Strain identifier

BacDive ID: 17343

Type strain: Yes

Species: Vibrio inusitatus

Strain Designation: RW14

Strain history: CIP <- 2007, NBRC <- 2006, T. Sawabe, Hokkaido Univ., Hokkaido, Japan: strain RW14

NCBI tax ID(s): 1219070 (strain), 413402 (species)

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General

@ref: 8238

BacDive-ID: 17343

DSM-Number: 19661

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

description: Vibrio inusitatus RW14 is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from gut of abalone Haliotis rufescens.

NCBI tax id

NCBI tax idMatching level
1219070strain
413402species

strain history

@refhistory
8238<- T. Sawabe, Faculty of Fisheries Sciences, Hokkaido
120275CIP <- 2007, NBRC <- 2006, T. Sawabe, Hokkaido Univ., Hokkaido, Japan: strain RW14

doi: 10.13145/bacdive17343.20230509.8.1

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 inusitatus
  • full scientific name: Vibrio inusitatus Sawabe et al. 2007

@ref: 8238

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Vibrionales, not validated

family: Vibrionaceae

genus: Vibrio

species: Vibrio inusitatus

full scientific name: Vibrio inusitatus Sawabe et al. 2007

strain designation: RW14

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
32001negative1.5 µm0.75 µmrod-shapedno
69480negative99.973
120275negativerod-shapedno

pigmentation

  • @ref: 32001
  • production: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8238BACTO 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
37798Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
120275CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
8238positivegrowth28mesophilic
32001positivegrowth04-30
32001positiveoptimum17psychrophilic
37798positivegrowth20psychrophilic
61150positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
32001facultative anaerobe
61150aerobe

spore formation

@refspore formationconfidence
32001no
69481no100
69480no99.778

halophily

@refsaltgrowthtested relationconcentration
32001NaClpositivegrowth01-06 %
32001NaClpositiveoptimum3.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3200130089acetate+carbon source
3200117057cellobiose+carbon source
3200128757fructose+carbon source
3200117234glucose+carbon source
3200129987glutamate+carbon source
3200117306maltose+carbon source
3200129864mannitol+carbon source
3200137684mannose+carbon source
32001506227N-acetylglucosamine+carbon source
3200130031succinate+carbon source
3200118222xylose+carbon source
3200117632nitrate+reduction
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose+builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose+builds acid from
6837117057cellobiose+builds acid from
6837117814salicin-builds acid from
683714853esculin+builds acid from
6837118305arbutin+builds acid from
6837127613amygdalin+builds acid from
6837159640N-acetylglucosamine+builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol+builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837115824D-fructose+builds acid from
6837117634D-glucose+builds acid from
6837112936D-galactose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose+builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from
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
12027517632nitrate+reduction
12027516301nitrite-reduction

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
12027535581indoleno

metabolite tests

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

enzymes

@refvalueactivityec
32001catalase+1.11.1.6
32001cytochrome oxidase+1.9.3.1
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
120275oxidase+
120275catalase+1.11.1.6
120275urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)-
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
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
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
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
120275-+---+----++-----+--

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
8238+-+--+--------------+

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
120275-----+----++-----+---++++-++----------+----------

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentisolation date
8238gut of abalone Haliotis rufescensHaliotis rufescensLa JollaUSAUSANorth America
61150Abalone gut,Haliotis rufescensLa JollaUSAUSANorth America
120275Gut, abalone Haliotis rufescensLa Jolla, CaliforniaUnited States of AmericaUSANorth America2005

isolation source categories

Cat1Cat2Cat3
#Host#Invertebrates (Other)#Mollusca
#Host Body-Site#Gastrointestinal tract#Stomach

taxonmaps

  • @ref: 69479
  • File name: preview.99_34476.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_14;96_71;97_1275;98_1531;99_34476&stattab=map
  • Last taxonomy: Vibrio
  • 16S sequence: DQ922920
  • Sequence Identity:
  • Total samples: 565
  • soil counts: 7
  • aquatic counts: 484
  • animal counts: 74

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
82381Risk group (German classification)
1202752Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Vibrio inusitatus gene for 16S rRNA, partial sequence, strain: NBRC 102082AB6816941478ena413402
8238Vibrio inusitatus strain RW14 16S ribosomal RNA gene, partial sequenceDQ9229201433ena413402

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Vibrio inusitatus NBRC 102082GCA_006538525contigncbi1219070
66792Vibrio inusitatus NBRC 1020821219070.3wgspatric1219070
66792Vibrio inusitatus LMG 23434GCA_024346935completencbi413402

GC content

  • @ref: 32001
  • GC-content: 43.4

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno86.93yes
gram-positiveno98.483no
anaerobicno98.002yes
aerobicyes79.279no
halophileyes70.796no
spore-formingno97.266yes
motileno85.308yes
glucose-fermentyes87.643yes
thermophileno99.505yes
glucose-utilyes89.515no

External links

@ref: 8238

culture collection no.: DSM 19661, LMG 23434, NBRC 102082, CCUG 56971, CIP 109635

straininfo link

  • @ref: 86343
  • straininfo: 307805

literature

  • topic: Phylogeny
  • Pubmed-ID: 17473233
  • title: Vibrio comitans sp. nov., Vibrio rarus sp. nov. and Vibrio inusitatus sp. nov., from the gut of the abalones Haliotis discus discus, H. gigantea, H. madaka and H. rufescens.
  • authors: Sawabe T, Fujimura Y, Niwa K, Aono H
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.64789-0
  • year: 2007
  • mesh: Adhesins, Bacterial/genetics, Aerobiosis, Alginates/metabolism, Anaerobiosis, Animals, Bacterial Proteins/genetics, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Gastrointestinal Tract/microbiology, Gastropoda/*microbiology, Genes, rRNA/genetics, Glucuronic Acid/metabolism, Hexuronic Acids/metabolism, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Vibrio/*classification/*isolation & purification/metabolism
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
8238Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19661)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19661
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
32001Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604128255
37798Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7400
61150Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 56971)https://www.ccug.se/strain?id=56971
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)
68369Automatically annotated from API 20NE
68371Automatically annotated from API 50CH acid
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
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
86343Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID307805.1StrainInfo: A central database for resolving microbial strain identifiers
120275Curators of the CIPCollection of Institut Pasteur (CIP 109635)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109635