Name: Solitalea koreensis R2A36-4
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 14140

Type strain:

Species: Solitalea koreensis

Strain Designation: R2A36-4

Culture col. no.: DSM 21342, KACC 12953

Strain history: <- S.-W. Kwon, KACC; R2A36-4 <- H.-Y. Weon

NCBI tax ID(s): 543615 (species)

SI-ID 405119

DSM 21342

Special Collections

Section

Solitalea koreensis R2A36-4 is an aerobe, Gram-negative, motile bacterium that was isolated from greenhouse soil.

Gram-negative
motile
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	*Bacteroidota*
	Class	*Sphingobacteriia*
	Order	*Sphingobacteriales*
	Family	*Sphingobacteriaceae*
	Genus	*Solitalea*
	Species	**Solitalea koreensis**
	Full Scientific Name (LPSN)	Solitalea koreensis Weon et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #29145]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %96.968

[Ref.: #29145]	Cell length	15.65 µm

[Ref.: #29145]	Cell width	0.55 µm

[Ref.: #29145]	Cell shape	rod-shaped

[Ref.: #29145]	Motility	yes
[Ref.: #69480]	Motility	no Confidence in %90.095

[Ref.: #29145]	Flagellum arrangement	gliding

[Ref.: #29145]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #15628]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #15628]

Culture medium growth

[Ref.: #15628]

Culture medium link

Medium recipe at MediaDive

[Ref.: #15628]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #15628]	growth	28 °C
[Ref.: #29145]	growth	10-35 °C
[Ref.: #29145]	optimum	29 °C

	pH	Kind of pH		pH
[Ref.: #29145]			optimum	6.5
[Ref.: #29145]			growth	05-08

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29145]

Oxygen tolerance

aerobe

[Ref.: #29145]	Ability of spore formation	no
[Ref.: #69480]	Ability of spore formation	no Confidence in %90.409
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29145]		NaCl		growth	0-1	%
[Ref.: #29145]		NaCl		optimum	0.5	%

[Ref.: #29145]

Observation

aggregates in clumps

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29145]	esculin ChEBI	+	hydrolysis
[Ref.: #29145]	gelatin ChEBI	+	carbon source
[Ref.: #29145]	glucose ChEBI	+	carbon source
[Ref.: #29145]	maltose ChEBI	+	carbon source
[Ref.: #29145]	mannose ChEBI	+	carbon source
[Ref.: #29145]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #29145]	salicin ChEBI	+	carbon source

	Enzyme	Enzyme activity	EC number
[Ref.: #29145]	acid phosphatase	+	3.1.3.2
[Ref.: #29145]	alkaline phosphatase	+	3.1.3.1
[Ref.: #29145]	alpha-galactosidase	+	3.2.1.22
[Ref.: #29145]	catalase	+	1.11.1.6
[Ref.: #29145]	cytochrome oxidase	+	1.9.3.1
[Ref.: #29145]	gelatinase	+

