Strain identifier

BacDive ID: 17332

Type strain: Yes

Species: Vibrio tapetis

Strain Designation: B1090

Strain history: CIP <- 1996, CECT <- J.J. Borrego: strain B1090 <- C. Paillard and P. Maes

NCBI tax ID(s): 52443 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 15727

BacDive-ID: 17332

DSM-Number: 21475

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, motile, animal pathogen

description: Vibrio tapetis B1090 is a facultative anaerobe, mesophilic, motile animal pathogen that was isolated from Tapes philippinarum, clam.

NCBI tax id

  • NCBI tax id: 52443
  • Matching level: species

strain history

@refhistory
15727<- CIP <- CECT <- J. J. Borrego, Faculty of Sciences, University of Malaga, Spain; B1090 <- C. Paillard and P. Maes, Faculty of Pharmacy, University of Sevilla, Spain
123428CIP <- 1996, CECT <- J.J. Borrego: strain B1090 <- C. Paillard and P. Maes

doi: 10.13145/bacdive17332.20230509.8.1

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 tapetis
  • full scientific name: Vibrio tapetis Borrego et al. 1996

@ref: 15727

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Vibrionales, not validated

family: Vibrionaceae

genus: Vibrio

species: Vibrio tapetis

full scientific name: Vibrio tapetis Borrego et al. 1996 emend. Balboa and Romalde 2013

strain designation: B1090

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes95.259
6948099.969negative
123428yesnegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
15727BACTO 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
42262Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
123428CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
15727positivegrowth28mesophilic
42262positivegrowth25mesophilic
123428positivegrowth5-22psychrophilic
123428nogrowth30mesophilic
123428nogrowth37mesophilic
123428nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 123428
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.996

halophily

@refsaltgrowthtested relationconcentration
123428NaClpositivegrowth2-4 %
123428NaClnogrowth0 %
123428NaClnogrowth6 %
123428NaClnogrowth8 %
123428NaClnogrowth10 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose+builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose+builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen+builds acid from28087
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose+builds acid from27082
68371sucrose-builds acid from17992
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371maltose+builds acid from17306
68371cellobiose-builds acid from17057
68371salicin-builds acid from17814
68371esculin-builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose-builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68369malate+assimilation25115
68369adipate-assimilation17128
68369decanoate-assimilation27689
68369gluconate-assimilation24265
68369maltose+assimilation17306
68369N-acetylglucosamine-assimilation59640
68369D-mannitol-assimilation16899
68369D-mannose+assimilation16024
68369L-arabinose-assimilation30849
68369D-glucose+assimilation17634
68369gelatin+hydrolysis5291
68369esculin-hydrolysis4853
68369urea-hydrolysis16199
68369arginine-hydrolysis29016
68369D-glucose-fermentation17634
68369tryptophan-energy source27897
68369nitrate+reduction17632
123428citrate-carbon source16947
123428esculin-hydrolysis4853
123428glucose-fermentation17234
123428lactose-fermentation17716
123428nitrate+reduction17632
123428nitrite-reduction16301
123428sodium thiosulfate-builds gas from132112
123428glucose-degradation17234

antibiotic resistance

  • @ref: 123428
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
12342835581indoleno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-testmethylred-test
6836935581indole-
12342815688acetoin-
12342817234glucose-

enzymes

@refvalueactivityec
68369cytochrome oxidase+1.9.3.1
68369gelatinase+
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
123428oxidase+
123428beta-galactosidase+3.2.1.23
123428alcohol dehydrogenase-1.1.1.1
123428gelatinase+
123428caseinase+3.4.21.50
123428catalase+1.11.1.6
123428tween esterase-
123428gamma-glutamyltransferase+2.3.2.2
123428lysine decarboxylase-4.1.1.18
123428ornithine decarboxylase-4.1.1.17
123428phenylalanine ammonia-lyase-4.3.1.24
123428tryptophan deaminase-
123428urease-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
123428-+++-+----++--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
15727+-----+++-+--+---++-+

