Name: Solimonas soli DSM 21787
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 18155

Type strain:

Species: Solimonas soli

Culture col. no.: DSM 21787, KCTC 12834, LMG 24014, CCUG 60890, LMG 23841, DCY 12

Strain history: <- DC Yang, Kyunghee Univ.

NCBI tax ID(s): 1123261 (strain), 413479 (species)

SI-ID 294637

LMG 24014, KCTC 12834, LMG 23841, CCUG 60890, DSM 21787

Section

Solimonas soli DSM 21787 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from soil of a ginseng field near Daejeon.

Gram-negative
rod-shaped
aerobe
mesophilic
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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Nevskiales*
	Family	*Nevskiaceae*
	Genus	*Solimonas*
	Species	**Solimonas soli**
	Full Scientific Name (LPSN)	Solimonas soli Kim et al. 2007

Synonym

"Sinobacter soli"

Information on morphological and physiological properties Morphology

[Ref.: #32085]	Gram stain	negative
[Ref.: #67771]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.994

[Ref.: #32085]	Cell length	0.4 µm

[Ref.: #32085]	Cell width	0.3 µm

[Ref.: #32085]	Cell shape	rod-shaped

[Ref.: #32085]	Motility	no

[Ref.: #32085]

Pigment production

Information on culture and growth conditions Culture and growth conditions

[Ref.: #15950]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #15950]

Culture medium growth

[Ref.: #15950]

Culture medium link

Medium recipe at MediaDive

[Ref.: #15950]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #15950]	growth	28 °C
[Ref.: #32085]	growth	25-37 °C
[Ref.: #32085]	optimum	30 °C
[Ref.: #62483]	growth	37 °C
[Ref.: #67771]	growth	30 °C

[Ref.: #15950]	Temperature range	mesophilic
[Ref.: #32085]	Temperature range	mesophilic
[Ref.: #62483]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32085]			optimum	7
[Ref.: #32085]			growth	07-09

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32085]	Oxygen tolerance	aerobe
[Ref.: #62483]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.996

[Ref.: #67771]

Observation

quinones: Q-8

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32085]	3-hydroxybutyrate ChEBI	+	carbon source
[Ref.: #32085]	acetate ChEBI	+	carbon source
[Ref.: #32085]	adipate ChEBI	+	carbon source
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #32085]	arabinose ChEBI	+	carbon source
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	D-mannose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	esculin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #32085]	fucose ChEBI	+	carbon source
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #32085]	gluconate ChEBI	+	carbon source
[Ref.: #68369]	gluconate ChEBI	-	assimilation	* from API 20NE
[Ref.: #32085]	glucose ChEBI	+	carbon source
[Ref.: #32085]	histidine ChEBI	+	carbon source
[Ref.: #68369]	L-arabinose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	malate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #32085]	proline ChEBI	+	carbon source
[Ref.: #32085]	propionate ChEBI	+	carbon source
[Ref.: #32085]	serine ChEBI	+	carbon source
[Ref.: #32085]	sorbitol ChEBI	+	carbon source
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #32085]	urea ChEBI	+	carbon source
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #32085]	valerate ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #32085]	acid phosphatase	+	3.1.3.2
[Ref.: #68382]	acid phosphatase	-	3.1.3.2	* from API zym
[Ref.: #32085]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	-	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68369]	beta-glucosidase	-	3.2.1.21	* from API 20NE, API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #32085]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE
[Ref.: #68382]	esterase (C 4)	-		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	-		* from API zym
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #32085]	urease	+	3.5.1.5
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® 20NE:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #62483]	8614	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	+

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #62483]	4497	-	+	-	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-

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

[Ref.: #15950]	Sample type/isolated from	soil of a ginseng field near Daejeon
[Ref.: #15950]	Geographic location (country and/or sea, region)	Daejeon
[Ref.: #15950]	Country	Republic of Korea
[Ref.: #15950]	Country ISO 3 Code	KOR
[Ref.: #15950]	Continent	Asia

[Ref.: #62483]	Sample type/isolated from	Soil of a ginseng field
[Ref.: #62483]	Sampling date	2006
[Ref.: #62483]	Geographic location (country and/or sea, region)	Daejeon
[Ref.: #62483]	Country	Republic of Korea
[Ref.: #62483]	Country ISO 3 Code	KOR
[Ref.: #62483]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From soil
[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 EF067861 (>99% sequence identity) for Solimonas soli subclade from Microbeatlas

