Name: Virgibacillus arcticus DSM 19574
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 1487

Type strain:

Species: Virgibacillus arcticus

Culture col. no.: DSM 19574, JCM 14839, HAL Hal1, HAL 1

Strain history: L. Whyte Hal 1.

NCBI tax ID(s): 469869 (species)

SI-ID 408292

DSM 19574

Special Collections

Section

Virgibacillus arcticus DSM 19574 is a moderately halophilic, spore-forming, Gram-positive bacterium that has a light pink pigmentation and was isolated from permafrost core of 9 m depth.

Gram-positive
motile
pigmented
rod-shaped
spore-forming
moderately halophilic
16S sequence
Bacteria

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacillota*
	Class	*Bacilli*
	Order	*Caryophanales*
	Family	*Bacillaceae*
	Genus	*Virgibacillus*
	Species	**Virgibacillus arcticus**
	Full Scientific Name (LPSN)	Virgibacillus arcticus Niederberger et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #23057]	Gram stain	positive

[Ref.: #23057]	Cell length	2.0-5.0 µm

[Ref.: #23057]	Cell width	0.5-0.8 µm

[Ref.: #23057]	Cell shape	rod-shaped

[Ref.: #23057]	Motility	yes

[Ref.: #23057]	Colony size	2.0 mm
[Ref.: #23057]	Incubation period	7 days
[Ref.: #23057]	Cultivation medium used	1/4 HM plates

[Ref.: #23057]	Pigment production	yes
[Ref.: #23057]	Pigmentation color	light pink

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8188]

Culture medium

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

[Ref.: #8188]

Culture medium growth

[Ref.: #8188]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8188]

Culture medium composition

expand / minimize

[Ref.: #23057]

Culture medium

1/4 HM plates

[Ref.: #23057]

Culture medium growth

	Kind of temperature		Temperature
[Ref.: #8188]		growth	20 °C
[Ref.: #23057]		growth	0.0-30.0 °C
[Ref.: #23057]	no	growth	-5.0 °C
[Ref.: #23057]	no	growth	37.0 °C
[Ref.: #23057]		optimum	25.0 °C
[Ref.: #67770]		growth	25 °C

	Kind of pH		pH
[Ref.: #23057]		optimum	7.0
[Ref.: #23057]		growth	4.4-9.1
[Ref.: #23057]	no	growth	10.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #23057]	Spore description	ellipsoidal,central or subterminal
[Ref.: #23057]	Type of spore	endospore
[Ref.: #23057]	Ability of spore formation	yes

[Ref.: #23057]

Halophily / tolerance level

moderately halophilic

	Salt	Tested relation		Salt conc.
[Ref.: #23057]	NaCl		growth	0.0-20.0	%(w/v)
[Ref.: #23057]	NaCl		optimum	5.0	%(w/v)
[Ref.: #23057]	NaCl	no	growth	25.0	%

[Ref.: #8188]	Murein short key	A11
[Ref.: #8188]	Murein types	A1alpha L-Lys-direct
[Ref.: #23057]	Murein short key	A11
[Ref.: #23057]	Murein types	A1alpha L-Lys-direct

[Ref.: #67770]

Observation

quinones: MK-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #23057]	amygdalin ChEBI	-	builds acid from
[Ref.: #23057]	casein	+	hydrolysis
[Ref.: #23057]	cellobiose ChEBI	-	carbon source
[Ref.: #23057]	cellobiose ChEBI	-	growth
[Ref.: #23057]	citrate ChEBI	-	carbon source
[Ref.: #23057]	D-fructose ChEBI	+	builds acid from
[Ref.: #23057]	D-glucose ChEBI	+	builds acid from
[Ref.: #23057]	D-glucose ChEBI	+	growth
[Ref.: #23057]	D-mannitol ChEBI	+	builds acid from
[Ref.: #23057]	D-mannose ChEBI	+	builds acid from
[Ref.: #23057]	D-sorbitol ChEBI	-	builds acid from
[Ref.: #23057]	gelatin ChEBI	+	hydrolysis
[Ref.: #23057]	L-arabinose ChEBI	-	builds acid from
[Ref.: #23057]	L-rhamnose ChEBI	-	builds acid from
[Ref.: #23057]	lactose ChEBI	-	carbon source
[Ref.: #23057]	lactose ChEBI	-	growth
[Ref.: #23057]	lactose ChEBI	+	builds acid from
[Ref.: #23057]	maltose ChEBI	+	builds acid from
[Ref.: #23057]	melibiose ChEBI	-	carbon source
[Ref.: #23057]	melibiose ChEBI	-	growth
[Ref.: #23057]	melibiose ChEBI	+	builds acid from
[Ref.: #23057]	methyl alpha-D-glucopyranoside ChEBI	+	builds acid from
[Ref.: #23057]	myo-inositol ChEBI	-	builds acid from
[Ref.: #23057]	nitrate ChEBI	+	reduction
[Ref.: #23057]	raffinose ChEBI	-	builds acid from
[Ref.: #23057]	sucrose ChEBI	-	builds acid from
[Ref.: #23057]	sucrose ChEBI	+	growth
[Ref.: #23057]	trehalose ChEBI	-	carbon source
[Ref.: #23057]	trehalose ChEBI	-	growth
[Ref.: #23057]	trehalose ChEBI	+	builds acid from
[Ref.: #23057]	tryptophan ChEBI	-	energy source
[Ref.: #23057]	xylitol ChEBI	+	builds acid from
[Ref.: #23057]	xylose ChEBI	-	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity
[Ref.: #23057]	ampicillin ChEBI	yes
[Ref.: #23057]	chloramphenicol ChEBI	yes
[Ref.: #23057]	erythromycin ChEBI	yes
[Ref.: #23057]	rifampicin ChEBI	yes
[Ref.: #23057]	streptomycin ChEBI	yes

