Name: Vibrio natriegens 111
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 17265

Type strain:

Species: Vibrio natriegens

Strain Designation: 111

Culture col. no.: DSM 759, ATCC 14048, NCMB 857

Strain history: <- NCMB <- W.J. Payne (Pseudomonas natriegens).

NCBI tax ID(s): 1219067 (strain), 691 (species)

Other strains from Vibrio natriegens

V. natriegens CCUG 16372, ATCC 33788
V. natriegens CCUG 16373, ATCC 33897
V. natriegens CCUG 16374, ATCC 33898

Section

Vibrio natriegens 111 is a mesophilic bacterium that was isolated from salt marsh mud.

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 natriegens**
	Full Scientific Name (LPSN)	Vibrio natriegens (Payne et al. 1961) Baumann et al. 1981

	Synonym	"Pseudomonas* natriegens"*
	Synonym	Beneckea natriegens

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %99.988

[Ref.: #69480]	Motility	yes Confidence in %95.707

Information on culture and growth conditions Culture and growth conditions

[Ref.: #431]

Culture medium

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

[Ref.: #431]

Culture medium growth

[Ref.: #431]

Culture medium link

Medium recipe at MediaDive

[Ref.: #431]

Culture medium composition

expand / minimize

[Ref.: #431]

Culture medium

VIBRIO NATRIEGENS MEDIUM (DSMZ Medium 115)

[Ref.: #431]

Culture medium growth

[Ref.: #431]

Culture medium link

Medium recipe at MediaDive

[Ref.: #431]

Culture medium composition

expand / minimize

[Ref.: #37063]

Culture medium

Marine agar (MA)

[Ref.: #37063]

Culture medium growth

[Ref.: #37063]

Culture medium composition

expand / minimize

[Ref.: #431]

Culture medium

SEA WATER AGAR (DSMZ Medium 246)

[Ref.: #431]

Culture medium growth

[Ref.: #431]

Culture medium link

Medium recipe at MediaDive

[Ref.: #431]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #431]	growth	30 °C
[Ref.: #431]	growth	28 °C
[Ref.: #37063]	growth	25 °C

[Ref.: #431]	Temperature range	mesophilic
[Ref.: #37063]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.997

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68368]	amygdalin ChEBI	+	fermentation	* from API 20E
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE, API 20E
[Ref.: #68369]	D-glucose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	+	fermentation	* from API 20NE, API 20E
[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.: #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]	nitrate ChEBI	-	reduction	* from API 20E
[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]	dinitrogen ChEBI	* from API 20E
[Ref.: #68368]	hydrogen sulfide ChEBI	* from API 20E
[Ref.: #68369]	indole ChEBI	* from API 20NE, API 20E
[Ref.: #68368]	nitrite ChEBI	* from 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]	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.: #431]	15476	-	-	-	-	+	-	-	-	-	-	+	+	+	-	-	+	+	-	+	+	+	-	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.
[Ref.: #431]	15228	-	-	-	-	+	-	-	-	-	-	+	+	+	-	-	+	+	-	+	+	+	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.
[Ref.: #431]	15076	-	-	-	-	+	-	-	-	-	-	+	+	+	-	-	+	+	-	+	+	+	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.
[Ref.: #431]	13973	-	-	-	-	-	-	-	-	-	-	+/-	+	+	-	-	+	+	-	+	+	+	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.: #431]	20822	+	-	+	-	-	+	+	-	+	+	-	+	+	+	+	+	-	+	+	+	+

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

[Ref.: #431]	Sample type/isolated from	salt marsh mud
[Ref.: #431]	Geographic location (country and/or sea, region)	Georgia, Sapelo island
[Ref.: #431]	Country	USA
[Ref.: #431]	Country ISO 3 Code	USA
[Ref.: #431]	Continent	North America
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Salt marsh
#Environmental	#Terrestrial	#Mud (Sludge)
#Condition	#Saline	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence X74714 (>99% sequence identity) for Vibrio from Microbeatlas

Aquatic Samples	3075
Soil Samples	169
Animal Samples	1856
Plant Samples	64
Total Samples	5164

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

[Ref.: #431]

