Name: Vibrio echinoideorum NFH.MBO10
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 159312

Type strain:

Species: Vibrio echinoideorum

Strain Designation: NFH.MBO10, NFH.MB010

Culture col. no.: DSM 107264, LMG 30656

Strain history: <- UiT The Arctic Univ. of Norway, Tromsoe, Norway; NFH.MBO10 <- J. Hira

NCBI tax ID(s): 2100116 (species)

SI-ID 401533

DSM 107264

Special Collections

Section

Vibrio echinoideorum NFH.MBO10 is a facultative anaerobe, Gram-negative, motile bacterium that forms circular colonies and was isolated from epidermal lesion of green sea urchin .

colony-forming
Gram-negative
motile
rod-shaped
facultative anaerobe
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 echinoideorum**
	Full Scientific Name (LPSN)	Vibrio echinoideorum Hira et al. 2019

Information on morphological and physiological properties Morphology

[Ref.: #68128]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %100

[Ref.: #68128]	Cell length	1.9 µm

[Ref.: #68128]	Cell shape	rod-shaped

[Ref.: #68128]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %91.136

[Ref.: #68128]	Flagellum arrangement	polar

[Ref.: #68128]	Colony size	1.5-2.0 mm
[Ref.: #68128]	Colony color	beige-coloured
[Ref.: #68128]	Colony shape	circular
[Ref.: #68128]	Incubation period	3 days
[Ref.: #68128]	Cultivation medium used	Marine agar (MA)

[Ref.: #68128]	Colony color	green
[Ref.: #68128]	Cultivation medium used	TCBS agar

Multimedia content

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Caption:

DSM 107264 on medium 514f at 25 °C

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Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

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Culture medium

MARINE BROTH (ROTH CP73) (DSMZ Medium 514f)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #66135]			growth	25 °C
[Ref.: #68128]			growth	4-28 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #68128]

Oxygen tolerance

facultative anaerobe

[Ref.: #69480]