	Metabolite	Production
[Ref.: #23057]	acetoin ChEBI	no
[Ref.: #23057]	hydrogen sulfide ChEBI	no
[Ref.: #23057]	indole ChEBI	no

	Metabolite	Voges-Proskauer-test	Indole test	Citrate test
[Ref.: #23057]	acetoin ChEBI	-
[Ref.: #23057]	citrate ChEBI			-
[Ref.: #23057]	indole ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #23057]	alkaline phosphatase	-	3.1.3.1
[Ref.: #23057]	arginine dihydrolase	-	3.5.3.6
[Ref.: #23057]	beta-galactosidase	-	3.2.1.23
[Ref.: #23057]	catalase	+	1.11.1.6
[Ref.: #23057]	cytochrome oxidase	-	1.9.3.1
[Ref.: #23057]	gelatinase	+
[Ref.: #23057]	lysine decarboxylase	-	4.1.1.18
[Ref.: #23057]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #23057]	tryptophan deaminase	-	4.1.99.1
[Ref.: #23057]	urease	-	3.5.1.5

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

[Ref.: #8188]	Sample type/isolated from	permafrost core of 9 m depth
[Ref.: #8188]	Geographic location (country and/or sea, region)	Canadian high Arctic, Ellesmere Island, Eureka
[Ref.: #8188]	Country	Canada
[Ref.: #8188]	Country ISO 3 Code	CAN
[Ref.: #8188]	Continent	North America

[Ref.: #67770]	Sample type/isolated from	Permafrost core of 9 m in depth collected near Eureka
[Ref.: #67770]	Geographic location (country and/or sea, region)	Ellesmere Island, in the Canadian high Arctic
[Ref.: #67770]	Country	Canada
[Ref.: #67770]	Country ISO 3 Code	CAN
[Ref.: #67770]	Continent	North America

[Ref.: #23057]	Enrichment culture	1/4 HM medium
[Ref.: #23057]	Enrichment culture composition	per litre: 178 g NaCl, 2 g KCl, 1 g MgSO4.7H2O, 0.36 g CaCl2.2H2O, 0.23 g NaBr, 0.06 g NaHCO3 , 0.01 g FeCl3 , 1.25 g proteose-peptone, 2.5 g yeast extract and 0.25 g glucose, adjusted to about pH 7.0
[Ref.: #23057]	Enrichment culture duration	14 days
[Ref.: #23057]	Enrichment culture temperature	23.0 ̊C

[Ref.: #23057]	Enrichment culture	1/4 HM medium
[Ref.: #23057]	Enrichment culture composition	per litre: 178 g NaCl, 2 g KCl, 1 g MgSO4.7H2O, 0.36 g CaCl2.2H2O, 0.23 g NaBr, 0.06 g NaHCO3 , 0.01 g FeCl3 , 1.25 g proteose-peptone, 2.5 g yeast extract and 0.25 g glucose, adjusted to about pH 7.0
[Ref.: #23057]	Enrichment culture duration	30 days
[Ref.: #23057]	Enrichment culture temperature	5.0 ̊C
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Core sample
#Environmental	#Terrestrial	#Permafrost

What are isolation sources categories?

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

[Ref.: #8188]

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.: #8188]	Virgibacillus arcticus strain Hal 1 16S ribosomal RNA gene, partial sequence	EF675742	1350	GenBank ENA	469869 tax ID

[Ref.: #8188]	GC-content	38.2 mol%	fluorimetric
[Ref.: #67770]	GC-content	38.2 mol%	thermal denaturation, midpoint method (Tm)

Availability in culture collections External links

[Ref.: #8188]

Culture collection no.

DSM 19574, JCM 14839, HAL Hal1, HAL 1

[Ref.: #71133]

SI-ID 408292

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Virgibacillus arcticus sp. nov., a moderately halophilic, endospore-forming bacterium from permafrost in the Canadian high Arctic.	Niederberger TD, Steven B, Charvet S, Barbier B, Whyte LG	Int J Syst Evol Microbiol	10.1099/ijs.0.002931-0	2009	*

References

#8188

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19574

#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 )

#23057

Thomas D. Niederberger,Blaire Steven,Sophie Charvet,Beatrice Barbier,Lyle G. Whyte: Virgibacillus arcticus sp. nov., a moderately halophilic, endospore-forming bacterium from permafrost in the Canadian high Arctic. IJSEM 59: 2219 - 2225 2009 ( DOI 10.1099/ijs.0.002931-0 , PubMed 19605723 )

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

#71133

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-ID408292.1 )

* These data were automatically processed and therefore are not curated

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