Vibrio vulnificus CIP 103196 is a facultative anaerobe, Gram-negative, motile bacterium of the family Vibrionaceae.
Gram-negative motile rod-shaped facultative anaerobe genome sequence 16S sequence Bacteria| @ref 20215 |
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| Domain Bacteria |
| Phylum Pseudomonadota |
| Class Gammaproteobacteria |
| Order "Vibrionales" |
| Family Vibrionaceae |
| Genus Vibrio |
| Species Vibrio vulnificus |
| Full scientific name Vibrio vulnificus (Reichelt et al. 1979) Farmer 1980 |
| Synonyms (1) |
| @ref | Name | Growth | Composition | Medium link | |
|---|---|---|---|---|---|
| 35507 | MEDIUM 72- for trypto casein soja agar | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |||
| 35507 | CIP Medium 72 | Medium recipe at CIP |
| @ref | Spore formation | Confidence | |
|---|---|---|---|
| 125439 | 99.2 |
| @ref | Chebi-ID | Metabolite | Utilization activity | Kind of utilization tested | |
|---|---|---|---|---|---|
| 68371 | 18305 ChEBI | arbutin | + | builds acid from | from API 50CH acid |
| 68371 | 17057 ChEBI | cellobiose | + | builds acid from | from API 50CH acid |
| 35507 | 16947 ChEBI | citrate | - | carbon source | |
| 68371 | 17108 ChEBI | D-arabinose | - | builds acid from | from API 50CH acid |
| 68371 | 18333 ChEBI | D-arabitol | - | builds acid from | from API 50CH acid |
| 68371 | 15824 ChEBI | D-fructose | + | builds acid from | from API 50CH acid |
| 68371 | 28847 ChEBI | D-fucose | - | builds acid from | from API 50CH acid |
| 68371 | 12936 ChEBI | D-galactose | + | builds acid from | from API 50CH acid |
| 68371 | 17634 ChEBI | D-glucose | + | builds acid from | from API 50CH acid |
| 68371 | 62318 ChEBI | D-lyxose | - | builds acid from | from API 50CH acid |
| 68371 | 16899 ChEBI | D-mannitol | - | builds acid from | from API 50CH acid |
| 68371 | 16024 ChEBI | D-mannose | + | builds acid from | from API 50CH acid |
| 68371 | 16988 ChEBI | D-ribose | + | builds acid from | from API 50CH acid |
| 68371 | 17924 ChEBI | D-sorbitol | - | builds acid from | from API 50CH acid |
| 68371 | 16443 ChEBI | D-tagatose | - | builds acid from | from API 50CH acid |
| 68371 | 65327 ChEBI | D-xylose | - | builds acid from | from API 50CH acid |
| 68371 | 17113 ChEBI | erythritol | - | builds acid from | from API 50CH acid |
| 35507 | 4853 ChEBI | esculin | + | hydrolysis | |
| 68371 | 4853 ChEBI | esculin | + | builds acid from | from API 50CH acid |
| 68371 | 16813 ChEBI | galactitol | - | builds acid from | from API 50CH acid |
| 68371 | 28066 ChEBI | gentiobiose | + | builds acid from | from API 50CH acid |
| 68371 | 24265 ChEBI | gluconate | + | builds acid from | from API 50CH acid |
| 35507 | 17234 ChEBI | glucose | + | fermentation | |
| 35507 | 17234 ChEBI | glucose | + | degradation | |
| 68371 | 17754 ChEBI | glycerol | + | builds acid from | from API 50CH acid |
| 68371 | 28087 ChEBI | glycogen | + | builds acid from | from API 50CH acid |
| 68371 | 15443 ChEBI | inulin | - | builds acid from | from API 50CH acid |
| 68371 | 30849 ChEBI | L-arabinose | - | builds acid from | from API 50CH acid |
| 68371 | 18403 ChEBI | L-arabitol | - | builds acid from | from API 50CH acid |