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
123428+/---------+/-+++--------+-----+---+---+/-+--+---+---+/--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
123428+--++----++--------------------+-----------------+---------+-------------------++-+------+++-------

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
15727Tapes philippinarum, clamTapes philippinarumLandédaFranceFRAEurope
123428Other, Tapes philippinarum, clamLandedaFranceFRAEurope

isolation source categories

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

Safety information

risk assessment

@refpathogenicity animalbiosafety levelbiosafety level comment
15727yes1Risk group (German classification)
1234282Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Vibrio tapetis 16S rRNA gene, type strain CECT 4600THE7951291531ena52443
15727V.tapetis 16S rRNA geneY084301472ena52443

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Vibrio tapetis subsp. tapetis Vibrio tapetis CECT4600GCA_900233005completencbi1671868
66792Vibrio tapetis strain CECT4600; CIP104856; B109052443.5plasmidpatric52443
66792Vibrio tapetis subsp. tapetis strain Vibrio tapetis CECT46001671868.3completepatric1671868
66792Vibrio tapetis tapetis CECT 46002850901066completeimg1671868

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedyes90.973no
gram-positiveno98.62no
anaerobicno96.61no
aerobicyes71.364no
halophileno60.8no
spore-formingno93.5no
thermophileno99.543yes
glucose-utilyes89.196yes
motileyes91.846no
glucose-fermentyes83.016no

