Name: Virgibacillus oceani MY11
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 132191

Type strain:

Species: Virgibacillus oceani

Strain Designation: MY11

Culture col. no.: DSM 102958, CGMCC 1.12754, LMG 28105, MCCC 1A09973, JCM 19775

Strain history: G. Zhang; Third Inst. of Oceanogr., State Oceanic Admin., China; MY11.

NCBI tax ID(s): 1479511 (species)

SI-ID 391752

LMG 28105, CGMCC 1.12754

Special Collections

DSMZ
JCM

Section

Virgibacillus oceani MY11 is a spore-forming, mesophilic bacterium that was isolated from ocean sediment, 5572 m water depth.

spore-forming
mesophilic
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Bacillota*
	Class	*Bacilli*
	Order	*Caryophanales*
	Family	*Bacillaceae*
	Genus	*Virgibacillus*
	Species	**Virgibacillus oceani**
	Full Scientific Name (LPSN)	Virgibacillus oceani Yin et al. 2015

Information on culture and growth conditions Culture and growth conditions

[Ref.: #23980]

Culture medium

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

[Ref.: #23980]

Culture medium growth

[Ref.: #23980]

Culture medium link

Medium recipe at MediaDive

[Ref.: #23980]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #23980]			growth	30 °C
[Ref.: #67770]			growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]	Ability of spore formation	yes Confidence in %91.854
[Ref.: #69481]	Ability of spore formation	yes Confidence in %100

[Ref.: #67770]

Observation

quinones: MK-7

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

[Ref.: #23980]	Sample type/isolated from	ocean sediment, 5572 m water depth
[Ref.: #23980]	Geographic location (country and/or sea, region)	Western Pacific (Latitude 15° 53' N; Longitude 154° 43' E)
[Ref.: #23980]	Geographic location	15.8833°/154.7170°

[Ref.: #67770]	Sample type/isolated from	Sediment from the Western Pacific (at a water depth of 5,572 m; 154° 42.8' E 15° 53.0' N)
[Ref.: #67770]	Geographic location	15.8833°/154.7130°
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KJ144820 (>99% sequence identity) for Virgibacillus oceani subclade from Microbeatlas

Aquatic Samples	36
Soil Samples	21
Animal Samples	42
Plant Samples	5
Total Samples	104

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

[Ref.: #23980]

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.: #23980]	Virgibacillus sp. MY11 16S ribosomal RNA gene, partial sequence	KJ144820	1525	GenBank ENA	1479511 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Virgibacillus oceani CGMCC 1.12754	GCA_014638995	scaffold	GenBank ENA	1479511 tax ID	*
[Ref.: #66792]	Virgibacillus oceani strain CGMCC 1.12754	1479511.3	wgs	PATRIC	1479511 tax ID	*

[Ref.: #23980]	GC-content	34.2 mol%
[Ref.: #67770]	GC-content	34.2 mol%	high performance liquid chromatography (HPLC)

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 oceani CGMCC 1.12754 NCBI: GCA_014638995.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	yes	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Virgibacillus oceani CGMCC 1.12754 NCBI: GCA_014638995.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	75.998	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	93.659	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	76.087	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	yes	91.854	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	89.505	no
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	81.579	no

Availability in culture collections External links

[Ref.: #23980]

Culture collection no.

DSM 102958, CGMCC 1.12754, LMG 28105, MCCC 1A09973, JCM 19775

[Ref.: #90545]

SI-ID 391752

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Virgibacillus oceani sp. nov. isolated from ocean sediment.	Yin X, Yang Y, Wang S, Zhang G	Int J Syst Evol Microbiol	10.1099/ijs.0.068213-0	2014	*

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 )

#23980

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 102958

#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) .

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

#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 )

#90545

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-ID391752.1 )

* These data were automatically processed and therefore are not curated

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Virgibacillus oceani CGMCC 1.12754

Virgibacillus oceani CGMCC 1.12754

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