Name: Vibrio fluvialis VL 5125
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 17321

Type strain:

Species: Vibrio fluvialis

Strain Designation: VL 5125, 5125

Culture col. no.: DSM 19283, ATCC 33809, CCM 3689, CCTM La 3552, CCUG 13622, CDC 9555-78, IAM 14403, JCM 3752, LMG 7894, NCIMB 2249, NCTC 11327, WDCM 00137, JCM 1281, BCRC 12830, CAIM 593, CCUG 15268, CCUG 20252, CDC 9555-18, CECT 4217, CGMCC 1.1608, CIP 103355, KCTC 2473, NBRC 103150, NRIC 0818

Strain history: NCTC 11327 <-- J. V. Lee VL 5125 <-- I. Hug 30.

NCBI tax ID(s): 1219074 (strain), 676 (species)

Other strains from Vibrio fluvialis

Section

Vibrio fluvialis VL 5125 is a mesophilic bacterium that was isolated from human faeces, diarrhoea.

mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	07-12-2022 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	"Vibrionales"
	Family	*Vibrionaceae*
	Genus	*Vibrio*
	Species	**Vibrio fluvialis**
	Full Scientific Name (PNU)	Vibrio fluvialis Lee et al. 1981

Synonym

Allomonas enterica

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7995]

Culture medium

BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)

[Ref.: #7995]

Culture medium growth

[Ref.: #7995]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #7995]

Culture medium composition

expand / minimize

[Ref.: #7995]

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

[Ref.: #7995]

Culture medium growth

[Ref.: #7995]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #7995]

Culture medium

TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)

[Ref.: #7995]

Culture medium growth

[Ref.: #7995]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #41864]

Culture medium

Marine agar (MA)

[Ref.: #41864]

Culture medium growth

[Ref.: #41864]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #7995]	growth	30 °C
[Ref.: #41864]	growth	25 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #7995]	Temperature range	mesophilic
[Ref.: #41864]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	arginine ChEBI	+	hydrolysis	* from API 20NE, API 20E
[Ref.: #68368]	citrate ChEBI	-	assimilation	* from API 20E
[Ref.: #68369]	D-glucose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	+	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	+	assimilation	* from API 20NE
[Ref.: #68368]	D-mannitol ChEBI	+	fermentation	* from API 20E
[Ref.: #68369]	D-mannose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	esculin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gelatin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #68368]	gelatin ChEBI	-	hydrolysis	* from API 20E
[Ref.: #68369]	gluconate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	L-arabinose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68368]	L-arabinose ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	L-rhamnose ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	lysine ChEBI	-	degradation	* from API 20E
[Ref.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68368]	melibiose ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	myo-inositol ChEBI	-	fermentation	* from API 20E
[Ref.: #68369]	N-acetylglucosamine ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	nitrate ChEBI	+	reduction	* from API 20NE
[Ref.: #68368]	ornithine ChEBI	-	degradation	* from API 20E
[Ref.: #68368]	sorbitol ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	sucrose ChEBI	-	fermentation	* from API 20E
[Ref.: #68369]	tryptophan ChEBI	+	energy source	* from API 20NE, API 20E
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE, API 20E
	Only first 10 entries are displayed. Click here to see all.

	Metabolite
[Ref.: #68368]	acetoin ChEBI	* from API 20E
[Ref.: #68368]	hydrogen sulfide ChEBI	* from API 20E
[Ref.: #68369]	indole ChEBI	* from API 20NE, API 20E

	Physiological tests	Metabolite	Voges-Proskauer-test	Indole test
[Ref.: #68368]		acetoin ChEBI	-		* from API 20E
[Ref.: #68369]		indole ChEBI		+	* from API 20NE, API 20E

