Strain identifier

BacDive ID: 17348

Type strain: Yes

Species: Vibrio breoganii

Strain Designation: RD 15.11

Strain history: CIP <- 2009, CECT <- J.L. Romalde, CIBUS, Santiago Univ., Santiago de Compostela, Spain: strain RD 15.11

NCBI tax ID(s): 553239 (species)

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General

@ref: 16826

BacDive-ID: 17348

DSM-Number: 23390

keywords: 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-negative

description: Vibrio breoganii RD 15.11 is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from clams Ruditapes decussatus.

NCBI tax id

  • NCBI tax id: 553239
  • Matching level: species

strain history

@refhistory
16826<- CECT <- J. L. Romalde <- R. Beaz Hidalgo, Centro de Investigaciones Biológicas, Universidad de Santiago de Compostela
117001CIP <- 2009, CECT <- J.L. Romalde, CIBUS, Santiago Univ., Santiago de Compostela, Spain: strain RD 15.11

doi: 10.13145/bacdive17348.20241212.9.2

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Vibrionales
  • family: Vibrionaceae
  • genus: Vibrio
  • species: Vibrio breoganii
  • full scientific name: Vibrio breoganii Beaz Hidalgo et al. 2009

@ref: 16826

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Vibrionales, not validated

family: Vibrionaceae

genus: Vibrio

species: Vibrio breoganii

full scientific name: Vibrio breoganii Beaz Hidalgo et al. 2009

strain designation: RD 15.11

type strain: yes

Morphology

cell morphology

@refgram stainmotilitycell shape
28998negativeno
117001negativenorod-shaped

pigmentation

  • @ref: 28998
  • production: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16826REACTIVATION WITH LIQUID MEDIUM 514 (DSMZ Medium 514c)yeshttps://mediadive.dsmz.de/medium/514cName: REACTIVATION WITH LIQUID MEDIUM 514 (DSMZ Medium 514c) Composition: NaCl 19.45 g/l Agar 18.0 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 Na2CO3 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
33343Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
117001CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperature
16826positivegrowth28
28998positiveoptimum18.5
33343positivegrowth25

Physiology and metabolism

oxygen tolerance

  • @ref: 28998
  • oxygen tolerance: facultative anaerobe

halophily

@refsaltgrowthtested relationconcentration
28998NaClpositivegrowth1.5-6.0 %
28998NaClpositiveoptimum3.75 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
28998168082-dehydro-D-gluconate+carbon source
2899817057cellobiose+carbon source
2899828757fructose+carbon source
2899828260galactose+carbon source
289985417glucosamine+carbon source
2899817234glucose+carbon source
2899828087glycogen+carbon source
2899817716lactose+carbon source
2899817306maltose+carbon source
2899829864mannitol+carbon source
2899828053melibiose+carbon source
28998506227N-acetylglucosamine+carbon source
2899817814salicin+carbon source
2899818222xylose+carbon source
289984853esculin+hydrolysis
2899817632nitrate+reduction
11700117632nitrate+reduction
11700116301nitrite-reduction

metabolite production

  • @ref: 117001
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
28998acid phosphatase+3.1.3.2
28998alkaline phosphatase+3.1.3.1
28998catalase+1.11.1.6
28998cytochrome oxidase+1.9.3.1
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382beta-glucuronidase-3.2.1.31
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382naphthol-AS-BI-phosphohydrolase-
68382acid phosphatase+3.1.3.2
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382esterase (C 4)-
68382alkaline phosphatase+3.1.3.1
117001oxidase+
117001catalase+1.11.1.6
117001urease-3.5.1.5
68382alpha-fucosidase-3.2.1.51
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
117001-+---+----+------+--

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
16826clams Ruditapes decussatusRuditapes decussatusGaliciaSpainESPEurope
117001Ruditapes decussatusGaliciaSpainESPEurope

isolation source categories

  • Cat1: #Host
  • Cat2: #Invertebrates (Other)
  • Cat3: #Mollusca

taxonmaps

  • @ref: 69479
  • File name: preview.99_1949.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_14;96_71;97_1275;98_1531;99_1949&stattab=map
  • Last taxonomy: Vibrio comitans
  • 16S sequence: EF599161
  • Sequence Identity:
  • Total samples: 8480
  • soil counts: 141
  • aquatic counts: 6346
  • animal counts: 1952
  • plant counts: 41

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
168261Risk group (German classification)
1170012Risk group (French classification)

Sequence information

16S sequences

  • @ref: 16826
  • description: Vibrio breoganii strain LMG 23858 16S ribosomal RNA gene, partial sequence
  • accession: EF599161
  • length: 1438
  • database: nuccore
  • NCBI tax ID: 553239

GC content

  • @ref: 16826
  • GC-content: 44.4

External links

@ref: 16826

culture collection no.: DSM 23390, CECT 7222, LMG 23858, CIP 110040

straininfo link

  • @ref: 86349
  • straininfo: 307640

literature

  • topic: Phylogeny
  • Pubmed-ID: 19542146
  • title: Vibrio breoganii sp. nov., a non-motile, alginolytic, marine bacterium within the Vibrio halioticoli clade.
  • authors: Beaz Hidalgo R, Cleenwerck I, Balboa S, Prado S, De Vos P, Romalde JL
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.003434-0
  • year: 2009
  • mesh: Alginates/*metabolism, Animals, Bacterial Proteins/genetics, Bacterial Typing Techniques, Base Composition, Bivalvia/*microbiology, DNA Fingerprinting/methods, DNA, Bacterial/analysis, Genes, rRNA, Genotype, Glucuronic Acid/metabolism, Hexuronic Acids/metabolism, Marine Biology, Nucleic Acid Hybridization, Phenotype, Phylogeny, Polymorphism, Restriction Fragment Length, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spain, Species Specificity, Vibrio/*classification/genetics/isolation & purification/physiology
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16826Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23390)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23390
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
28998Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2543128776041
33343Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7853
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
86349Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID307640.1StrainInfo: A central database for resolving microbial strain identifiers
117001Curators of the CIPCollection of Institut Pasteur (CIP 110040)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110040