| 68371 | 18287 ChEBI | L-fucose | - | builds acid from | from API 50CH acid |
| 68371 | 62345 ChEBI | L-rhamnose | - | builds acid from | from API 50CH acid |
| 68371 | 17266 ChEBI | L-sorbose | - | builds acid from | from API 50CH acid |
| 68371 | 65328 ChEBI | L-xylose | - | builds acid from | from API 50CH acid |
| 35507 | 17716 ChEBI | lactose | - | fermentation | |
| 68371 | 17716 ChEBI | lactose | - | builds acid from | from API 50CH acid |
| 68371 | 17306 ChEBI | maltose | + | builds acid from | from API 50CH acid |
| 68371 | 6731 ChEBI | melezitose | - | builds acid from | from API 50CH acid |
| 68371 | 28053 ChEBI | melibiose | - | builds acid from | from API 50CH acid |
| 68371 | 320061 ChEBI | methyl alpha-D-glucopyranoside | - | builds acid from | from API 50CH acid |
| 68371 | 43943 ChEBI | methyl alpha-D-mannoside | - | builds acid from | from API 50CH acid |
| 68371 | 74863 ChEBI | methyl beta-D-xylopyranoside | - | builds acid from | from API 50CH acid |
| 68371 | 17268 ChEBI | myo-inositol | - | builds acid from | from API 50CH acid |
| 68371 | 59640 ChEBI | N-acetylglucosamine | + | builds acid from | from API 50CH acid |
| 35507 | 17632 ChEBI | nitrate | + | reduction | |
| 35507 | 17632 ChEBI | nitrate | + | respiration | |
| 35507 | 16301 ChEBI | nitrite | - | reduction | |
| 68371 | Potassium 2-ketogluconate | - | builds acid from | from API 50CH acid | |
| 68371 | Potassium 5-ketogluconate | - | builds acid from | from API 50CH acid | |
| 68371 | 16634 ChEBI | raffinose | - | builds acid from | from API 50CH acid |
| 68371 | 15963 ChEBI | ribitol | - | builds acid from | from API 50CH acid |
| 68371 | 17814 ChEBI | salicin | + | builds acid from | from API 50CH acid |
| 35507 | 132112 ChEBI | sodium thiosulfate | - | builds gas from | |
| 68371 | 28017 ChEBI | starch | + | builds acid from | from API 50CH acid |
| 68371 | 17992 ChEBI | sucrose | - | builds acid from | from API 50CH acid |
| 68371 | 27082 ChEBI | trehalose | + | builds acid from | from API 50CH acid |
| 68371 | 32528 ChEBI | turanose | - | builds acid from | from API 50CH acid |
| 68371 | 17151 ChEBI | xylitol | - | builds acid from | from API 50CH acid |
| @ref | Metabolite | Is sensitive | Is resistant | |
|---|---|---|---|---|
| 35507 | 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate) |
| @ref | Value | Activity | Ec | |
|---|---|---|---|---|
| 68382 | acid phosphatase | + | 3.1.3.2 | from API zym |
| 35507 | alcohol dehydrogenase | - | 1.1.1.1 | |
| 68382 | alkaline phosphatase | + | 3.1.3.1 | from API zym |
| 68382 | alpha-chymotrypsin | - | 3.4.21.1 | from API zym |
| 68382 | alpha-fucosidase | - | 3.2.1.51 | from API zym |
| 68382 | alpha-galactosidase | - | 3.2.1.22 | from API zym |
| 68382 | alpha-glucosidase | - | 3.2.1.20 | from API zym |
| 68382 | alpha-mannosidase | - | 3.2.1.24 | from API zym |
| 35507 | amylase | + | ||
| 35507 | beta-galactosidase | - | 3.2.1.23 | |
| 68382 | beta-galactosidase | - | 3.2.1.23 | from API zym |
| 68382 | beta-glucosidase | - | 3.2.1.21 | from API zym |
| 68382 | beta-glucuronidase | - | 3.2.1.31 | from API zym |
| 35507 | caseinase | + | 3.4.21.50 | |
| 35507 | catalase | + | 1.11.1.6 | |
| 68382 | cystine arylamidase | - | 3.4.11.3 | from API zym |