	Enzyme	Enzyme activity	EC number
[Ref.: #68369]	arginine dihydrolase	+	3.5.3.6	* from API 20NE, API 20E
[Ref.: #68368]	beta-galactosidase	+	3.2.1.23	* from API 20E
[Ref.: #68369]	beta-glucosidase	-	3.2.1.21	* from API 20NE
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE, API 20E
[Ref.: #68369]	gelatinase	+		* from API 20NE
[Ref.: #68368]	gelatinase	-		* from API 20E
[Ref.: #68368]	lysine decarboxylase	-	4.1.1.18	* from API 20E
[Ref.: #68368]	ornithine decarboxylase	-	4.1.1.17	* from API 20E
[Ref.: #68368]	tryptophan deaminase	-	4.1.99.1	* from API 20E
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE, API 20E

API® 20E:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	beta-GalactosidaseONPG	Arginine dihydrolaseADH (Arg)	Lysine decarboxylaseLDC (Lys)	Ornithine decarboxylaseODC	Citrate utilizationCIT	H2S productionH2S	Urease/urea hydrolysisURE	Tryptophan deaminaseTDA (Trp)	Indole productionIND	Acetoin production (Voges Proskauer test)VP	Gelatinase/gelatin hydrolysisGEL	Fermentation/oxidation of D-glucoseGLU	Fermentation/oxidation of D-mannitolMAN	Fermentation/oxidation of inositolINO	Fermentation/oxidation of sorbitolSor	Fermentation/oxidation of L-rhamnoseRHA	Fermentation/oxidation of sucroseSAC	Fermentation/oxidation of melibioseMEL	Fermentation/oxidation of amygdalinAMY	Fermentation/oxidation of L-arabinoseARA	Cytochrome oxidaseOX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	Oxidative catabolisation of D-glucoseOF-O	Fermentation of D-glucoseOF-F
[Ref.: #7995]	15593	+	+	-	-	-	-	-	-	+	-	-	+/-	+	-	-	-	-	-	+/-	-	+	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

API® 20NE:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #7995]	20890	+	+	+	+	-	-	+	+	+	+	+	+	+	+	+	+	-	+	+	-	+

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #7995]	Sample type/isolated from	human faeces, diarrhoea
[Ref.: #7995]	Geographic location (country and/or sea, region)	Dacca
[Ref.: #7995]	Country	Bangladesh
[Ref.: #7995]	Country ISO 3 Code	BGD
[Ref.: #7995]	Continent	Asia
[Ref.: #7995]	Geographic location	23.7104°/90.4074°

[Ref.: #67770]	Sample type/isolated from	Human feces
[Ref.: #67770]	Geographic location (country and/or sea, region)	Dacca
[Ref.: #67770]	Country	Bangladesh
[Ref.: #67770]	Country ISO 3 Code	BGD
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host	#Human	-
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence LC050178 (>99% sequence identity) for Vibrio from Microbeatlas

Aquatic Samples	1720
Soil Samples	168
Animal Samples	1806
Plant Samples	124
Total Samples	3818

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #7995]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #20218]	Vibrio fluvialis DNA, 16S-23S rRNA intergenic spacer and 23S rRNA, partial sequence, strain: IAM 14403	AB255719	256	ENA	676 tax ID	*
[Ref.: #20218]	Vibrio fluvialis strain ATCC 33809 16S-23S ribosomal RNA intergenic spacer, partial sequence; tRNA-Glu gene, complete sequence	AF413005	482	ENA	676 tax ID	*
[Ref.: #20218]	Vibrio fluvialis 16S-23S ribosomal RNA intergenic spacer, partial sequence; tRNA-Glu and tRNA-Val genes, complete sequence	AF413006	679	ENA	676 tax ID	*
[Ref.: #20218]	Vibrio fluvialis strain ATCC 33809 16S-23S ribosomal RNA intergenic spacer, partial sequence; tRNA-Glu, tRNA-Ala, and tRNA-Val genes, complete sequence	AF413007	710	ENA	676 tax ID	*
[Ref.: #20218]	Vibrio fluvialis strain ATCC 33809 16S-23S ribosomal RNA intergenic spacer, partial sequence; tRNA-Ile and tRNA-Ala genes, complete sequence	AF413008	557	ENA	676 tax ID	*
[Ref.: #20218]	Vibrio fluvialis strain ATCC 33809 16S ribosomal RNA gene, partial sequence	GU048832	460	ENA	676 tax ID	*
[Ref.: #20218]	Vibrio fluvialis strain NCTC 11327 clone XMYP7 16S ribosomal RNA gene, partial sequence	JX009143	1291	ENA	676 tax ID	*
[Ref.: #20218]	V.fluvialis (NCTC 11327 T) 16S rRNA gene	X76335	1537	ENA	676 tax ID	*
[Ref.: #7995]	V.fluvialis (ATCC 33809T) gene for 16S ribosomal RNA	X74703	1457	ENA	676 tax ID
[Ref.: #67770]	Vibrio fluvialis gene for 16S ribosomal RNA, partial cds, strain: JCM 1281	LC050178	1475	ENA	676 tax ID

