Name: Olivibacter ginsengisoli KCTC 12646
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 134299

Type strain:

Species: Olivibacter ginsengisoli

Culture col. no.: KCTC 12646, LMG 23491, Gsoil 060

Strain history: <- ST Lee, KAIST

NCBI tax ID(s): 398048 (species)

SI-ID 290302

LMG 23491, KCTC 12646

Section

Olivibacter ginsengisoli KCTC 12646 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from soil.

Gram-negative
rod-shaped
aerobe
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	*Bacteroidota*
	Class	*Sphingobacteriia*
	Order	*Sphingobacteriales*
	Family	*Sphingobacteriaceae*
	Genus	*Olivibacter*
	Species	**Olivibacter ginsengisoli**
	Full Scientific Name (LPSN)	Olivibacter ginsengisoli Wang et al. 2008

Information on morphological and physiological properties Morphology

[Ref.: #32314]	Gram stain	negative
[Ref.: #67771]	Gram stain	negative

[Ref.: #32314]	Cell length	1.4 µm

[Ref.: #32314]	Cell width	0.8 µm

[Ref.: #32314]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	rod-shaped

[Ref.: #32314]	Motility	no

[Ref.: #32314]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #32314]	growth	15-30 °C
[Ref.: #32314]	optimum	30 °C
[Ref.: #67771]	growth	30 °C

[Ref.: #32314]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32314]			optimum	7.15
[Ref.: #32314]			growth	06-08

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32314]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #32314]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32314]		NaCl		growth	0-4	%

[Ref.: #67771]

Observation

quinones: MK-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32314]	arabinose ChEBI	+	carbon source
[Ref.: #32314]	esculin ChEBI	+	hydrolysis
[Ref.: #32314]	gluconate ChEBI	+	carbon source
[Ref.: #32314]	mannose ChEBI	+	carbon source
[Ref.: #32314]	melibiose ChEBI	+	carbon source
[Ref.: #32314]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #32314]	rhamnose ChEBI	+	carbon source
[Ref.: #32314]	salicin ChEBI	+	carbon source

	Enzyme	Enzyme activity	EC number
[Ref.: #32314]	acid phosphatase	+	3.1.3.2
[Ref.: #32314]	alkaline phosphatase	+	3.1.3.1
[Ref.: #32314]	alpha-galactosidase	+	3.2.1.22
[Ref.: #32314]	gelatinase	+
[Ref.: #32314]	urease	+	3.5.1.5

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

[Ref.: #32314]	Sample type/isolated from	soil

[Ref.: #67771]	Sample type/isolated from	From soil, ginseng field
[Ref.: #67771]	Geographic location (country and/or sea, region)	Pocheon Province
[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

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB267716 (>99% sequence identity) for Olivibacter ginsengisoli subclade from Microbeatlas

Aquatic Samples	68
Soil Samples	83
Animal Samples	208
Plant Samples	52
Total Samples	411

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.: #32314]	Olivibacter ginsengisoli gene for 16S rRNA, partial sequence	AB267716	1483	GenBank	398048 tax ID

[Ref.: #67771]

GC-content

43.6 mol%

Availability in culture collections External links

[Ref.: #32314]

Culture collection no.

KCTC 12646, LMG 23491, Gsoil 060

[Ref.: #91881]

SI-ID 290302

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Olivibacter ginsenosidimutans sp nov., with ginsenoside converting activity isolated from compost, and reclassification of Pseudosphingobacterium domesticum as Olivibacter domesticus comb. nov.	Siddiqi MZ, Liu Q, Lee SY, Choi KD, Im WT	Int J Syst Evol Microbiol	10.1099/ijsem.0.002819	2018	*
Phylogeny	Olivibacter jilunii sp. nov., isolated from DDT-contaminated soil.	Chen K, Tang SK, Wang GL, Nie GX, Li QF, Zhang JD, Li WJ, Li SP	Int J Syst Evol Microbiol	10.1099/ijs.0.042416-0	2012	*
Phylogeny	Olivibacter soli sp. nov., Olivibacter ginsengisoli sp. nov. and Olivibacter terrae sp. nov., from soil of a ginseng field and compost in South Korea.	Wang L, Ten LN, Lee HG, Im WT, Lee ST	Int J Syst Evol Microbiol	10.1099/ijs.0.65299-0	2008	*
Phylogeny	Olivibacter composti sp. nov., isolated from compost collected at a greenhouse.	Lin SY, Hameed A, Chiu KY, Liu YC, Hsu YH, Lai WA, Young CC	Int J Syst Evol Microbiol	10.1099/ijsem.0.001593	2017	*
Phylogeny	Olivibacter oleidegradans sp. nov., a hydrocarbon-degrading bacterium isolated from a biofilter clean-up facility on a hydrocarbon-contaminated site.	Szabo I, Szoboszlay S, Kriszt B, Hahn J, Harkai P, Baka E, Tancsics A, Kaszab E, Privler Z, Kukolya J	Int J Syst Evol Microbiol	10.1099/ijs.0.026641-0	2011	*

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 )

#32314

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 #28551 (see below)

#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 .

#91881

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-ID290302.1 )

#28551

IJSEM 1123 2008 ( DOI 10.1099/ijs.0.65299-0 , PubMed 18450700 )

* These data were automatically processed and therefore are not curated

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