Ability of spore formation

no Confidence in %91.434

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #68128]		NaCl		growth	1-5	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68128]	2-oxoglutarate ChEBI	+	oxidation
[Ref.: #68128]	acetate ChEBI	+	oxidation
[Ref.: #68128]	alpha-D-glucose ChEBI	+	builds acid from
[Ref.: #68128]	alpha-D-glucose ChEBI	+	oxidation
[Ref.: #68128]	arginine ChEBI	+	hydrolysis
[Ref.: #68128]	cellobiose ChEBI	+	builds acid from
[Ref.: #68128]	cellobiose ChEBI	+	oxidation
[Ref.: #68128]	cellobiose ChEBI	+	carbon source
[Ref.: #68128]	cellobiose ChEBI	+	energy source
[Ref.: #68128]	citrate ChEBI	-	carbon source
[Ref.: #68128]	citrate ChEBI	-	energy source
[Ref.: #68128]	D-fructose ChEBI	+	builds acid from
[Ref.: #68128]	D-fructose ChEBI	+	oxidation
[Ref.: #68128]	D-fructose 6-phosphate ChEBI	+	oxidation
[Ref.: #68128]	D-galactose ChEBI	+	builds acid from
[Ref.: #68128]	D-galactose ChEBI	+	carbon source
[Ref.: #68128]	D-galactose ChEBI	+	energy source
[Ref.: #68128]	D-glucose 6-phosphate ChEBI	+	oxidation
[Ref.: #68128]	D-glucuronate ChEBI	-	builds acid from
[Ref.: #68128]	D-mannitol ChEBI	+	assimilation
[Ref.: #68128]	D-mannitol ChEBI	+	builds acid from
[Ref.: #68128]	D-mannitol ChEBI	+	oxidation
[Ref.: #68128]	D-mannitol ChEBI	+	carbon source
[Ref.: #68128]	D-mannitol ChEBI	+	energy source
[Ref.: #68128]	D-mannose ChEBI	+	assimilation
[Ref.: #68128]	D-mannose ChEBI	+	builds acid from
[Ref.: #68128]	D-mannose ChEBI	+	oxidation
[Ref.: #68128]	D-mannose ChEBI	+	carbon source
[Ref.: #68128]	D-mannose ChEBI	+	energy source
[Ref.: #68128]	D-ribose ChEBI	+	builds acid from
[Ref.: #68128]	D-sorbitol ChEBI	-	carbon source
[Ref.: #68128]	D-sorbitol ChEBI	-	energy source
[Ref.: #68128]	esculin ChEBI	-	hydrolysis
[Ref.: #68128]	gelatin ChEBI	+	hydrolysis
[Ref.: #68128]	gentiobiose ChEBI	+	builds acid from
[Ref.: #68128]	gentiobiose ChEBI	+	carbon source
[Ref.: #68128]	gentiobiose ChEBI	+	energy source
[Ref.: #68128]	gluconate ChEBI	+	assimilation
[Ref.: #68128]	glucose ChEBI	+	assimilation
[Ref.: #68128]	glycogen ChEBI	+	builds acid from
[Ref.: #68128]	glycogen ChEBI	+	carbon source
[Ref.: #68128]	glycogen ChEBI	+	energy source
[Ref.: #68128]	glycyl-L-proline ChEBI	+	oxidation
[Ref.: #68128]	hydrogen sulfide ChEBI	-	assimilation
[Ref.: #68128]	inosine ChEBI	+	oxidation
[Ref.: #68128]	L-alanine ChEBI	+	oxidation
[Ref.: #68128]	L-arabinose ChEBI	-	carbon source
[Ref.: #68128]	L-arabinose ChEBI	-	energy source
[Ref.: #68128]	L-aspartate ChEBI	+	oxidation
[Ref.: #68128]	L-glutamate ChEBI	+	oxidation
[Ref.: #68128]	L-malate ChEBI	+	oxidation
[Ref.: #68128]	L-rhamnose ChEBI	-	carbon source
[Ref.: #68128]	L-rhamnose ChEBI	-	energy source
[Ref.: #68128]	L-serine ChEBI	+	oxidation
[Ref.: #68128]	malate ChEBI	+	assimilation
[Ref.: #68128]	malate ChEBI	+	carbon source
[Ref.: #68128]	malate ChEBI	+	energy source
[Ref.: #68128]	maltose ChEBI	+	assimilation
[Ref.: #68128]	maltose ChEBI	+	builds acid from
[Ref.: #68128]	maltose ChEBI	+	oxidation
[Ref.: #68128]	maltose ChEBI	+	carbon source
[Ref.: #68128]	maltose ChEBI	+	energy source
[Ref.: #68128]	melibiose ChEBI	-	carbon source
[Ref.: #68128]	melibiose ChEBI	-	energy source
[Ref.: #68128]	myo-inositol ChEBI	-	carbon source
[Ref.: #68128]	myo-inositol ChEBI	-	energy source
[Ref.: #68128]	N-acetyl-D-glucosamine ChEBI	+	builds acid from
[Ref.: #68128]	nitrate ChEBI	+	reduction
[Ref.: #68128]	starch ChEBI	+	builds acid from
[Ref.: #68128]	starch ChEBI	+	carbon source
[Ref.: #68128]	starch ChEBI	+	energy source
[Ref.: #68128]	sucrose ChEBI	-	carbon source
[Ref.: #68128]	sucrose ChEBI	-	energy source
[Ref.: #68128]	trehalose ChEBI	+	builds acid from
[Ref.: #68128]	trehalose ChEBI	+	oxidation
[Ref.: #68128]	trehalose ChEBI	+	carbon source
[Ref.: #68128]	trehalose ChEBI	+	energy source
[Ref.: #68128]	tryptophan ChEBI	+	assimilation
[Ref.: #68128]	tween 40 ChEBI	+	oxidation
[Ref.: #68128]	urea ChEBI	-	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Antibiotica	Metabolite	Antibiotic sensitivity	Concentration
[Ref.: #68128]		Vibriostatic agent O/129 ChEBI	yes	10	µg
[Ref.: #68128]		Vibriostatic agent O/129 ChEBI	yes	150	µg (disc)

	Metabolite production	Metabolite	Production
[Ref.: #68128]		acetoin ChEBI	no
[Ref.: #68128]		indole ChEBI	yes

	Physiological tests	Metabolite	Voges-Proskauer-test
[Ref.: #68128]		acetoin ChEBI	-