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Vibrio fluvialis ATCC 33809	GCA_001558415	complete	GenBank	676 tax ID	*
[Ref.: #66792]	Vibrio fluvialis NBRC 103150	1219074.3	wgs	PATRIC	1219074 tax ID	*
[Ref.: #66792]	Vibrio fluvialis strain ATCC 33809	676.24	complete	PATRIC	676 tax ID	*
[Ref.: #66792]	Vibrio fluvialis strain NCTC 11327	676.29	wgs	PATRIC	676 tax ID	*
[Ref.: #66792]	Vibrio fluvialis strain NCTC11327	676.75	wgs	PATRIC	676 tax ID	*
[Ref.: #66792]	Vibrio fluvialis ATCC 33809	2718218390	complete	JGI IMG/M	676 tax ID	*

[Ref.: #67770]

GC-content

50 mol%

thermal denaturation, midpoint method (Tm)

Availability in culture collections External links

[Ref.: #7995]

Culture collection no.

DSM 19283, ATCC 33809, CCM 3689, CCTM La 3552, CCUG 13622, CDC 9555-78, IAM 14403, JCM 3752, LMG 7894, NCIMB 2249, NCTC 11327, WDCM 00137, JCM 1281, BCRC 12830, CAIM 593, CCUG 15268, CCUG 20252, CDC 9555-18, CECT 4217, CGMCC 1.1608, CIP 103355, KCTC 2473, NBRC 103150, NRIC 0818

[Ref.: #20218]

Associated Passport(s) in StrainInfo

857699, 22423, 221202, 221203, 22425, 147339, 221204, 156151, 22422, 206200, 22429, 841431, 866289

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Vibrio porteresiae sp. nov., a diazotrophic bacterium isolated from a mangrove-associated wild rice (Porteresia coarctata Tateoka).	Rameshkumar N, Fukui Y, Sawabe T, Nair S	Int J Syst Evol Microbiol	10.1099/ijs.0.65604-0	2008	*
Enzymology	High Hydrostatic Pressure Inducible Trimethylamine N-Oxide Reductase Improves the Pressure Tolerance of Piezosensitive Bacteria Vibrio fluvialis.	Yin QJ, Zhang WJ, Qi XQ, Zhang SD, Jiang T, Li XG, Chen Y, Santini CL, Zhou H, Chou IM, Wu LF	Front Microbiol	10.3389/fmicb.2017.02646	2018	*
Phylogeny	Vibrio sinensis sp. nov. and Vibrio viridaestus sp. nov., two marine bacteria isolated from the East China Sea.	Li Y, Liang J, Liu R, Xue CX, Zhou S, He X, Li B, Wang X, Zhang XH	Int J Syst Evol Microbiol	10.1099/ijsem.0.003842	2020	*
Phylogeny	Vibrio ostreae sp. nov., a novel gut bacterium isolated from a Yellow Sea oyster.	Muhammad N, Nguyen TTH, Lee YJ, Ko J, Avila F, Kim SG	Int J Syst Evol Microbiol	10.1099/ijsem.0.005586	2022	*

References

#7995

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19283

#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 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#41864 ; Curators of the CIP;

#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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#68368

Automatically annotated from API 20E .

#68369

Automatically annotated from API 20NE .

#69479

João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

* These data were automatically processed and therefore are not curated

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