Name: Virgibacillus alimentarius IDS-20
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 1496

Type strain:

Species: Virgibacillus alimentarius

Strain Designation: IDS-20

Culture col. no.: DSM 25790, CCUG 59308, KCTC 13727

Strain history: <- JH Yoon, KRIBB

NCBI tax ID(s): 698769 (species)

SI-ID 397970

DSM 25790, CCUG 59308

Special Collections

Other strains from Virgibacillus alimentarius

Section

Virgibacillus alimentarius IDS-20 is a facultative anaerobe, spore-forming, Gram-variable bacterium that was isolated from marine solar saltern, sediment.

Gram-variable
motile
rod-shaped
spore-forming
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	*Bacillota*
	Class	*Bacilli*
	Order	*Caryophanales*
	Family	*Bacillaceae*
	Genus	*Virgibacillus*
	Species	**Virgibacillus alimentarius**
	Full Scientific Name (LPSN)	Virgibacillus alimentarius Kim et al. 2011

Synonym

Virgibacillus campisalis

Information on morphological and physiological properties Morphology

[Ref.: #30306]	Gram stain	variable
[Ref.: #67771]	Gram stain	variable

[Ref.: #30306]	Cell length	1.0-4.0 µm

[Ref.: #30306]	Cell width	0.5-1.0 µm

[Ref.: #30306]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	rod-shaped

[Ref.: #30306]	Motility	yes
[Ref.: #67771]	Motility	yes

[Ref.: #67771]	Flagellum arrangement	monotrichous, polar

[Ref.: #61901]

Incubation period

2 days

[Ref.: #30306]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #5489]

Culture medium

CM + YE MEDIUM (DSMZ Medium 549)

[Ref.: #5489]

Culture medium growth

[Ref.: #5489]

Culture medium link

Medium recipe at MediaDive

[Ref.: #5489]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #5489]	growth	28 °C
[Ref.: #30306]	growth	15-40 °C
[Ref.: #30306]	optimum	37 °C
[Ref.: #61901]	growth	37 °C
[Ref.: #67771]	growth	37 °C

	pH	Kind of pH		pH
[Ref.: #30306]			optimum	7.5-8.0
[Ref.: #30306]			growth	6.0-9.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30306]	Oxygen tolerance	facultative anaerobe
[Ref.: #61901]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	facultative anaerobe

[Ref.: #67771]	Type of spore	endospore
[Ref.: #67771]	Ability of spore formation	yes
[Ref.: #30306]	Ability of spore formation	yes
[Ref.: #69480]	Ability of spore formation	yes Confidence in %91.092
[Ref.: #69481]	Ability of spore formation	yes Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30306]		NaCl		growth	0.5-20	%
[Ref.: #30306]		NaCl		optimum	4-5	%

[Ref.: #67771]

Observation

quinones: MK-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30306]	acetate ChEBI	+	carbon source
[Ref.: #30306]	citrate ChEBI	+	carbon source
[Ref.: #30306]	glucose ChEBI	+	carbon source
[Ref.: #30306]	malate ChEBI	+	carbon source
[Ref.: #30306]	pyruvate ChEBI	+	carbon source
[Ref.: #30306]	succinate ChEBI	+	carbon source
[Ref.: #30306]	tween 20 ChEBI	+	carbon source
[Ref.: #30306]	tween 40 ChEBI	+	carbon source
[Ref.: #30306]	tween 60 ChEBI	+	carbon source
[Ref.: #30306]	tween 80 ChEBI	+	carbon source

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #30306]		catalase	+	1.11.1.6
[Ref.: #30306]		cytochrome oxidase	+	1.9.3.1

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

[Ref.: #5489]	Sample type/isolated from	marine solar saltern, sediment
[Ref.: #5489]	Geographic location (country and/or sea, region)	West coast
[Ref.: #5489]	Country	Republic of Korea
[Ref.: #5489]	Country ISO 3 Code	KOR
[Ref.: #5489]	Continent	Asia

[Ref.: #61901]	Sample type/isolated from	Marine solar saltern sediment
[Ref.: #61901]	Sampling date	2007
[Ref.: #61901]	Geographic location (country and/or sea, region)	west coast
[Ref.: #61901]	Country	Republic of Korea
[Ref.: #61901]	Country ISO 3 Code	KOR
[Ref.: #61901]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From sediment, marine solar saltern
[Ref.: #67771]	Geographic location (country and/or sea, region)	Yellow Sea, the west coast of Korea
[Ref.: #67771]	Country	Republic of Korea
[Ref.: #67771]	Country ISO 3 Code	KOR
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment
#Condition	#Saline	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence GU586225 (>99% sequence identity) for Virgibacillus from Microbeatlas

Aquatic Samples	6
Soil Samples	22
Animal Samples	34
Plant Samples	2
Total Samples	64

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

[Ref.: #5489]

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.: #5489]	Virgibacillus campisalis strain IDS-20 16S ribosomal RNA gene, partial sequence	GU586225	1523	GenBank ENA	744463 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Virgibacillus alimentarius DSM 25790	GCA_017874635	contig	GenBank ENA	698769 tax ID	*
[Ref.: #66792]	Virgibacillus campisalis strain DSM 25790	744463.3	wgs	PATRIC	744463 tax ID	*
[Ref.: #66792]	Virgibacillus campisalis DSM 25790	2913450449	draft	JGI IMG/M	744463 tax ID	*

[Ref.: #5489]	GC-content	39.5 mol%	high performance liquid chromatography (HPLC)
[Ref.: #30306]	GC-content	39.5 mol%

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: Virgibacillus campisalis strain DSM 25790 PATRIC: 744463.3
[Ref.: #69481]	spore-forming	spore-formingⓘ	yes	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Virgibacillus campisalis strain DSM 25790 PATRIC: 744463.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	65.962	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	98.127	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	yes	91.092	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	77.825	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	92.31	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	79.399	yes

Availability in culture collections External links

[Ref.: #5489]

Culture collection no.

DSM 25790, CCUG 59308, KCTC 13727

[Ref.: #71142]

SI-ID 397970

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Virgibacillus campisalis sp. nov., from a marine solar saltern.	Lee SY, Kang CH, Oh TK, Yoon JH	Int J Syst Evol Microbiol	10.1099/ijs.0.033084-0	2011	*

References

#5489

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25790

#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 )

#30306

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #26647 (see below)

#61901 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 59308

#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) .

#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#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 )

#71142

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-ID397970.1 )

#26647

IJSEM 347 2012 ( DOI 10.1099/ijs.0.033084-0 , PubMed 21441379 )

* These data were automatically processed and therefore are not curated

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Virgibacillus campisalis strain DSM 25790

Virgibacillus campisalis strain DSM 25790

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