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 natriegens gene for 16S rRNA, partial sequence, strain: NBRC 15636	AB680922	1478	ENA	1219067 tax ID	*
[Ref.: #20218]	Vibrio natriegens 16S ribosomal RNA gene, partial sequence	DQ068938	1470	ENA	1219067 tax ID	*
[Ref.: #20218]	Vibrio natriegens 16S ribosomal RNA gene, partial sequence	HM771343	1471	ENA	1219067 tax ID	*
[Ref.: #20218]	V.natrigens 16S ribosomal RNA	X56581	1483	ENA	1219067 tax ID	*
[Ref.: #20218]	V.natriegens (ATCC 14048T) gene for 16S ribosomal RNA	X74714	1466	ENA	1219067 tax ID	*
[Ref.: #20218]	Vibrio natriegens 16S rRNA	D11211	214	ENA	691 tax ID	*
[Ref.: #20218]	Vibrio natriegens 16S rRNA	D11260	214	ENA	691 tax ID	*
[Ref.: #20218]	Vibrio natriegens 16S rRNA	D11309	192	ENA	691 tax ID	*

Genome sequence information:

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

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Vibrio natriegens ATCC 14048	2811995319	complete	JGI IMG/M	1219067 tax ID	*
[Ref.: #66792]	Vibrio natriegens NBRC 15636 = ATCC 14048 = DSM 759 ATCC 14048	GCA_001680025	complete	GenBank	1219067 tax ID	*
[Ref.: #66792]	Vibrio natriegens NBRC 15636 = ATCC 14048 = DSM 759 NBRC 15636	GCA_001591085	contig	GenBank	1219067 tax ID	*
[Ref.: #66792]	Vibrio natriegens NBRC 15636 = ATCC 14048 = DSM 759 ATCC 14048	GCA_000417905	contig	GenBank	1219067 tax ID	*
[Ref.: #66792]	Vibrio natriegens NBRC 15636 = ATCC 14048 = DSM 759 DSM 759	GCA_000438785	scaffold	GenBank	1219067 tax ID	*
[Ref.: #66792]	Vibrio natriegens NBRC 15636 = ATCC 14048 = DSM 759	1219067.6	wgs	PATRIC	1219067 tax ID	*

[Ref.: #431]

GC-content

46.4 mol%

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Vibrio natriegens NBRC 15636 = ATCC 14048 = DSM 759 ATCC 14048 NCBI: GCA_001456255.1
[Ref.: #69480]	gram-positive	no	99.988	yes
[Ref.: #69480]	anaerobic	no	98.223	no
[Ref.: #69480]	spore-forming	no	99.997	no
[Ref.: #69480]	thermophile	no	99.489	yes
[Ref.: #69480]	motile	yes	95.707	yes

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Vibrio natriegens NBRC 15636 = ATCC 14048 = DSM 759 ATCC 14048 NCBI: GCA_001456255.1
[Ref.: #69481]	spore-forming	no	100	no

Availability in culture collections External links

[Ref.: #431]

Culture collection no.

DSM 759, ATCC 14048, NCMB 857

Literature:

Topic	Title	Authors	Journal	DOI	Year
Pathogenicity	Environmental Impact of Tributyltin-Resistant Marine Bacteria in the Indigenous Microbial Population of Tributyltin-Polluted Surface Sediments.	Mimura H, Yagi M, Yoshida K	Biocontrol Sci	10.4265/bio.22.89	2017	*
Genetics	Draft Genome Sequence of the Fast-Growing Marine Bacterium Vibrio natriegens Strain ATCC 14048.	Wang Z, Lin B, Hervey WJ 4th, Vora GJ	Genome Announc	10.1128/genomeA.00589-13	2013	*
	Generation of a Prophage-Free Variant of the Fast-Growing Bacterium Vibrio natriegens.	Pfeifer E, Michniewski S, Gatgens C, Munch E, Muller F, Polen T, Millard A, Blombach B, Frunzke J	Appl Environ Microbiol	10.1128/AEM.00853-19	2019	*

References

#431	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 759

#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 )

#37063 ; 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) .

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

* These data were automatically processed and therefore are not curated

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Vibrio natriegens NBRC 15636 = ATCC 14048 = DSM 759 ATCC 14048

Vibrio natriegens NBRC 15636 = ATCC 14048 = DSM 759 ATCC 14048

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