Strain identifier

BacDive ID: 487

Type strain: Yes

Species: Marinobacter vinifirmus

Strain Designation: FB1

Strain history: CIP <- 2007, CCUG <- 2005, P. Liegbott, M. Labat, IRD UMR, Marseille, France: strain FB1

NCBI tax ID(s): 355591 (species)

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General

@ref: 7165

BacDive-ID: 487

DSM-Number: 17747

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-negative, rod-shaped

description: Marinobacter vinifirmus FB1 is an obligate aerobe, mesophilic, Gram-negative bacterium that was isolated from wine wastewater of evaposation pond after decalcification of the tanks.

NCBI tax id

  • NCBI tax id: 355591
  • Matching level: species

strain history

@refhistory
7165<- P. P. Liebgott; FB1
123848CIP <- 2007, CCUG <- 2005, P. Liegbott, M. Labat, IRD UMR, Marseille, France: strain FB1

doi: 10.13145/bacdive487.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Alteromonadales
  • family: Alteromonadaceae
  • genus: Marinobacter
  • species: Marinobacter vinifirmus
  • full scientific name: Marinobacter vinifirmus Liebgott et al. 2006

@ref: 7165

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Alteromonadales

family: Alteromonadaceae

genus: Marinobacter

species: Marinobacter vinifirmus

full scientific name: Marinobacter vinifirmus Liebgott et al. 2006

strain designation: FB1

type strain: yes

Morphology

cell morphology

  • @ref: 123848
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7165BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514; with strain-specific modifications) Composition: NaCl 40.0 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
39784Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
123848CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
123848CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
7165positivegrowth30mesophilic
39784positivegrowth25mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 123848
  • oxygen tolerance: obligate aerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12384817632nitrate-reduction
12384816301nitrite+reduction

metabolite production

  • @ref: 123848
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
123848oxidase+
123848catalase+1.11.1.6
123848urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123848-+++-+----++-----+--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling dateisolation date
7165wine wastewater of evaposation pond after decalcification of the tanksSerignan-VaucluseFranceFRAEurope
59428Wine wastewater of evaporation pondVaucluse,SerignanFranceFRAEurope2002-09-01
123848Environment, Wine wastewater of evaporation pondSerignanFranceFRAEurope2002

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Fermented
#Engineered#Waste#Wastewater
#Environmental#Aquatic#Pond (small)
#Engineered#Food production#Beverage

taxonmaps

  • @ref: 69479
  • File name: preview.99_5697.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_89;96_2738;97_3366;98_4245;99_5697&stattab=map
  • Last taxonomy: Marinobacter vinifirmus
  • 16S sequence: DQ235263
  • Sequence Identity:
  • Total samples: 957
  • soil counts: 63
  • aquatic counts: 835
  • animal counts: 36
  • plant counts: 23

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
71651Risk group (German classification)
1238481Risk group (French classification)

Sequence information

16S sequences

  • @ref: 7165
  • description: Marinobacter vinifirmus strain FB1 16S ribosomal RNA gene, partial sequence
  • accession: DQ235263
  • length: 1505
  • database: ena
  • NCBI tax ID: 355591

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Marinobacter vinifirmus FB1GCA_002258215contigncbi355591
66792Marinobacter vinifirmus strain FB1355591.9wgspatric355591
66792Marinobacter vinifirmus FB12855212161draftimg355591

GC content

  • @ref: 7165
  • GC-content: 58.7

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveno98.731no
anaerobicno98.521no
halophileyes84.59no
spore-formingno97.018no
glucose-utilno61.889no
motileno63.665no
flagellatedyes51.221no
aerobicyes82.502no
thermophileno98.99yes
glucose-fermentno88.654no

External links

@ref: 7165

culture collection no.: DSM 17747, CCUG 52119, CIP 109495

straininfo link

  • @ref: 70166
  • straininfo: 297231

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17082382Marinobacter vinifirmus sp. nov., a moderately halophilic bacterium isolated from a wine-barrel-decalcification wastewater.Liebgott PP, Casalot L, Paillard S, Lorquin J, Labat MInt J Syst Evol Microbiol10.1099/ijs.0.64368-02006Aerobiosis, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis/chemistry, Food Microbiology, Genes, rRNA, Gentian Violet, Industrial Waste, Marinobacter/*classification/cytology/*isolation & purification/physiology, Molecular Sequence Data, Movement, Nucleic Acid Hybridization, Oxygen/metabolism, Phenazines, Phylogeny, RNA, Ribosomal, 16S/genetics, Sodium Chloride/pharmacology, Temperature, *Water MicrobiologyBiotechnology
Phylogeny30095388Marinobacter fuscus sp. nov., a marine bacterium of Gammaproteobacteria isolated from surface seawater.Liu Q, Xamxidin M, Sun C, Cheng H, Meng FX, Wu YH, Wang CS, Xu XWInt J Syst Evol Microbiol10.1099/ijsem.0.0029562018Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Marinobacter/*classification/genetics/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitle
7165Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17747)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17747
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
39784Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7245
59428Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 52119)https://www.ccug.se/strain?id=52119
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)
68382Automatically annotated from API zym
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
70166Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID297231.1StrainInfo: A central database for resolving microbial strain identifiers
123848Curators of the CIPCollection of Institut Pasteur (CIP 109495)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109495