Aquatic Samples	69
Soil Samples	168
Animal Samples	84
Plant Samples	80
Total Samples	401

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

[Ref.: #15950]

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.: #15950]	Solimonas soli strain DCY12 16S ribosomal RNA gene, partial sequence	EF067861	1480	ENA	1123261 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Solimonas soli DSM 21787	GCA_000474945	scaffold	GenBank	1123261 tax ID	*
[Ref.: #66792]	Solimonas soli DSM 21787	1123261.3	wgs	PATRIC	1123261 tax ID	*
[Ref.: #66792]	Solimonas soli DSM 21787	2528768146	draft	JGI IMG/M	1123261 tax ID	*

[Ref.: #15950]	GC-content	68.4 mol%	high performance liquid chromatography (HPLC)
[Ref.: #15950]	GC-content	40.5 mol%
[Ref.: #32085]	GC-content	40.53 mol%

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Solimonas soli DSM 21787 DSM 21787 NCBI: GCA_000474945.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Solimonas soli DSM 21787 DSM 21787 NCBI: GCA_000474945.1
[Ref.: #69480]	motile	yes	82.924	no
[Ref.: #69480]	flagellated	no	65.02	no
[Ref.: #69480]	gram-positive	no	98.858	yes
[Ref.: #69480]	anaerobic	no	99.411	yes
[Ref.: #69480]	aerobic	yes	94.915	no
[Ref.: #69480]	halophile	no	96.346	no
[Ref.: #69480]	spore-forming	no	95.316	no
[Ref.: #69480]	thermophile	no	94.049	no
[Ref.: #69480]	glucose-util	yes	71.738	no
[Ref.: #69480]	glucose-ferment	no	92.749	yes

Availability in culture collections External links

[Ref.: #15950]

Culture collection no.

DSM 21787, KCTC 12834, LMG 24014, CCUG 60890, LMG 23841, DCY 12

[Ref.: #87139]

SI-ID 294637

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Solimonas soli gen. nov., sp. nov., isolated from soil of a ginseng field.	Kim MK, Kim YJ, Cho DH, Yi TH, Soung NK, Yang DC	Int J Syst Evol Microbiol	10.1099/ijs.0.64938-0	2007	*
Phylogeny	Solimonas fluminis sp. nov., isolated from a freshwater river.	Lee Y, Lee B, Lee K, Jeon CO	Int J Syst Evol Microbiol	10.1099/ijsem.0.002865	2018	*
Phylogeny	Solimonas terrae sp. nov., isolated from soil.	Kim SJ, Moon JY, Weon HY, Ahn JH, Chen WM, Kwon SW	Int J Syst Evol Microbiol	10.1099/ijs.0.055574-0	2014	*
Phylogeny	Fontimonas thermophila gen. nov., sp. nov., a moderately thermophilic bacterium isolated from a freshwater hot spring, and proposal of Solimonadaceae fam. nov. to replace Sinobacteraceae Zhou et al. 2008.	Losey NA, Stevenson BS, Verbarg S, Rudd S, Moore ERB, Lawson PA	Int J Syst Evol Microbiol	10.1099/ijs.0.037127-0	2012	*
Phylogeny	Proposal of Solimonas aquatica sp. nov., reclassification of Sinobacter flavus Zhou et al. 2008 as Solimonas flava comb. nov. and Singularimonas variicoloris Friedrich and Lipski 2008 as Solimonas variicoloris comb. nov. and emended descriptions of the genus Solimonas and its type species Solimonas soli.	Sheu SY, Cho NT, Arun AB, Chen WM	Int J Syst Evol Microbiol	10.1099/ijs.0.023010-0	2010	*

References

#15950

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21787

#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 )

#32085

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 #28331 (see below)

#62483 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 60890

#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) .

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

#68369

Automatically annotated from API 20NE .

#68382

Automatically annotated from API zym .

#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 )

#87139

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-ID294637.1 )

#28331

IJSEM 2591 2007 ( DOI 10.1099/ijs.0.64938-0 , PubMed 17978223 )

* These data were automatically processed and therefore are not curated

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Solimonas soli DSM 21787 DSM 21787

Solimonas soli DSM 21787 DSM 21787

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