| 35507 | DNase | + | ||
| 68382 | esterase (C 4) | + | from API zym | |
| 68382 | esterase lipase (C 8) | + | from API zym | |
| 35507 | gamma-glutamyltransferase | - | 2.3.2.2 | |
| 35507 | gelatinase | + | ||
| 35507 | lecithinase | + | ||
| 68382 | leucine arylamidase | + | 3.4.11.1 | from API zym |
| 35507 | lipase | + | ||
| 68382 | lipase (C 14) | + | from API zym | |
| 35507 | lysine decarboxylase | + | 4.1.1.18 | |
| 68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 | from API zym |
| 68382 | naphthol-AS-BI-phosphohydrolase | + | from API zym | |
| 35507 | ornithine decarboxylase | - | 4.1.1.17 | |
| 35507 | oxidase | + | ||
| 35507 | phenylalanine ammonia-lyase | + | 4.3.1.24 | |
| 35507 | protease | + | ||
| 68382 | trypsin | - | 3.4.21.4 | from API zym |
| 35507 | tryptophan deaminase | - | ||
| 35507 | tween esterase | + | ||
| 35507 | urease | - | 3.5.1.5 | |
| 68382 | valine arylamidase | + | from API zym |
| @ref | ControlQ | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 35507 | not determinedn.d. | + | - | - | - | + | - | - | - | - | + | + | + | + | - | - | - | - | - | - | - | - | + | +/- | + | + | + | + | + | - | - | - | + | - | - | - | + | + | - | + | - | - | - | - | - | - | - | + | - | - |
| @ref | Biosafety level | Biosafety level comment | |
|---|---|---|---|
| 35507 | 2 | Risk group (French classification) |
| @ref | Description | Assembly level | INSDC accession | BV-BRC accession | IMG accession | NCBI tax ID | Score | |
|---|---|---|---|---|---|---|---|---|
| 66792 | ASM76489v1 assembly for Vibrio vulnificus ATCC 33147 | contig | 672 | 21.91 |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125439 | spore_formation | BacteriaNetⓘ | no | 99.20 | no |
| 125439 | motility | BacteriaNetⓘ | yes | 82.60 | no |
| 125439 | gram_stain | BacteriaNetⓘ | negative | 98.60 | no |
| 125439 | oxygen_tolerance | BacteriaNetⓘ | obligate aerobe | 96.70 | no |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positiveⓘ | no | 100.00 | no |
| 125438 | anaerobic | anaerobicⓘ | no | 96.01 | yes |
| 125438 | spore-forming | spore-formingⓘ | no | 86.77 | no |
| 125438 | aerobic | aerobicⓘ | no | 71.44 | yes |
| 125438 | thermophilic | thermophileⓘ | no | 99.50 | no |
| 125438 | flagellated | motile2+ⓘ | yes | 89.69 | no |
| Topic | Title | Authors | Journal | DOI | Year | |
|---|---|---|---|---|---|---|
| The first evidence of blaCTX-M-55, QnrVC5, and novel insight into the genome of MDR Vibrio vulnificus isolated from Asian sea bass (Lates calcarifer) identified by resistome analysis | Raharjo HM, Budiyansah H, Mursalim MF, Chokmangmeepisarn P, Sakulworakan R, Debnath PP, Sivaramasamy E, Intan ST, Chuanchuen R, Dong HT, Mabrok M, Rodkhum C. | Aquaculture | 10.1016/j.aquaculture.2023.739500 | 2024 | ||
| Modeling pH and Temperature Effects as Climatic Hazards in Vibrio Vulnificus and Vibrio Parahaemolyticus Planktonic Growth and Biofilm Formation. | Velez KEC, Leighton RE, Decho AW, Pinckney JL, Norman RS. | Geohealth | 10.1029/2022gh000769 | 2023 | ||
| Development of Multienzyme Isothermal Rapid Amplification (MIRA) Combined with Lateral-Flow Dipstick (LFD) Assay to Detect Species-Specific tlh and Pathogenic trh and tdh Genes of Vibrio parahaemolyticus. | Park SB, Zhang Y. | Pathogens | 10.3390/pathogens13010057 | 2024 | ||
