Strain identifier

BacDive ID: 132167

Type strain: Yes

Species: Vibrio cortegadensis

Strain Designation: C 16.17

Strain history: CIP <- 2014, CECT <- 2006, JL Romalde, Santiago de Compostela Univ., Santiago de Compostela, Spain: strain C 16.17

NCBI tax ID(s): 1328770 (species)

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General

@ref: 23956

BacDive-ID: 132167

DSM-Number: 102805

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

description: Vibrio cortegadensis C 16.17 is a mesophilic, Gram-negative, motile bacterium that was isolated from healthy Manila clam .

NCBI tax id

  • NCBI tax id: 1328770
  • Matching level: species

strain history

@refhistory
23956<- CECT <- A. Lasa, Centro de Investigaciones Biológicas, Universidad de Santiago de Compostela, Spain <- R. Beaz
118758CIP <- 2014, CECT <- 2006, JL Romalde, Santiago de Compostela Univ., Santiago de Compostela, Spain: strain C 16.17

doi: 10.13145/bacdive132167.20230509.8.1

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 cortegadensis
  • full scientific name: Vibrio cortegadensis Lasa et al. 2014

@ref: 23956

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Vibrionales, not validated

family: Vibrionaceae

genus: Vibrio

species: Vibrio cortegadensis

full scientific name: Vibrio cortegadensis Lasa et al. 2014

strain designation: C 16.17

type strain: yes

Morphology

cell morphology

  • @ref: 118758
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
41595Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
23956HALF STRENGTH BACTO MARINE BROTH (DSMZ Medium 514a)yesName: HALF STRENGTH BACTO MARINE BROTH (DSMZ Medium 514a) Composition: Agar 15.0 g/l NaCl 9.725 g/l MgCl2 2.95 g/l Bacto peptone 2.5 g/l Na2SO4 1.62 g/l CaCl2 0.9 g/l Yeast extract 0.5 g/l KCl 0.275 g/l NaHCO3 0.08 g/l Fe(III) citrate 0.05 g/l KBr 0.04 g/l SrCl2 0.017 g/l H3BO3 0.011 g/l Na2HPO4 0.004 g/l Na-silicate 0.002 g/l NaF 0.0012 g/l (NH4)NO3 0.0008 g/l Distilled waterhttps://mediadive.dsmz.de/medium/514a
118758CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13
118758CIP Medium 45yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=45

culture temp

@refgrowthtypetemperaturerange
23956positivegrowth25mesophilic
41595positivegrowth30mesophilic

Physiology and metabolism

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
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

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
6836835581indoleyes
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin-
6836835581indole+

enzymes

@refvalueactivityec
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

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
23956-+------+--+--------+

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentisolation date
23956healthy Manila clam ( Venerupis philippinarum)Venerupis philippinarumCortegada Island, Carril, GaliciaSpainESPEurope
118758Healthy culture Manila clam, Ruditapes PhilippinarumCarril (A Coruna), SpainSpainESPEurope2005-01-03

isolation source categories

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

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
239561Risk group (German classification)
1187582Risk group (French classification)

Sequence information

16S sequences

  • @ref: 23956
  • description: Vibrio cortegadensis partial 16S rRNA gene, strain CECT 7227
  • accession: HF955037
  • length: 1417
  • database: ena
  • NCBI tax ID: 1328770

Genome sequences

  • @ref: 66792
  • description: Vibrio cortegadensis CECT 7227
  • accession: GCA_024347395
  • assembly level: complete
  • database: ncbi
  • NCBI tax ID: 1328770

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedyes93.327no
gram-positiveno99.116no
anaerobicno95.857no
aerobicyes64.717no
halophileyes53.102no
spore-formingno94.437no
motileyes91.557no
glucose-fermentyes87.991yes
thermophileno98.712yes
glucose-utilyes87.943no

External links

@ref: 23956

culture collection no.: DSM 102805, CECT 7227, LMG 27474, CIP 110813, LMG 27475

straininfo link

  • @ref: 90522
  • straininfo: 376929

literature

  • topic: Phylogeny
  • Pubmed-ID: 24271473
  • title: Vibrio cortegadensis sp. nov., isolated from clams.
  • authors: Lasa A, Dieguez AL, Romalde JL
  • journal: Antonie Van Leeuwenhoek
  • DOI: 10.1007/s10482-013-0078-z
  • year: 2013
  • mesh: Animals, Bacterial Proteins/genetics, Bacterial Typing Techniques, Bivalvia/*microbiology, Cluster Analysis, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spain, Vibrio/chemistry/*classification/genetics/*isolation & purification
  • topic2: Genetics

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
23956Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-102805Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102805)
41595Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/30626
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
68368Automatically annotated from API 20E
90522Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID376929.1
118758Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110813Collection of Institut Pasteur (CIP 110813)