Strain identifier

BacDive ID: 4160

Type strain: Yes

Species: Oceanidesulfovibrio marinus

Strain Designation: E-2

Strain history: M.-L. Fardeau E-2.

NCBI tax ID(s): 370038 (species)

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

@ref: 7495

BacDive-ID: 4160

DSM-Number: 18311

keywords: 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Oceanidesulfovibrio marinus E-2 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from marine sediments.

NCBI tax id

  • NCBI tax id: 370038
  • Matching level: species

strain history

@refhistory
7495<- M.-L. Fardeau, Lab. Microbiol. de l'IRD/ESIL, Univ. de Provence et de la Méditerranée, Marseille, France; E-2 <- O. Ben Dhia Thabet {2000}
67770M.-L. Fardeau E-2.

doi: 10.13145/bacdive4160.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Deltaproteobacteria
  • order: Desulfovibrionales
  • family: Desulfovibrionaceae
  • genus: Oceanidesulfovibrio
  • species: Oceanidesulfovibrio marinus
  • full scientific name: Oceanidesulfovibrio marinus (Ben Dhia Thabet et al. 2007) Galushko and Kuever 2021
  • synonyms

    • @ref: 20215
    • synonym: Desulfovibrio marinus

@ref: 7495

domain: Bacteria

phylum: Pseudomonadota

class: Deltaproteobacteria

order: Desulfovibrionales

family: Desulfovibrionaceae

genus: Oceanidesulfovibrio

species: Oceanidesulfovibrio marinus

full scientific name: Oceanidesulfovibrio marinus

strain designation: E-2

type strain: yes

Morphology

cell morphology

  • @ref: 32002
  • gram stain: negative
  • cell length: 2 µm
  • cell width: 0.5 µm
  • cell shape: rod-shaped
  • motility: yes

pigmentation

  • @ref: 32002
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 7495
  • name: MARINE DESULFOVIBRIO COMPLEX MEDIUM (DSMZ Medium 1040)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1040
  • composition: Name: MARIDESULFOVIBRIO MEDIUM (DSMZ Medium 1040) Composition: Sea Salt 34.9301 g/l Na-DL-lactate 2.49501 g/l Yeast extract 0.998004 g/l Na2CO3 0.998004 g/l Na2S x 9 H2O 0.299401 g/l MgSO4 x 7 H2O 0.0299401 g/l NaCl 0.00998004 g/l MnSO4 x H2O 0.00499002 g/l (NH4)2Ni(SO4)2 x 6 H2O 0.00279441 g/l CoCl2 x 6 H2O 0.00179641 g/l ZnSO4 x 7 H2O 0.00179641 g/l CaCl2 x 2 H2O 0.000998004 g/l FeSO4 x 7 H2O 0.000998004 g/l Sodium resazurin 0.000499002 g/l AlK(SO4)2 x 12 H2O 0.000179641 g/l CuSO4 x 5 H2O 9.98004e-05 g/l H3BO3 9.98004e-05 g/l Na2MoO4 x 2 H2O 9.98004e-05 g/l Na2WO4 x 2 H2O 9.98004e-05 g/l Na2SeO4 9.98004e-05 g/l Pyridoxine hydrochloride 9.98004e-05 g/l (DL)-alpha-Lipoic acid 4.99002e-05 g/l Calcium D-(+)-pantothenate 4.99002e-05 g/l Nicotinic acid 4.99002e-05 g/l Riboflavin 4.99002e-05 g/l Thiamine HCl 4.99002e-05 g/l p-Aminobenzoic acid 4.99002e-05 g/l Folic acid 1.99601e-05 g/l Biotin 1.99601e-05 g/l Vitamin B12 9.98004e-07 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
7495positivegrowth37mesophilic
32002positivegrowth20-50
32002positiveoptimum37mesophilic
67770positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
32002positivegrowth6.5-8.5alkaliphile
32002positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
7495anaerobe
32002anaerobe

spore formation

  • @ref: 32002
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
32002NaClpositivegrowth0.5-11 %
32002NaClpositiveoptimum5 %

observation

  • @ref: 32002
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3200215740formate+carbon source
3200228757fructose+carbon source
3200224996lactate+carbon source
3200225115malate+carbon source
3200215361pyruvate+carbon source
3200230031succinate+carbon source

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
7495marine sedimentsSfaxTunisiaTUNAfrica
67770Marine sediments near SfaxTunisiaTUNAfrica

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment

Safety information

risk assessment

  • @ref: 7495
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 7495
  • description: Desulfovibrio marinus strain E-2 16S ribosomal RNA gene, partial sequence
  • accession: DQ365924
  • length: 1524
  • database: ena
  • NCBI tax ID: 370038

GC content

@refGC-contentmethod
749560.4high performance liquid chromatography (HPLC)
3200260.4

External links

@ref: 7495

culture collection no.: DSM 18311, JCM 14040

straininfo link

  • @ref: 73661
  • straininfo: 309530

literature

  • topic: Phylogeny
  • Pubmed-ID: 17766893
  • title: Desulfovibrio marinus sp. nov., a moderately halophilic sulfate-reducing bacterium isolated from marine sediments in Tunisia.
  • authors: Ben Dhia Thabet O, Fardeau ML, Suarez-Nunez C, Hamdi M, Thomas P, Ollivier B, Alazard D
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.64790-0
  • year: 2007
  • mesh: Anaerobiosis/physiology, Bacterial Typing Techniques, Base Composition, Cytochromes c/analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Desulfovibrio/*classification/genetics/*isolation & purification/physiology, Fermentation/physiology, Genes, rRNA, Geologic Sediments/*microbiology, Hydrogensulfite Reductase/analysis, Locomotion/physiology, Mexico, Molecular Sequence Data, Nucleic Acid Hybridization, Oxidation-Reduction, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Homology, Nucleic Acid, Sulfates/metabolism, Temperature, Tunisia, *Water Microbiology
  • topic2: Enzymology

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
7495Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18311)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18311
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
32002Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2825628776041
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
73661Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID309530.1StrainInfo: A central database for resolving microbial strain identifiers