| Draft Genome Sequence of Fish Pathogenic Vibrio vulnificus Biotype 2. | Koton Y, Eghbaria S, Gordon M, Chalifa-Caspi V, Bisharat N. | Genome Announc | 10.1128/genomea.01224-14 | 2014 | ||
| Genetics | Comparative genomic analysis of clinical and environmental Vibrio vulnificus isolates revealed biotype 3 evolutionary relationships. | Koton Y, Gordon M, Chalifa-Caspi V, Bisharat N. | Front Microbiol | 10.3389/fmicb.2014.00803 | 2014 | |
| Phylogeny | Multiplex PCR for detection of the Vibrio genus and five pathogenic Vibrio species with primer sets designed using comparative genomics. | Kim HJ, Ryu JO, Lee SY, Kim ES, Kim HY. | BMC Microbiol | 10.1186/s12866-015-0577-3 | 2015 | |
| Phylogeny | Identification of DNA sequences specific for Vibrio vulnificus biotype 2 strains by suppression subtractive hybridization. | Lee CT, Amaro C, Sanjuan E, Hor LI. | Appl Environ Microbiol | 10.1128/aem.71.9.5593-5597.2005 | 2005 | |
| A common virulence plasmid in biotype 2 Vibrio vulnificus and its dissemination aided by a conjugal plasmid. | Lee CT, Amaro C, Wu KM, Valiente E, Chang YF, Tsai SF, Chang CH, Hor LI. | J Bacteriol | 10.1128/jb.01484-07 | 2008 | ||
| Immunogenicity of Vibrio vulnificus capsular polysaccharides and polysaccharide-protein conjugates. | Simonson JG, Siebeling RJ. | Infect Immun | 10.1128/iai.61.5.2053-2058.1993 | 1993 | ||
| Enzymology | Rapid detection and identification of Vibrio anguillarum by using a specific oligonucleotide probe complementary to 16S rRNA. | Martinez-Picado J, Blanch AR, Jofre J. | Appl Environ Microbiol | 10.1128/aem.60.2.732-737.1994 | 1994 | |
| Enzymology | Demonstration of a common antigen in sonicated cells for identification of Vibrio vulnificus serotypes. | Nishibuchi M, Seidler RJ. | J Clin Microbiol | 10.1128/jcm.21.1.97-101.1985 | 1985 | |
| Vibrio vulnificus biogroup 2: new biogroup pathogenic for eels. | Tison DL, Nishibuchi M, Greenwood JD, Seidler RJ. | Appl Environ Microbiol | 10.1128/aem.44.3.640-646.1982 | 1982 | ||
| Enzymology | Sequence of a cloned pR72H fragment and its use for detection of Vibrio parahaemolyticus in shellfish with the PCR. | Lee CY, Pan SF, Chen CH. | Appl Environ Microbiol | 10.1128/aem.61.4.1311-1317.1995 | 1995 | |
| Phenotype | Genomic and metabolic profiling of nonulosonic acids in Vibrionaceae reveal biochemical phenotypes of allelic divergence in Vibrio vulnificus. | Lewis AL, Lubin JB, Argade S, Naidu N, Choudhury B, Boyd EF. | Appl Environ Microbiol | 10.1128/aem.00712-11 | 2011 | |
| Enzymology | Simultaneous detection of marine fish pathogens by using multiplex PCR and a DNA microarray. | Gonzalez SF, Krug MJ, Nielsen ME, Santos Y, Call DR. | J Clin Microbiol | 10.1128/jcm.42.4.1414-1419.2004 | 2004 | |
| Vibrio vulnificus biotype 2, pathogenic for eels, is also an opportunistic pathogen for humans. | Amaro C, Biosca EG. | Appl Environ Microbiol | 10.1128/aem.62.4.1454-1457.1996 | 1996 | ||
| Phylogeny | Population genetics of Vibrio vulnificus: identification of two divisions and a distinct eel-pathogenic clone. | Gutacker M, Conza N, Benagli C, Pedroli A, Bernasconi MV, Permin L, Aznar R, Piffaretti JC. | Appl Environ Microbiol | 10.1128/aem.69.6.3203-3212.2003 | 2003 | |