	Enzyme	Enzyme activity	EC number
[Ref.: #68128]	acid phosphatase	+	3.1.3.2
[Ref.: #68128]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68128]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #68128]	alpha-fucosidase	+/-	3.2.1.51
[Ref.: #68128]	alpha-galactosidase	-	3.2.1.22
[Ref.: #68128]	alpha-glucosidase	+/-	3.2.1.20
[Ref.: #68128]	alpha-mannosidase	-	3.2.1.24
[Ref.: #68128]	beta-glucosidase	-	3.2.1.21
[Ref.: #68128]	beta-glucuronidase	-	3.2.1.31
[Ref.: #68128]	catalase	+	1.11.1.6
[Ref.: #68128]	cystine arylamidase	-	3.4.11.3
[Ref.: #68128]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68128]	esterase (C 4)	-
[Ref.: #68128]	esterase Lipase (C 8)	+/-
[Ref.: #68128]	leucine arylamidase	+	3.4.11.1
[Ref.: #68128]	lipase (C 14)	-
[Ref.: #68128]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68128]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #68128]	naphthol-AS-BI-phosphohydrolase	+/-
[Ref.: #68128]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #68128]	trypsin	-	3.4.21.4
[Ref.: #68128]	valine arylamidase	-
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #68128]

Fatty acid	Percentage
C16:1 w7c/C16:1 w6c/C15:0 iso	50
C18:1 w7c/C18:1 w6c	8.9
C16:0 iso	0.5
C20:0 iso	0.12

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

[Ref.: #66135]	Sample type/isolated from	epidermal lesion of green sea urchin (Strongylocentrotus droebachiensis<\i>)
[Ref.: #66135]	Host species	Strongylocentrotus droebachiensis
[Ref.: #66135]	Geographic location (country and/or sea, region)	Kårvik (69° 52' 03'' N, 18° 55' 45'' E)
[Ref.: #66135]	Country	Norway
[Ref.: #66135]	Country ISO 3 Code	NOR
[Ref.: #66135]	Continent	Europe

[Ref.: #68128]	Sample type/isolated from	epidermal lesion of Strongylocentrotus droebachiensis
[Ref.: #68128]	Country	Norway
[Ref.: #68128]	Country ISO 3 Code	NOR
[Ref.: #68128]	Continent	Europe
[Ref.: #68128]	Enrichment culture	MA
[Ref.: #68128]	Enrichment culture duration	3 days
[Ref.: #68128]	Enrichment culture temperature	12 ̊C
* marker position based on {}

Isolation sources categories

#Host

#Invertebrates (Other)

#Echinodermata

What are isolation sources categories?

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.: #66135]	Vibrio sp. strain NFH.MB010 16S ribosomal RNA gene, partial sequence	MG788349.1	1547	GenBank ENA	678 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #68128]	Vibrio echinoideorum NFH.MB010	GCA_004764665	contig	GenBank ENA	2100116 tax ID
[Ref.: #66792]	Vibrio echinoideorum DSM 107264	GCA_024347455	complete	GenBank ENA	2100116 tax ID	*

[Ref.: #68128]

GC-content

43.5 mol%

genome sequence analysis

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Vibrio echinoideorum DSM 107264 NCBI: GCA_024347455.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	100	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	95.627	no
[Ref.: #69480]	aerobic	aerobicⓘ	no	68.975	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	91.434	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	100	no
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	91.136	yes

Availability in culture collections External links

[Ref.: #66135]

Culture collection no.

DSM 107264, LMG 30656

[Ref.: #111811]

SI-ID 401533

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Vibrio echinoideorum sp. nov., isolated from an epidermal lesion on the test of a green sea urchin (Strongylocentrotus droebachiensis).	Hira J, Bentdal S, Devold H, Stensvag K, Landfald B	Int J Syst Evol Microbiol	10.1099/ijsem.0.003462	2019	*

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 )

#66135

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 107264

#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) .

#68128

Jonathan Hira, Solveig Bentdal, Hege Devold, Klara Stensvåg, Bjarne Landfald: Vibrio echinoideorum sp. nov., isolated from an epidermal lesion on the test of a green sea urchin (Strongylocentrotus droebachiensis). IJSEM 69: 2277 - 2282 2019 ( DOI 10.1099/ijsem.0.003462 )

#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) .

#111811

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-ID401533.1 )

* These data were automatically processed and therefore are not curated

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Vibrio echinoideorum DSM 107264

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