External links

@ref: 15727

culture collection no.: DSM 21475, ATCC 700075, CECT 4600, CIP 104856, LMG 19706

straininfo link

  • @ref: 86332
  • straininfo: 12996

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18924380Vibrio tapetis-like strain isolated from introduced Manila clams Ruditapes philippinarum showing symptoms of brown ring disease in Norway.Paillard C, Korsnes K, Le Chevalier P, Le Boulay C, Harkestad L, Eriksen AG, Willassen E, Bergh O, Bovo C, Skar C, Mortensen SDis Aquat Organ10.3354/dao019502008Animals, Bivalvia/*microbiology/virology, Norway, Phylogeny, Vibrio/*classification/genetics/*isolation & purification, Vibrio Infections/*veterinaryEnzymology
Enzymology21326607Evidence for the role of horizontal transfer in generating pVT1, a large mosaic conjugative plasmid from the clam pathogen, Vibrio tapetis.Erauso G, Lakhal F, Bidault-Toffin A, Le Chevalier P, Bouloc P, Paillard C, Jacq APLoS One10.1371/journal.pone.00167592011Animals, Base Sequence, Bivalvia/*microbiology, Cloning, Molecular, Conjugation, Genetic/*genetics, Gene Dosage, Gene Transfer, Horizontal/*physiology, Models, Genetic, Mosaicism, Phylogeny, Plasmids/*genetics, Sequence Analysis, DNA, Vibrio/*genetics/pathogenicity, Vibrio Infections/genetics/microbiology/veterinaryGenetics
Enzymology22092767Proteomics and multilocus sequence analysis confirm intraspecific variability of Vibrio tapetis.Balboa S, Bermudez-Crespo J, Gianzo C, Lopez JL, Romalde JLFEMS Microbiol Lett10.1111/j.1574-6968.2011.02393.x2011Animals, Bacterial Proteins/*analysis/genetics, Bivalvia/microbiology, Cluster Analysis, Electrophoresis, Gel, Two-Dimensional, Flounder/microbiology, *Genetic Variation, Genotype, Mass Spectrometry, *Multilocus Sequence Typing, Phenotype, Proteome/*analysis, Vibrio/chemistry/*classification/genetics/isolation & purificationGenetics
Proteome22372382Two-dimensional proteome reference map of Vibrio tapetis, the aetiological agent of brown ring disease in clams.Bermudez-Crespo J, Balboa S, Alonso J, Romalde JLJ Appl Microbiol10.1111/j.1365-2672.2012.05271.x2012Animals, Bacterial Proteins/*analysis, Bivalvia/*microbiology, Electrophoresis, Gel, Two-Dimensional, Energy Metabolism, Mass Spectrometry, Proteome/*analysis, Sequence Analysis, Protein, Vibrio/*chemistry/metabolismEnzymology
Cultivation25331987Antibiofilm Activity of the Marine Bacterium Pseudoalteromonas sp. 3J6 Against Vibrio tapetis, the Causative Agent of Brown Ring Disease.Rodrigues S, Paillard C, Dufour A, Bazire AProbiotics Antimicrob Proteins10.1007/s12602-014-9173-32015Animals, *Antibiosis, Biofilms/*growth & development, Bivalvia/microbiology, Coculture Techniques, Culture Media/chemistry, Microscopy, Confocal, Pseudoalteromonas/*physiology, Vibrio/*growth & development, Vibrio Infections/*therapy
Enzymology25449703Immune responses of phenoloxidase and superoxide dismutase in the manila clam Venerupis philippinarum challenged with Vibrio tapetis--Part I: Spatio-temporal evolution of enzymes' activities post-infection.Le Bris C, Richard G, Paillard C, Lambert C, Seguineau C, Gauthier O, Pernet F, Guerard FFish Shellfish Immunol10.1016/j.fsi.2014.10.0212014Animals, Arthropod Proteins, Bivalvia/*enzymology/*immunology/*microbiology, Hemolymph/immunology, Monophenol Monooxygenase/*immunology, Oligopeptides, Superoxide Dismutase/*immunology, Time Factors, Vibrio/*immunology/pathogenicity
Enzymology25655330Immune responses of phenoloxidase and superoxide dismutase in the manila clam Venerupis philippinarum challenged with Vibrio tapetis--part II: combined effect of temperature and two V. tapetis strains.Richard G, Le Bris C, Guerard F, Lambert C, Paillard CFish Shellfish Immunol10.1016/j.fsi.2014.12.0392015Animals, *Bivalvia/enzymology/immunology/microbiology, *Immunity, Innate, Monophenol Monooxygenase/*immunology, Superoxide Dismutase/*immunology, Temperature, Vibrio/genetics/immunology/*physiology
26713238Development of a Taqman real-time PCR assay for rapid detection and quantification of Vibrio tapetis in extrapallial fluids of clams.Bidault A, Richard GG, Le Bris C, Paillard CPeerJ10.7717/peerj.14842015
Phylogeny27902301Isolation of Vibrio tapetis from two native fish species (Genypterus chilensis and Paralichthys adspersus) reared in Chile and description of Vibrio tapetis subsp. quintayensis subsp. nov.Levican A, Lasa A, Irgang R, Romalde JL, Poblete-Morales M, Avendano-Herrera RInt J Syst Evol Microbiol10.1099/ijsem.0.0017052017Animals, Bacterial Typing Techniques, Base Composition, Chile, DNA, Bacterial/genetics, Flounder/*microbiology, Genes, Bacterial, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Urodela/*microbiology, Vibrio/*classification/genetics/isolation & purificationTranscriptome
29515533Vibrio tapetis Displays an Original Type IV Secretion System in Strains Pathogenic for Bivalve Molluscs.Dias GM, Bidault A, Le Chevalier P, Choquet G, Der Sarkissian C, Orlando L, Medigue C, Barbe V, Mangenot S, Thompson CC, Thompson FL, Jacq A, Pichereau V, Paillard CFront Microbiol10.3389/fmicb.2018.002272018
Pathogenicity32395854External pH modulation during the growth of Vibrio tapetis, the aetiological agent of brown ring disease.Rahmani A, Mathien C, Bidault A, Le Goic N, Paillard C, Pichereau VJ Appl Microbiol10.1111/jam.146992020Animals, Bivalvia/*microbiology, Hemolymph/chemistry, Host-Pathogen Interactions, Hydrogen-Ion Concentration, Seafood/microbiology, Temperature, Vibrio/growth & development/*pathogenicity/*physiology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
15727Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21475)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21475
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
42262Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16810
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
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
86332Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID12996.1StrainInfo: A central database for resolving microbial strain identifiers
123428Curators of the CIPCollection of Institut Pasteur (CIP 104856)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104856