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	biotin biosynthesis	100	4 of 4
[Ref.: #66794]	1,4-dihydroxy-6-naphthoate biosynthesis	100	6 of 6
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	CMP-KDO biosynthesis	100	4 of 4
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	denitrification	100	2 of 2
[Ref.: #66794]	sulfopterin metabolism	100	4 of 4
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	palmitate biosynthesis	95.45	21 of 22
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	C4 and CAM-carbon fixation	87.5	7 of 8
[Ref.: #66794]	ubiquinone biosynthesis	85.71	6 of 7
[Ref.: #66794]	photosynthesis	85.71	12 of 14
[Ref.: #66794]	phenylalanine metabolism	84.62	11 of 13
[Ref.: #66794]	NAD metabolism	83.33	15 of 18
[Ref.: #66794]	glutamate and glutamine metabolism	82.14	23 of 28
[Ref.: #66794]	pentose phosphate pathway	81.82	9 of 11
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	methylglyoxal degradation	80	4 of 5
[Ref.: #66794]	cellulose degradation	80	4 of 5
[Ref.: #66794]	threonine metabolism	80	8 of 10
[Ref.: #66794]	metabolism of amino sugars and derivatives	80	4 of 5
[Ref.: #66794]	propionate fermentation	80	8 of 10
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	tryptophan metabolism	78.95	30 of 38
[Ref.: #66794]	tetrahydrofolate metabolism	78.57	11 of 14
[Ref.: #66794]	heme metabolism	78.57	11 of 14
[Ref.: #66794]	CO2 fixation in Crenarchaeota	77.78	7 of 9
[Ref.: #66794]	d-mannose degradation	77.78	7 of 9
[Ref.: #66794]	serine metabolism	77.78	7 of 9
[Ref.: #66794]	valine metabolism	77.78	7 of 9
[Ref.: #66794]	alanine metabolism	75.86	22 of 29
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	flavin biosynthesis	73.33	11 of 15
[Ref.: #66794]	purine metabolism	72.34	68 of 94
[Ref.: #66794]	cysteine metabolism	72.22	13 of 18
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	citric acid cycle	71.43	10 of 14
[Ref.: #66794]	pyrimidine metabolism	71.11	32 of 45
[Ref.: #66794]	starch degradation	70	7 of 10
[Ref.: #66794]	isoprenoid biosynthesis	69.23	18 of 26
[Ref.: #66794]	leucine metabolism	69.23	9 of 13
[Ref.: #66794]	histidine metabolism	68.97	20 of 29
[Ref.: #66794]	formaldehyde oxidation	66.67	2 of 3
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	66.67	2 of 3
[Ref.: #66794]	ketogluconate metabolism	62.5	5 of 8
[Ref.: #66794]	methionine metabolism	61.54	16 of 26
[Ref.: #66794]	coenzyme M biosynthesis	60	6 of 10
[Ref.: #66794]	glycine betaine biosynthesis	60	3 of 5
[Ref.: #66794]	Entner Doudoroff pathway	60	6 of 10
[Ref.: #66794]	glycolysis	58.82	10 of 17
[Ref.: #66794]	non-pathway related	57.89	22 of 38
[Ref.: #66794]	tyrosine metabolism	57.14	8 of 14
[Ref.: #66794]	lysine metabolism	57.14	24 of 42
[Ref.: #66794]	aspartate and asparagine metabolism	55.56	5 of 9
[Ref.: #66794]	vitamin B1 metabolism	53.85	7 of 13
[Ref.: #66794]	degradation of sugar acids	52	13 of 25
[Ref.: #66794]	lipid metabolism	51.61	16 of 31
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	lactate fermentation	50	2 of 4
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	dTDPLrhamnose biosynthesis	50	4 of 8
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	50	6 of 12
[Ref.: #66794]	arginine metabolism	50	12 of 24
[Ref.: #66794]	cis-vaccenate biosynthesis	50	1 of 2
[Ref.: #66794]	degradation of pentoses	46.43	13 of 28
[Ref.: #66794]	sulfate reduction	46.15	6 of 13
[Ref.: #66794]	urea cycle	46.15	6 of 13
[Ref.: #66794]	vitamin B6 metabolism	45.45	5 of 11
[Ref.: #66794]	metabolism of disaccharids	45.45	5 of 11
[Ref.: #66794]	d-xylose degradation	45.45	5 of 11
[Ref.: #66794]	proline metabolism	45.45	5 of 11
[Ref.: #66794]	nitrate assimilation	44.44	4 of 9
[Ref.: #66794]	glutathione metabolism	42.86	6 of 14
[Ref.: #66794]	propanol degradation	42.86	3 of 7
[Ref.: #66794]	reductive acetyl coenzyme A pathway	42.86	3 of 7
[Ref.: #66794]	oxidative phosphorylation	40.66	37 of 91
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	4-hydroxyphenylacetate degradation	40	4 of 10
[Ref.: #66794]	vitamin K metabolism	40	2 of 5
[Ref.: #66794]	degradation of hexoses	38.89	7 of 18
[Ref.: #66794]	phenol degradation	35	7 of 20
[Ref.: #66794]	polyamine pathway	34.78	8 of 23
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	glycolate and glyoxylate degradation	33.33	2 of 6
[Ref.: #66794]	arachidonic acid metabolism	33.33	6 of 18
[Ref.: #66794]	cyanate degradation	33.33	1 of 3
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	phenylpropanoid biosynthesis	30.77	4 of 13
[Ref.: #66794]	myo-inositol biosynthesis	30	3 of 10
[Ref.: #66794]	aclacinomycin biosynthesis	28.57	2 of 7
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	cholesterol biosynthesis	27.27	3 of 11
[Ref.: #66794]	carotenoid biosynthesis	27.27	6 of 22
[Ref.: #66794]	3-phenylpropionate degradation	26.67	4 of 15
[Ref.: #66794]	butanoate fermentation	25	1 of 4
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	degradation of sugar alcohols	25	4 of 16
[Ref.: #66794]	alginate biosynthesis	25	1 of 4
[Ref.: #66794]	catecholamine biosynthesis	25	1 of 4
[Ref.: #66794]	androgen and estrogen metabolism	25	4 of 16
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	23.08	3 of 13
[Ref.: #66794]	ascorbate metabolism	22.73	5 of 22
[Ref.: #66794]	4-hydroxymandelate degradation	22.22	2 of 9
[Ref.: #66794]	allantoin degradation	22.22	2 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	22.22	2 of 9
		Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #15628]	Sample type/isolated from	greenhouse soil
[Ref.: #15628]	Geographic location (country and/or sea, region)	Yongin region
[Ref.: #15628]	Country	Republic of Korea
[Ref.: #15628]	Country ISO 3 Code	KOR
[Ref.: #15628]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Agriculture	#Greenhouse
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

