Strain identifier

BacDive ID: 135777

Type strain: No

Species: Vibrio cholerae

Strain history: CIP <- 1969, M. Véron, Necker Hosp. Paris, France <- NCIB <- 1958, R. Spencer, Photobacterium albensis <- A.J. Kluyver <- N. van der Walle <- C. Sonnenschein: strain Leuchtvibrio

NCBI tax ID(s): 1408477 (strain), 666 (species)

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General

@ref: 35021

BacDive-ID: 135777

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, motile

description: Vibrio cholerae CIP 69.41 is an aerobe, mesophilic, motile bacterium of the family Vibrionaceae.

NCBI tax id

NCBI tax idMatching level
1408477strain
666species

strain history

  • @ref: 35021
  • history: CIP <- 1969, M. Véron, Necker Hosp. Paris, France <- NCIB <- 1958, R. Spencer, Photobacterium albensis <- A.J. Kluyver <- N. van der Walle <- C. Sonnenschein: strain Leuchtvibrio

doi: 10.13145/bacdive135777.20250331.9.3

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 cholerae
  • full scientific name: Vibrio cholerae Pacini 1854 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Vibrio albensis

@ref: 35021

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Vibrionales

family: Vibrionaceae

genus: Vibrio

species: Vibrio cholerae

type strain: no

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
125438yes90.563
12543899.917negative
12543999.8negative
35021yesnegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
35021MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
35021CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
35021CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperature
35021positivegrowth30
58282positivegrowth30
35021positivegrowth15-37
35021nogrowth5
35021nogrowth41

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
58282aerobe
35021facultative anaerobe
125439obligate aerobe95.9

spore formation

  • @ref: 125439
  • spore formation: no
  • confidence: 99.6

halophily

@refsaltgrowthtested relationconcentration
35021NaClpositivegrowth2-6 %
35021NaClnogrowth0 %
35021NaClnogrowth8 %
35021NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3502116947citrate-carbon source
350214853esculin-hydrolysis
3502117234glucose+fermentation
3502117716lactose-fermentation
3502117632nitrate+reduction
3502116301nitrite-reduction
35021132112sodium thiosulfate-builds gas from
3502117234glucose+degradation
3502117632nitrate+respiration
68371Potassium 5-ketogluconate+builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837117634D-glucose+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
6837117992sucrose+builds acid from
6837128053melibiose-builds acid from
6837117716lactose-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
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-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
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

antibiotic resistance

  • @ref: 35021
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

  • @ref: 35021
  • Chebi-ID: 35581
  • metabolite: indole
  • production: yes

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
3502115688acetoin+
3502117234glucose-

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
35021oxidase+
35021beta-galactosidase+3.2.1.23
35021alcohol dehydrogenase-1.1.1.1
35021gelatinase+
35021amylase+
35021DNase+
35021caseinase+3.4.21.50
35021catalase+1.11.1.6
35021tween esterase-
35021gamma-glutamyltransferase+2.3.2.2
35021lecithinase+
35021lipase+
35021lysine decarboxylase+4.1.1.18
35021ornithine decarboxylase+4.1.1.17
35021phenylalanine ammonia-lyase-4.3.1.24
35021protease+
35021tryptophan deaminase-
35021urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
35021-+++-+----++-----+--

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
35021+/----+----+/-++/------+/----+-----+/---++/---------------+-+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
35021++-+---+---------+-+-----------+-+---------------+---+-----++--------------+--+++--------++-+-----+

Isolation, sampling and environmental information

isolation

@refgeographic locationcountryorigin.countrycontinentsample type
35021Elbe riverGermanyDEUEurope
58282Elbe riverGermanyDEUEuropeFish
35021Elbe riverGermanyDEUEuropeAnimal, Fish

isolation source categories

  • Cat1: #Host
  • Cat2: #Fishes

Safety information

risk assessment

  • @ref: 35021
  • biosafety level: 2
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
124043Vibrio cholerae RC42 16S-23S ribosomal RNA intergenic spacer region type 2AF114731510nuccore666
124043Vibrio cholerae RC42 16S-23S ribosomal RNA intergenic spacer region type 3AF114732431nuccore666
124043Vibrio cholerae strain ATCC 14547 16S ribosomal RNA gene, partial sequence.EU1304741465nuccore666

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Vibrio cholerae ATCC 14547GCA_000518145scaffoldncbi1408477
66792Vibrio albensis ATCC 145471408477.3wgspatric1408477
66792Vibrio albensis strain ATCC 14547140100.3wgspatric666
66792Vibrio albensis ATCC 145472545555863draftimg1408477
66792Vibrio albensis ATCC 145472690315698draftimg1408477

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno99.917no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no94.613yes
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no58.877no
125438spore-formingspore-formingAbility to form endo- or exosporesno89.782no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno98.5yes
125438motile2+flagellatedAbility to perform flagellated movementyes90.563no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno99.6
125439BacteriaNetmotilityAbility to perform movementyes86.1
125439BacteriaNetgram_stainReaction to gram-stainingnegative99.8
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe95.9

External links

@ref: 35021

culture collection no.: CIP 69.41, ATCC 14547, NCIMB 41, CCUG 48664, LMG 4406, KCTC 12321

straininfo link

  • @ref: 93066
  • straininfo: 13863

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Pathogenicity10347079Response of pathogenic Vibrio species to high hydrostatic pressure.Berlin DL, Herson DS, Hicks DT, Hoover DGAppl Environ Microbiol10.1128/AEM.65.6.2776-2780.19991999Colony Count, Microbial, Disinfection/methods, Humans, *Hydrostatic Pressure, Vibrio/growth & development/isolation & purification/*physiology, Vibrio Infections/microbiologyEnzymology
Genetics16567412Freshwater bioluminescence in Vibrio albensis (Vibrio cholerae biovar albensis) NCIMB 41 is caused by a two-nucleotide deletion in luxO.Kasai SJ Biochem10.1093/jb/mvj0482006Amino Acid Sequence, Bacterial Proteins/*genetics/physiology, Base Sequence, Fresh Water/*microbiology, Luminescent Proteins/*genetics/physiology, Molecular Sequence Data, Repressor Proteins/*genetics/physiology, Sequence Deletion, Transcription Factors/*genetics/physiology, Vibrio cholerae/*genetics/physiology
Enzymology17169972Lateral transfer of the lux gene cluster.Kasai S, Okada K, Hoshino A, Iida T, Honda TJ Biochem10.1093/jb/mvm0232006Bacterial Proteins/*genetics, Blotting, Southern, Chromosome Mapping, Electrophoresis, Gel, Pulsed-Field, Gammaproteobacteria/*genetics, *Gene Transfer, Horizontal, Genes, Bacterial, Luminescence, Molecular Sequence Data, Multigene Family, *Operon, Oxidoreductases/*genetics, Photobacterium/genetics, Sequence Analysis, DNA, Shewanella/genetics, Vibrio/geneticsGenetics

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
35021Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2069.41Collection of Institut Pasteur (CIP 69.41)
58282Curators of the CCUGhttps://www.ccug.se/strain?id=48664Culture Collection University of Gothenburg (CCUG) (CCUG 48664)
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
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
93066Reimer, 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-ID13863.1
124043Isabel Schober, Julia KoblitzData extracted from sequence databases, automatically matched based on designation and taxonomy
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg OvermannPredicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets10.1101/2024.08.12.607695
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardydeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1https://github.com/GenomeNet/deepG