Name: Rhodanobacter soli DSM 25158
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 17523

Type strain:

Species: Rhodanobacter soli

Culture col. no.: DSM 25158, JCM 16126, KCTC 22620, DCY 45

Strain history: <- DC Yang, Kyunghee Univ.

NCBI tax ID(s): 590609 (species)

SI-ID 400041

DSM 25158

Special Collections

Section

Rhodanobacter soli DSM 25158 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from ginseng field.

Gram-negative
motile
rod-shaped
aerobe
mesophilic
16S sequence
Bacteria

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

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Lysobacterales*
	Family	*Rhodanobacteraceae*
	Genus	*Rhodanobacter*
	Species	**Rhodanobacter soli**
	Full Scientific Name (LPSN)	Rhodanobacter soli Bui et al. 2010

Information on morphological and physiological properties Morphology

[Ref.: #29719]	Gram stain	negative
[Ref.: #67771]	Gram stain	negative

[Ref.: #29719]	Cell length	2.3 µm

[Ref.: #29719]	Cell width	0.5 µm

[Ref.: #29719]	Cell shape	rod-shaped

[Ref.: #29719]	Motility	yes

[Ref.: #29719]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #17920]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #17920]

Culture medium growth

[Ref.: #17920]

Culture medium link

Medium recipe at MediaDive

[Ref.: #17920]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #17920]	growth	28 °C
[Ref.: #29719]	growth	30 °C
[Ref.: #29719]	optimum	30 °C
[Ref.: #67770]	growth	30 °C
[Ref.: #67771]	growth	28-30 °C

	pH	Kind of pH		pH
[Ref.: #29719]			optimum	7
[Ref.: #29719]			growth	05-10

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29719]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #29719]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29719]		NaCl		growth	0-3	%
[Ref.: #29719]		NaCl		optimum	0-3	%

[Ref.: #29719]	Observation	aggregates in chains
[Ref.: #67770]	Observation	quinones: Q-8

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29719]	3-hydroxybutyrate ChEBI	+	carbon source
[Ref.: #29719]	acetate ChEBI	+	carbon source
[Ref.: #29719]	glucose ChEBI	+	carbon source
[Ref.: #29719]	maltose ChEBI	+	carbon source
[Ref.: #29719]	mannitol ChEBI	+	carbon source

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #29719]		catalase	+	1.11.1.6
[Ref.: #29719]		cytochrome oxidase	+	1.9.3.1

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

[Ref.: #17920]	Sample type/isolated from	ginseng field
[Ref.: #17920]	Geographic location (country and/or sea, region)	Pocheon Province
[Ref.: #17920]	Country	Republic of Korea
[Ref.: #17920]	Country ISO 3 Code	KOR
[Ref.: #17920]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Soil of a ginseng field
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From soil from ginseng field
[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
#Host	#Plants	#Herbaceous plants (Grass,Crops)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence FJ605268 (>99% sequence identity) for Rhodanobacter from Microbeatlas

Aquatic Samples	61
Soil Samples	613
Animal Samples	52
Plant Samples	43
Total Samples	769

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

[Ref.: #17920]

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.: #17920]	Rhodanobacter soli strain DCY45 16S ribosomal RNA gene, partial sequence	FJ605268	1475	GenBank ENA	590609 tax ID

[Ref.: #17920]	GC-content	65.4 mol%	high performance liquid chromatography (HPLC)
[Ref.: #29719]	GC-content	65.4 mol%

Availability in culture collections External links

[Ref.: #17920]

Culture collection no.

DSM 25158, JCM 16126, KCTC 22620, DCY 45

[Ref.: #86520]

SI-ID 400041

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Rhodanobacter ginsengiterrae sp. nov., an antagonistic bacterium against root rot fungal pathogen Fusarium solani, isolated from ginseng rhizospheric soil.	Huo Y, Kang JP, Park JK, Li J, Chen L, Yang DC	Arch Microbiol	10.1007/s00203-018-1560-9	2018	*
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	*
Phylogeny	Rhodanobacter humi sp. nov., an acid-tolerant and alkalitolerant gammaproteobacterium isolated from forest soil.	Dahal RH, Kim J	Int J Syst Evol Microbiol	10.1099/ijsem.0.001786	2017	*
Phylogeny	Rhodanobacter aciditrophus sp. nov., an acidophilic bacterium isolated from mine wastewater.	Koh HW, Hong H, Min UG, Kang MS, Kim SG, Na JG, Rhee SK, Park SJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.000614	2015	*
Phylogeny	Rhodanobacter koreensis sp. nov., a bacterium isolated from tomato rhizosphere.	Won K, Singh H, Ngo HTT, Son H, Kook M, Kim KY, Yi TH	Int J Syst Evol Microbiol	10.1099/ijs.0.000077	2015	*
Phylogeny	Rhodanobacter glycinis sp. nov., a yellow-pigmented gammaproteobacterium isolated from the rhizoplane of field-grown soybean.	Madhaiyan M, Poonguzhali S, Saravanan VS, Kwon SW	Int J Syst Evol Microbiol	10.1099/ijs.0.055525-0	2014	*
Phylogeny	Rhodanobacter panaciterrae sp. nov., a bacterium with ginsenoside-converting activity isolated from soil of a ginseng field.	Wang L, An DS, Kim SG, Jin FX, Lee ST, Im WT	Int J Syst Evol Microbiol	10.1099/ijs.0.025718-0	2011	*
Phylogeny	Rhodanobacter soli sp. nov., isolated from soil of a ginseng field.	Bui TPN, Kim YJ, Kim H, Yang DC	Int J Syst Evol Microbiol	10.1099/ijs.0.019422-0	2010	*

References

#17920

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25158

#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 )

#29719

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 #26102 (see below)

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

#86520

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-ID400041.1 )

#26102

IJSEM 2935 2010 ( DOI 10.1099/ijs.0.019422-0 , PubMed 20118296 )

* These data were automatically processed and therefore are not curated

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