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

[Ref.: #15628]

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.: #15628]	Solitalea koreensis strain R2A36-4 16S ribosomal RNA gene, partial sequence	EU787448	1432	GenBank ENA	543615 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Solitalea koreensis DSM 21342	GCA_900182575	scaffold	GenBank ENA	543615 tax ID	*
[Ref.: #66792]	Solitalea koreensis strain DSM 21342	543615.3	wgs	PATRIC	543615 tax ID	*
[Ref.: #66792]	Solitalea koreensis DSM 21342	2724679707	draft	JGI IMG/M	543615 tax ID	*

[Ref.: #15628]	GC-content	38.1 mol%	high performance liquid chromatography (HPLC)
[Ref.: #29145]	GC-content	38.1 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: Solitalea koreensis DSM 21342 NCBI: GCA_900182575.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Solitalea koreensis DSM 21342 NCBI: GCA_900182575.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	96.968	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	97.407	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	86.753	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	90.409	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	96.035	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	90.095	yes

Availability in culture collections External links

[Ref.: #15628]

Culture collection no.

DSM 21342, KACC 12953

[Ref.: #83305]

SI-ID 405119

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Solitalea longa sp. nov., isolated from freshwater and emended description of the genus Solitalea.	Lee Y, Jeon CO	Int J Syst Evol Microbiol	10.1099/ijsem.0.002903	2018	*
Phylogeny	Solitalea koreensis gen. nov., sp. nov. and the reclassification of [Flexibacter] canadensis as Solitalea canadensis comb. nov.	Weon HY, Kim BY, Lee CM, Hong SB, Jeon YA, Koo BS, Kwon SW	Int J Syst Evol Microbiol	10.1099/ijs.0.007278-0	2009	*

References

#15628

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21342

#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 )

#29145

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 #25569 (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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#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 )

#83305

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-ID405119.1 )

#25569

IJSEM 1969 2009 ( DOI 10.1099/ijs.0.007278-0 , PubMed 19567567 )

* These data were automatically processed and therefore are not curated

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Solitalea koreensis DSM 21342

Solitalea koreensis DSM 21342

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