Name: Garicola koreensis SJ5-4
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 130439

Type strain:

Species: Garicola koreensis

Strain Designation: SJ5-4

Culture col. no.: DSM 28238, JCm 18572, KACC 16909

Strain history: C. O. Jeon SJ5-4.

NCBI tax ID(s): 1262554 (species)

SI-ID 397249

DSM 28238

Special Collections

DSMZ
JCM

Section

Garicola koreensis SJ5-4 is a bacterium that was isolated from saeu-jeot .

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	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Micrococcales*
	Family	*Micrococcaceae*
	Genus	*Garicola*
	Species	**Garicola koreensis**
	Full Scientific Name (LPSN)	Garicola koreensis Lo et al. 2015

Information on culture and growth conditions Culture and growth conditions

[Ref.: #22146]

Culture medium

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

[Ref.: #22146]

Culture medium growth

[Ref.: #22146]

Culture medium link

Medium recipe at MediaDive

[Ref.: #22146]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #22146]			growth	28 °C
[Ref.: #67770]			growth	28 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69481]

Ability of spore formation

no Confidence in %100

[Ref.: #67770]

Observation

quinones: MK-7, MK-8, MK-9

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

[Ref.: #22146]	Sample type/isolated from	saeu-jeot (Korean salted fermented shrimp)
[Ref.: #22146]	Country	Republic of Korea
[Ref.: #22146]	Country ISO 3 Code	KOR
[Ref.: #22146]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Seau-jeot, a traditional fermented seafood
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Food production	#Vegetable (incl. Grains)
#Engineered	#Food production	#Fermented

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence JX152781 (>99% sequence identity) for Garicola koreensis subclade from Microbeatlas

Aquatic Samples	7
Soil Samples	2
Animal Samples	143
Plant Samples	8
Total Samples	160

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

[Ref.: #22146]

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.: #22146]	Garicola koreensis strain SJ5-4 16S ribosomal RNA gene, partial sequence	JX152781	1459	GenBank ENA	1262554 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Garicola koreensis DSM 28238	GCA_014195445	contig	GenBank ENA	1262554 tax ID	*
[Ref.: #66792]	Garicola koreensis strain DSM 28238	1262554.3	wgs	PATRIC	1262554 tax ID	*
[Ref.: #66792]	[Nesterenkonia] koreensis DSM 28238	2827611747	draft	JGI IMG/M	1262554 tax ID	*

[Ref.: #22146]	GC-content	61.8 mol%	fluorimetric
[Ref.: #67770]	GC-content	61.8 mol%	thermal denaturation, midpoint method (Tm)

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: Garicola koreensis strain DSM 28238 PATRIC: 1262554.3
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Garicola koreensis strain DSM 28238 PATRIC: 1262554.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	85.689	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	92.317	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	79.78	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	76.948	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	86.819	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	89.5	no

Availability in culture collections External links

[Ref.: #22146]

Culture collection no.

DSM 28238, JCm 18572, KACC 16909

[Ref.: #88969]

SI-ID 397249

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Garicola koreensis gen. nov., sp. nov., isolated from saeu-jeot, traditional Korean fermented shrimp.	Lo N, Lee SH, Jin HM, Jung JY, Schumann P, Jeon CO	Int J Syst Evol Microbiol	10.1099/ijs.0.000056	2015	*

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 )

#22146

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 28238

#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 )

#88969

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-ID397249.1 )

* These data were automatically processed and therefore are not curated

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Garicola koreensis strain DSM 28238

Garicola koreensis strain DSM 28238

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