Strain identifier

BacDive ID: 17282

Type strain: Yes

Species: Vibrio lentus

Strain Designation: 40M4

Strain history: CIP <- 2001, CECT <- J.M. Pujalte, strain: 40M4

NCBI tax ID(s): 136468 (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: 5150

BacDive-ID: 17282

DSM-Number: 13757

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

description: Vibrio lentus 40M4 is a mesophilic, Gram-negative, motile bacterium that was isolated from cultivated oyster.

NCBI tax id

  • NCBI tax id: 136468
  • Matching level: species

strain history

@refhistory
5150<- CECT <- M. J. Pujalte; 40M4 (Vibrio sp.)
120585CIP <- 2001, CECT <- J.M. Pujalte, strain: 40M4

doi: 10.13145/bacdive17282.20230509.8.1

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 lentus
  • full scientific name: Vibrio lentus Macián et al. 2001

@ref: 5150

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Vibrionales, not validated

family: Vibrionaceae

genus: Vibrio

species: Vibrio lentus

full scientific name: Vibrio lentus Macián et al. 2001

strain designation: 40M4

type strain: yes

Morphology

cell morphology

  • @ref: 120585
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5150MARINE BROTH (ROTH CP73) (DSMZ Medium 514f)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium514f.pdf
33651Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
120585CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
5150positivegrowth25mesophilic
33651positivegrowth25mesophilic
120585positivegrowth5-22psychrophilic
120585nogrowth30mesophilic
120585nogrowth37mesophilic
120585nogrowth41thermophilic

Physiology and metabolism

halophily

@refsaltgrowthtested relationconcentration
120585NaClpositivegrowth2-6 %
120585NaClnogrowth0 %
120585NaClnogrowth8 %
120585NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
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
6836830849L-arabinose-fermentation
6836827613amygdalin-fermentation
6836828053melibiose-fermentation
6836817992sucrose-fermentation
6836862345L-rhamnose-fermentation
6836830911sorbitol-fermentation
6836817268myo-inositol-fermentation
6836816899D-mannitol-fermentation
6836817634D-glucose+fermentation
683685291gelatin+hydrolysis
6836827897tryptophan+energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis
1205854853esculin-hydrolysis
12058517632nitrate-reduction
12058516301nitrite-reduction

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
6836815688acetoinno
6836835581indoleyes
6836816136hydrogen sulfideno
12058535581indoleno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-testmethylred-test
6836935581indole-
6836815688acetoin-
6836835581indole+
12058515688acetoin-
12058517234glucose-

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
68368cytochrome oxidase+1.9.3.1
68368gelatinase+
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase+3.2.1.23
120585oxidase+
120585beta-galactosidase+3.2.1.23
120585alcohol dehydrogenase-1.1.1.1
120585gelatinase+/-
120585caseinase+3.4.21.50
120585catalase+1.11.1.6
120585tween esterase+
120585gamma-glutamyltransferase+2.3.2.2
120585lecithinase+
120585lipase-
120585lysine decarboxylase-4.1.1.18
120585ornithine decarboxylase-4.1.1.17
120585phenylalanine ammonia-lyase-4.3.1.24
120585protease+
120585tryptophan deaminase-
120585urease-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
120585-+++-+--+-++--------

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
5150+-------+-++--------+

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
5150--+---++------------+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120585--------------------------------------------------------------+--+--------------------+------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
5150cultivated oysterVinarozSpainESPEurope
120585Food, Cultivated oysterSpainESPEurope1999

isolation source categories

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

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
51501Risk group (German classification)
1205852Risk group (French classification)

Sequence information

16S sequences

  • @ref: 5150
  • description: Vibrio lentus 16S rRNA gene, strain 40M4T, CECT 5110T
  • accession: AJ278881
  • length: 1559
  • database: ena
  • NCBI tax ID: 136468

Genome sequences

  • @ref: 66792
  • description: Vibrio lentus strain 40M4T
  • accession: 136468.92
  • assembly level: wgs
  • database: patric
  • NCBI tax ID: 136468

GC content

  • @ref: 5150
  • GC-content: 44

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes90.649no
gram-positiveno98.736no
anaerobicno97.286no
halophileno52.536no
spore-formingno94.393no
glucose-utilyes87.824yes
thermophileno99.745no
flagellatedyes86.524no
aerobicyes86.614no
glucose-fermentyes86.057yes

External links

@ref: 5150

culture collection no.: DSM 13757, CECT 5110, KCTC 23148, CIP 107166

straininfo link

  • @ref: 86282
  • straininfo: 49513

literature

  • topic: Phylogeny
  • Pubmed-ID: 11491345
  • title: Vibrio lentus sp. nov., isolated from Mediterranean oysters.
  • authors: Macian MC, Ludwig W, Aznar R, Grimont PA, Schleifer KH, Garay E, Pujalte MJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/00207713-51-4-1449
  • year: 2001
  • mesh: Animals, Base Composition, Base Sequence, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/genetics, Mediterranean Sea, Molecular Sequence Data, Nucleic Acid Hybridization, Ostreidae/*microbiology, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, RNA, Ribosomal, 23S/genetics, Ribotyping, Species Specificity, Vibrio/*classification/*genetics/isolation & purification
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitle
5150Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 13757)https://www.dsmz.de/collection/catalogue/details/culture/DSM-13757
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
33651Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/4571
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)
68368Automatically annotated from API 20E
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
86282Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID49513.1StrainInfo: A central database for resolving microbial strain identifiers
120585Curators of the CIPCollection of Institut Pasteur (CIP 107166)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107166