Name: Vibrio mexicanus CulC12 3(4)
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 131484

Type strain:

Species: Vibrio mexicanus

Strain Designation: CulC12 3(4)

Culture col. no.: DSM 100338, CAIM 1540, CECT 8828

Strain history: <- B. Gomez-Gil, CAIM; CAIM 1540 <- H. Cabanillas-Beltrán

NCBI tax ID(s): 1004326 (species)

SI-ID 402763

DSM 100338

Special Collections

DSMZ

Section

Vibrio mexicanus CulC12 3 is a Gram-negative bacterium that was isolated from cultured oyster .

Gram-negative
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	"Vibrionales"
	Family	*Vibrionaceae*
	Genus	*Vibrio*
	Species	**Vibrio mexicanus**
	Full Scientific Name (LPSN)	Vibrio mexicanus González-Castillo et al. 2015

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %100

[Ref.: #69480]	Motility	yes Confidence in %90.175

Information on culture and growth conditions Culture and growth conditions

[Ref.: #22711]

Culture medium

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

[Ref.: #22711]

Culture medium growth

[Ref.: #22711]

Culture medium link

Medium recipe at MediaDive

[Ref.: #22711]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #22711]			growth	28 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69481]

Ability of spore formation

no Confidence in %100

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	+	fermentation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	+	assimilation	* from API 20NE
[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.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	N-acetylglucosamine ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	nitrate ChEBI	+	reduction	* from API 20NE
[Ref.: #68369]	tryptophan ChEBI	+	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68369]		indole ChEBI	yes	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	+	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68369]	beta-glucosidase	+	3.2.1.21	* from API 20NE
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE

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.: #22711]	25025	+	+	+	-	-	+	-	+	-	+	+	+	+	+	+	-	-	+	+	-	+

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

[Ref.: #22711]	Sample type/isolated from	cultured oyster (Crassostrea corteziensis)
[Ref.: #22711]	Host species	Crassostrea corteziensis
[Ref.: #22711]	Geographic location (country and/or sea, region)	Sinaloa state, Ostrícola Guevara S.A. de C.V. La Cruz-Culiacán-Sinaloa (23° 55' 05.9''N 106° 53' 24.7'' W)
[Ref.: #22711]	Country	Mexico
[Ref.: #22711]	Country ISO 3 Code	MEX
[Ref.: #22711]	Continent	North America
[Ref.: #22711]	Geographic location	23.9183°/-106.8900°
* marker position based on {}

Isolation sources categories

#Engineered	#Food production	#Aquaculture
#Host	#Invertebrates (Other)	#Mollusca

What are isolation sources categories?

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

[Ref.: #22711]

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:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #22711]	Vibrio mexicanus strain CAIM 1540 16S ribosomal RNA gene, partial sequence	JQ434105	1436	GenBank ENA	1004326 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Vibrio mexicanus CAIM 1540	GCA_001012815	contig	GenBank ENA	1004326 tax ID	*
[Ref.: #66792]	Vibrio sp. CAIM 1540	1004326.3	wgs	PATRIC	1004326 tax ID	*
[Ref.: #66792]	Vibrio mexicanus CAIM 1540	2711768174	draft	JGI IMG/M	1004326 tax ID	*

[Ref.: #22711]

GC-content

43.7 mol%

sequence analysis

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Vibrio sp. CAIM 1540 PATRIC: 1004326.3
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Vibrio sp. CAIM 1540 PATRIC: 1004326.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	100	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	94.895	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	88.56	no
[Ref.: #69480]	aerobic	aerobicⓘ	no	63.593	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	99.5	no
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	90.175	no

Availability in culture collections External links

[Ref.: #22711]

Culture collection no.

DSM 100338, CAIM 1540, CECT 8828

[Ref.: #89901]

SI-ID 402763

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Vibrio mexicanus sp. nov., isolated from a cultured oyster Crassostrea corteziensis.	Gonzalez-Castillo A, Enciso-Ibarrra J, Bolan-Mejia MC, Balboa S, Lasa A, Romalde JL, Cabanillas-Beltran H, Gomez-Gil B	Antonie Van Leeuwenhoek	10.1007/s10482-015-0488-1	2015	*

References

#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 )

#22711

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 100338

#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) .

#68369

Automatically annotated from API 20NE .

#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 )

#89901

Reimer, 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 identifiers . ( DOI 10.60712/SI-ID402763.1 )

* These data were automatically processed and therefore are not curated

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Vibrio sp. CAIM 1540

Vibrio sp. CAIM 1540

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