| Nested PCR method for rapid and sensitive detection of Vibrio vulnificus in fish, sediments, and water. | Arias CR, Garay E, Aznar R. | Appl Environ Microbiol | 10.1128/aem.61.9.3476-3478.1995 | 1995 | ||
| Phylogeny | Phenotypic and genotypic characterization of Vibrio vulnificus: proposal for the substitution of the subspecific taxon biotype for serovar. | Biosca EG, Amaro C, Larsen JL, Pedersen K. | Appl Environ Microbiol | 10.1128/aem.63.4.1460-1466.1997 | 1997 | |
| Phenotypic characterization of Vibrio vulnificus biotype 2, a lipopolysaccharide-based homogeneous O serogroup within Vibrio vulnificus. | Biosca EG, Oliver JD, Amaro C. | Appl Environ Microbiol | 10.1128/aem.62.3.918-927.1996 | 1996 | ||
| Phylogeny | Genetic relatedness among environmental, clinical, and diseased-eel Vibrio vulnificus isolates from different geographic regions by ribotyping and randomly amplified polymorphic DNA PCR. | Arias CR, Pujalte MJ, Garay E, Aznar R. | Appl Environ Microbiol | 10.1128/aem.64.9.3403-3410.1998 | 1998 | |
| Emergence of a virulent clade of Vibrio vulnificus and correlation with the presence of a 33-kilobase genomic island. | Cohen AL, Oliver JD, DePaola A, Feil EJ, Boyd EF. | Appl Environ Microbiol | 10.1128/aem.00635-07 | 2007 | ||
| Enzymology | Toxic and enzymatic activities of Vibrio vulnificus biotype 2 with respect to host specificity. | Biosca EG, Amaro C. | Appl Environ Microbiol | 10.1128/aem.62.7.2331-2337.1996 | 1996 | |
| Intraspecific Differentiation of Vibrio vulnificus Biotypes by Amplified Fragment Length Polymorphism and Ribotyping. | Arias CR, Verdonck L, Swings J, Garay E, Aznar R. | Appl Environ Microbiol | 10.1128/aem.63.7.2600-2606.1997 | 1997 | ||
| An enzyme-linked immunosorbent assay for detection of Vibrio vulnificus biotype 2: development and field studies. | Biosca EG, Marco-Noales E, Amaro C, Alcaide E. | Appl Environ Microbiol | 10.1128/aem.63.2.537-542.1997 | 1997 | ||
| Cultivation | Comparison of the effects of environmental parameters on growth rates of Vibrio vulnificus biotypes I, II, and III by culture and quantitative PCR analysis. | Chase E, Harwood VJ | Appl Environ Microbiol | 10.1128/AEM.00135-11 | 2011 | |
| Pathogenicity | Vibrionaceae as a possible source of Qnr-like quinolone resistance determinants. | Poirel L, Liard A, Rodriguez-Martinez JM, Nordmann P | J Antimicrob Chemother | 10.1093/jac/dki371 | 2005 |
| #20215 | Parte, 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 DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 ) |
| #35507 | Collection of Institut Pasteur ; Curators of the CIP; CIP 103196 |
| #66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) . |
| #68371 | Automatically annotated from API 50CH acid . |
| #68382 | Automatically annotated from API zym . |
| #124043 | Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy . |
| #125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 ) |
| #125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 . |
| #126262 | A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 ) |
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