Name: Solirubrobacter soli DSM 22325
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 14088

Type strain:

Species: Solirubrobacter soli

Culture col. no.: DSM 22325, JCM 14923, KCTC 12628, LMG 23485, Gsoil 355

Strain history: <- ST Lee, KAIST

NCBI tax ID(s): 1123262 (strain), 363832 (species)

SI-ID 309492

KCTC 12628, LMG 23485, JCM 14923, DSM 22325

Special Collections

Section

Solirubrobacter soli DSM 22325 is an aerobe, Gram-positive, rod-shaped bacterium that was isolated from soil from a ginseng field.

Gram-positive
rod-shaped
aerobe
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	*Thermoleophilia*
	Order	*Solirubrobacterales*
	Family	*Solirubrobacteraceae*
	Genus	*Solirubrobacter*
	Species	**Solirubrobacter soli**
	Full Scientific Name (LPSN)	Solirubrobacter soli Kim et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #31958]	Gram stain	positive
[Ref.: #67771]	Gram stain	positive

[Ref.: #31958]	Cell length	2 µm

[Ref.: #31958]	Cell shape	rod-shaped

[Ref.: #31958]	Motility	no

[Ref.: #16282]

Incubation period

8-14 days

Information on culture and growth conditions Culture and growth conditions

[Ref.: #16282]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #16282]

Culture medium growth

[Ref.: #16282]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16282]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #16282]	growth	28 °C
[Ref.: #31958]	growth	25-30 °C
[Ref.: #67770]	growth	28 °C
[Ref.: #67771]	growth	28 °C

	pH	Kind of pH		pH
[Ref.: #31958]			optimum	8
[Ref.: #31958]			growth	5.0-11

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31958]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #31958]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31958]		NaCl		growth	0.0-1.5	%
[Ref.: #31958]		NaCl		optimum	0.75	%

[Ref.: #67770]

Observation

quinones: MK-7(H₄)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31958]	adipate ChEBI	+	carbon source
[Ref.: #31958]	arabinose ChEBI	+	carbon source
[Ref.: #31958]	fucose ChEBI	+	carbon source
[Ref.: #31958]	gluconate ChEBI	+	carbon source
[Ref.: #31958]	glucose ChEBI	+	carbon source
[Ref.: #31958]	maltose ChEBI	+	carbon source
[Ref.: #31958]	melibiose ChEBI	+	carbon source
[Ref.: #31958]	myo-inositol ChEBI	+	carbon source
[Ref.: #31958]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #31958]	proline ChEBI	+	carbon source
[Ref.: #31958]	rhamnose ChEBI	+	carbon source
[Ref.: #31958]	ribose ChEBI	+	carbon source
[Ref.: #31958]	salicin ChEBI	+	carbon source
[Ref.: #31958]	sucrose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #31958]	acid phosphatase	+	3.1.3.2
[Ref.: #31958]	alkaline phosphatase	+	3.1.3.1
[Ref.: #31958]	catalase	+	1.11.1.6
[Ref.: #31958]	cytochrome oxidase	+	1.9.3.1
[Ref.: #31958]	gelatinase	+

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

[Ref.: #16282]	Sample type/isolated from	soil from a ginseng field
[Ref.: #16282]	Geographic location (country and/or sea, region)	Daejeon
[Ref.: #16282]	Country	Republic of Korea
[Ref.: #16282]	Country ISO 3 Code	KOR
[Ref.: #16282]	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
[Ref.: #67771]	Geographic location (country and/or sea, region)	KAIST
[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?

[Ref.: #69479]

Global distribution of 16S sequence AB245334 (>99% sequence identity) for Solirubrobacter soli subclade from Microbeatlas

Aquatic Samples	81
Soil Samples	998
Animal Samples	85
Plant Samples	226
Total Samples	1390

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

[Ref.: #16282]

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.: #16282]	Solirubrobacter soli gene for 16S rRNA, partial sequence	AB245334	1495	GenBank ENA	363832 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Solirubrobacter soli DSM 22325	GCA_000423665	scaffold	GenBank ENA	1123262 tax ID
[Ref.: #66792]	Solirubrobacter soli DSM 22325	1123262.3	wgs	PATRIC	1123262 tax ID	*
[Ref.: #66792]	Solirubrobacter soli DSM 22325	2524023148	draft	JGI IMG/M	1123262 tax ID	*

[Ref.: #16282]	GC-content	71.5 mol%	high performance liquid chromatography (HPLC)
[Ref.: #31958]	GC-content	71.5 mol%

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: Solirubrobacter soli DSM 22325 DSM 22325 NCBI: GCA_000423665.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	yes	88	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Solirubrobacter soli DSM 22325 PATRIC: 1123262.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	71.876	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	85.077	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	yes	55.959	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	83.982	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	94.111	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	56.131	no

Availability in culture collections External links

[Ref.: #16282]

Culture collection no.

DSM 22325, JCM 14923, KCTC 12628, LMG 23485, Gsoil 355

[Ref.: #83256]

SI-ID 309492

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Solirubrobacter taibaiensis sp. nov., isolated from a stem of Phytolacca acinosa Roxb.	Zhang L, Zhu L, Si M, Li C, Zhao L, Wei Y, Shen X	Antonie Van Leeuwenhoek	10.1007/s10482-014-0194-4	2014	*
Phylogeny	Solirubrobacter phytolaccae sp. nov., an endophytic bacterium isolated from roots of Phytolacca acinosa Roxb.	Wei L, Ouyang S, Wang Y, Shen X, Zhang L	Int J Syst Evol Microbiol	10.1099/ijs.0.057554-0	2013	*
Phylogeny	Solirubrobacter ginsenosidimutans sp. nov., isolated from soil of a ginseng field.	An DS, Wang L, Kim MS, Bae HM, Lee ST, Im WT	Int J Syst Evol Microbiol	10.1099/ijs.0.028431-0	2010	*
Phylogeny	Solirubrobacter soli sp. nov., isolated from soil of a ginseng field.	Kim MK, Na JR, Lee TH, Im WT, Soung NK, Yang DC	Int J Syst Evol Microbiol	10.1099/ijs.0.64715-0	2007	*

References

#16282

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22325

#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 )

#31958

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 #28214 (see below)

#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;
#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 .

#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 )

#83256

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-ID309492.1 )

#28214

IJSEM 1453 2007 ( DOI 10.1099/ijs.0.64715-0 , PubMed 17625174 )

* These data were automatically processed and therefore are not curated

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Solirubrobacter soli DSM 22325 DSM 22325

Solirubrobacter soli DSM 22325

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