Name: Ornithinibacillus scapharcae TW25
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 22929

Type strain:

Species: Ornithinibacillus scapharcae

Strain Designation: TW25

Culture col. no.: DSM 26677, JCM 17314, KACC 15116

Strain history: J.-W. Bae; Dept. of Biol., Kyung Hee Univ., South Korea; TW25.

NCBI tax ID(s): 1147159 (species)

SI-ID 406027

DSM 26677

Section

Ornithinibacillus scapharcae TW25 is a mesophilic human pathogen that was isolated from dead ark clam.

human pathogen
mesophilic
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	*Ornithinibacillus*
	Species	**Ornithinibacillus scapharcae**
	Full Scientific Name (LPSN)	Ornithinibacillus scapharcae Shin et al. 2012

Information on culture and growth conditions Culture and growth conditions

[Ref.: #19185]

Culture medium

CASO AGAR (MERCK 105458) (DSMZ Medium 220)

[Ref.: #19185]

Culture medium growth

[Ref.: #19185]

Culture medium link

Medium recipe at MediaDive

[Ref.: #19185]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #19185]			growth	30 °C
[Ref.: #67770]			growth	30 °C

[Ref.: #19185]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #67770]

Observation

quinones: MK-7

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

[Ref.: #19185]	Sample type/isolated from	dead ark clam
[Ref.: #19185]	Geographic location (country and/or sea, region)	Gang-jin Bay
[Ref.: #19185]	Country	Republic of Korea
[Ref.: #19185]	Country ISO 3 Code	KOR
[Ref.: #19185]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Dead ark clam collected at Gang-jin Bay in the Southern coastal region of the Korean peninsula
* marker position based on {}

Isolation sources categories

#Host	#Other	#Decomposing animal
#Host	#Invertebrates (Other)	#Mollusca

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence HQ171440 (>99% sequence identity) for Ornithinibacillus scapharcae from Microbeatlas

Aquatic Samples	20
Soil Samples	61
Animal Samples	46
Plant Samples	12
Total Samples	139

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

[Ref.: #19185]	Pathogenicity (human)	yes, in single cases
[Ref.: #19185]	Pathogenicity (animal)	yes, in single cases
[Ref.: #19185]	Biosafety level	1	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.: #19185]	Ornithinibacillus scapharcae TW25 16S ribosomal RNA gene, partial sequence	HQ171440	1444	ENA	981383 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Ornithinibacillus scapharcae TW25	GCA_000190475	contig	GenBank	981383 tax ID
[Ref.: #66792]	Ornithinibacillus scapharcae TW25	981383.3	wgs	PATRIC	981383 tax ID	*
[Ref.: #66792]	Ornithinibacillus scapharcae TW25	2513237297	draft	JGI IMG/M	981383 tax ID	*

[Ref.: #19185]	GC-content	36.7 mol%
[Ref.: #67770]	GC-content	36.7 mol%	genome sequence analysis

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Ornithinibacillus scapharcae TW25 PATRIC: 981383.3
[Ref.: #69480]	motile	yes	86.68	no
[Ref.: #69480]	flagellated	yes	73.359	no
[Ref.: #69480]	gram-positive	yes	89.627	no
[Ref.: #69480]	anaerobic	no	99.048	no
[Ref.: #69480]	halophile	yes	80.302	no
[Ref.: #69480]	spore-forming	yes	94.293	no
[Ref.: #69480]	thermophile	no	98.005	yes
[Ref.: #69480]	glucose-util	yes	87.522	no
[Ref.: #69480]	aerobic	yes	92.368	no
[Ref.: #69480]	glucose-ferment	no	90.349	no

Availability in culture collections External links

[Ref.: #19185]

Culture collection no.

DSM 26677, JCM 17314, KACC 15116

[Ref.: #87177]

SI-ID 406027

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Ornithinibacillus scapharcae sp. nov., isolated from a dead ark clam.	Shin NR, Whon TW, Kim MS, Roh SW, Jung MJ, Kim YO, Bae JW	Antonie Van Leeuwenhoek	10.1007/s10482-011-9645-3	2011	*

References

#19185

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 26677

#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 )

#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) .

#87177

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-ID406027.1 )

* These data were automatically processed and therefore are not curated

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