Name: Rhodanobacter ginsenosidimutans DSM 21013
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 17520

Type strain:

Species: Rhodanobacter ginsenosidimutans

Culture col. no.: DSM 21013, KACC 12822, KCTC 22231, LMG 24457, Gsoil 3054

Strain history: <- ST Lee, KAIST

NCBI tax ID(s): 490571 (species)

SI-ID 310960

LMG 24329, LMG 24457, DSM 21013, KACC 12822, KCTC 22231

Special Collections

Section

Rhodanobacter ginsenosidimutans DSM 21013 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from soil of a ginseng field.

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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Lysobacterales*
	Family	*Rhodanobacteraceae*
	Genus	*Rhodanobacter*
	Species	**Rhodanobacter ginsenosidimutans**
	Full Scientific Name (LPSN)	Rhodanobacter ginsenosidimutans An et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #28928]	Gram stain	negative
[Ref.: #67771]	Gram stain	negative

[Ref.: #28928]	Cell length	1.2 µm

[Ref.: #28928]	Cell width	0.5 µm

[Ref.: #28928]	Cell shape	rod-shaped

[Ref.: #28928]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #15425]

Culture medium

REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c)

[Ref.: #15425]

Culture medium growth

[Ref.: #15425]

Culture medium link

Medium recipe at MediaDive

[Ref.: #15425]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #15425]	growth	28 °C
[Ref.: #28928]	growth	15-37 °C
[Ref.: #28928]	optimum	26 °C
[Ref.: #67771]	growth	30 °C

	pH	Kind of pH		pH
[Ref.: #28928]			optimum	7
[Ref.: #28928]			growth	04-10

Information on physiology and metabolism Physiology and metabolism

[Ref.: #28928]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #28928]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #28928]		NaCl		growth	<5	%

[Ref.: #28928]

Observation

aggregates in clumps

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #28928]	alanine ChEBI	+	carbon source
[Ref.: #28928]	glucose ChEBI	+	carbon source
[Ref.: #28928]	histidine ChEBI	+	carbon source
[Ref.: #28928]	maltose ChEBI	+	carbon source
[Ref.: #28928]	mannose ChEBI	+	carbon source
[Ref.: #28928]	melibiose ChEBI	+	carbon source
[Ref.: #28928]	salicin ChEBI	+	carbon source
[Ref.: #28928]	sucrose ChEBI	+	carbon source
[Ref.: #28928]	valerate ChEBI	+	carbon source

	Enzyme	Enzyme activity	EC number
[Ref.: #28928]	acid phosphatase	+	3.1.3.2
[Ref.: #28928]	alpha-galactosidase	+	3.2.1.22
[Ref.: #28928]	catalase	+	1.11.1.6
[Ref.: #28928]	cytochrome oxidase	+	1.9.3.1

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

[Ref.: #15425]	Sample type/isolated from	soil of a ginseng field
[Ref.: #15425]	Geographic location (country and/or sea, region)	Pocheon province, South Korea
[Ref.: #15425]	Country	Republic of Korea
[Ref.: #15425]	Country ISO 3 Code	KOR
[Ref.: #15425]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From soil of a ginseng field in 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

#Engineered	#Agriculture	#Field
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)

What are isolation sources categories?

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

[Ref.: #15425]

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.: #15425]	Rhodanobacter ginsenosidimutans strain Gsoil 6054 16S ribosomal RNA gene, partial sequence	EU332826	1504	GenBank ENA	490571 tax ID

[Ref.: #15425]	GC-content	65.6 mol%
[Ref.: #28928]	GC-content	65.5 mol%

Availability in culture collections External links

[Ref.: #15425]

Culture collection no.

DSM 21013, KACC 12822, KCTC 22231, LMG 24457, Gsoil 3054

[Ref.: #86517]

SI-ID 310960

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Rhodanobacter rhizosphaerae sp. nov., isolated from soil of ginseng rhizosphere.	Cho GY, Lee JC, Whang KS	Int J Syst Evol Microbiol	10.1099/ijsem.0.001825	2017	*
Enzymology	Characterization of a novel ginsenoside-hydrolyzing alpha-L-arabinofuranosidase, AbfA, from Rhodanobacter ginsenosidimutans Gsoil 3054T.	An DS, Cui CH, Sung BH, Yang HC, Kim SC, Lee ST, Im WT, Kim SG	Appl Microbiol Biotechnol	10.1007/s00253-011-3614-7	2011	*
Phylogeny	Rhodanobacter ginsenosidimutans sp. nov., isolated from soil of a ginseng field in South Korea.	An DS, Lee HG, Lee ST, Im WT	Int J Syst Evol Microbiol	10.1099/ijs.0.001784-0	2009	*

References

#15425

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21013

#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 )

#28928

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 #25367 (see below)

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

#86517

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-ID310960.1 )

#25367

IJSEM 691 2009 ( DOI 10.1099/ijs.0.001784-0 , PubMed 19329589 )

* These data were automatically processed and therefore are not curated

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