Matching level: species

strain history

  • @ref: 18233
  • history: <- CECT <- M. J. Pujalte, Univ. Valencia, Spain

doi: 10.13145/bacdive13843.20230509.8.1

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 multivorans
  • full scientific name: Epibacterium multivorans (Lucena et al. 2012) Wirth and Whitman 2018

  • synonyms

    @refsynonym
    20215Tritonibacter multivorans
    20215Tropicibacter multivorans

@ref: 18233

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Tritonibacter

species: Tritonibacter multivorans

full scientific name: Tritonibacter multivorans (Lucena et al. 2012) Hördt et al. 2020

strain designation: MD5

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthmotilityconfidence
30217negative2-2.5 µm0.5-1 µmyes
69480negative99.997

colony morphology

  • @ref: 18233
  • incubation period: 1-2 days

Culture and growth conditions

culture medium

  • @ref: 18233
  • 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

@refgrowthtypetemperaturerange
18233positivegrowth30mesophilic
30217positivegrowth15-37

Physiology and metabolism

oxygen tolerance

  • @ref: 30217
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.968

halophily

  • @ref: 30217
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 1.7-7 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
30217370543-hydroxybutyrate+carbon source
3021730089acetate+carbon source
3021716449alanine+carbon source
3021729016arginine+carbon source
3021735391aspartate+carbon source
3021717057cellobiose+carbon source
3021716947citrate+carbon source
3021728757fructose+carbon source
3021728260galactose+carbon source
3021717234glucose+carbon source
3021729987glutamate+carbon source
3021717754glycerol+carbon source
3021727570histidine+carbon source
3021724996lactate+carbon source
3021725017leucine+carbon source
3021725115malate+carbon source
3021729864mannitol+carbon source
3021737684mannose+carbon source
3021717268myo-inositol+carbon source
3021718257ornithine+carbon source
3021717272propionate+carbon source
3021715361pyruvate+carbon source
3021733942ribose+carbon source
3021717822serine+carbon source
3021730911sorbitol+carbon source
3021730031succinate+carbon source
3021726986threonine+carbon source
3021718222xylose+carbon source
302174853esculin+hydrolysis
6836925115malate-assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-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
18233catalase+1.11.1.6
18233cytochrome-c oxidase+1.9.3.1
30217acid phosphatase+3.1.3.2
30217alkaline phosphatase+3.1.3.1
30217catalase+1.11.1.6
30217cytochrome oxidase+1.9.3.1
30217urease+3.5.1.5
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease+3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
18233----+---------------

Isolation, sampling and environmental information

isolation

  • @ref: 18233
  • sample type: surface seawater
  • geographic location: Valencia, Malvarrosa Beach
  • country: Spain
  • origin.country: ESP
  • continent: Europe
  • latitude: 39.4747
  • longitude: -0.3231

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Surface water

taxonmaps

  • @ref: 69479
  • File name: preview.99_7037.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_3192;97_3916;98_5170;99_7037&stattab=map
  • Last taxonomy: Rhodobacteraceae
  • 16S sequence: FR727679
  • Sequence Identity:
  • Total samples: 2577
  • soil counts: 89
  • aquatic counts: 2405
  • animal counts: 77
  • plant counts: 6

Safety information

risk assessment

  • @ref: 18233
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 18233
  • description: Tropicibacter multivorans partial 16S rRNA gene, type strain CECT 7557T
  • accession: FR727679
  • length: 1405
  • database: ena
  • NCBI tax ID: 928856

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Tritonibacter multivorans DSM 26470GCA_900112515scaffoldncbi928856
66792Tritonibacter multivorans CECT 7557GCA_001458415contigncbi928856
66792Epibacterium multivorans strain CECT 7557928856.5wgspatric928856
66792Tropicibacter multivorans strain DSM 26470928856.4wgspatric928856
66792Epibacterium multivorans CECT 75572713896962draftimg928856
66792Epibacterium multivorans DSM 264702615840706draftimg928856
66792Tritonibacter multivorans MD5GCA_028023755contigncbi928856

GC content

  • @ref: 18233
  • GC-content: 60.7

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes82.069yes
flagellatedno58.942no
gram-positiveno98.769yes
anaerobicno99.38yes
aerobicyes92.261yes
halophileyes73.423no
spore-formingno95.959no
glucose-fermentno89.827yes
thermophileno96.501no
glucose-utilyes80.906no

External links

@ref: 18233

culture collection no.: DSM 26470, CECT 7557, KCTC 23350

straininfo link

  • @ref: 83019
  • straininfo: 379640

literature

  • topic: Phylogeny
  • Pubmed-ID: 21602360
  • title: Tropicibacter multivorans sp. nov., an aerobic alphaproteobacterium isolated from surface seawater.
  • authors: Lucena T, Pujalte MJ, Ruvira MA, Garay E, Macian MC, Arahal DR
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.030973-0
  • year: 2011
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Mediterranean Sea, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification, Seawater/*microbiology, Sequence Analysis, DNA, Spain, Ubiquinone/chemistry
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
18233Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26470)https://www.dsmz.de/collection/catalogue/details/culture/DSM-26470
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
30217Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2656128776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updates33211880Nucleic Acids Res. 49: D498-D508 2020
68369Automatically annotated from API 20NE
69479João 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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
83019Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID379640.1StrainInfo: A central database for resolving microbial strain identifiers