Name: Kaistia soli 5YN9-8
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 13565

Type strain:

Species: Kaistia soli

Strain Designation: 5YN9-8

Culture col. no.: DSM 19436, KACC 12605

Strain history: <- S.-W. Kwon, KACC; 5YN9-8 <- H.-Y. Weon, Natl. Inst. Agricult. Sci. and Technol., Suwon, Korea

NCBI tax ID(s): 1122133 (strain), 446684 (species)

SI-ID 403754

DSM 19436

Other strains from Kaistia soli

K. soli STH00153(ZIMET), HKI 0153

Section

Kaistia soli 5YN9-8 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from peat layer .

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	*Alphaproteobacteria*
	Order	*Hyphomicrobiales*
	Family	*Kaistiaceae*
	Genus	*Kaistia*
	Species	**Kaistia soli**
	Full Scientific Name (LPSN)	Kaistia soli Weon et al. 2008

Information on morphological and physiological properties Morphology

[Ref.: #32352]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.968

[Ref.: #32352]	Cell length	1.5 µm

[Ref.: #32352]	Cell width	1.05 µm

[Ref.: #32352]	Cell shape	rod-shaped

[Ref.: #32352]	Motility	no

[Ref.: #32352]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8015]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #8015]

Culture medium growth

[Ref.: #8015]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8015]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #8015]	growth	28 °C
[Ref.: #32352]	growth	05-40 °C
[Ref.: #32352]	optimum	29 °C

[Ref.: #8015]	Temperature range	mesophilic
[Ref.: #32352]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32352]			optimum	6.5
[Ref.: #32352]			growth	05-08

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32352]

Oxygen tolerance

aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.975

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32352]		NaCl		growth	0-2	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32352]	arabinose ChEBI	+	carbon source
[Ref.: #32352]	fucose ChEBI	+	carbon source
[Ref.: #32352]	glucose ChEBI	+	carbon source
[Ref.: #32352]	glycogen ChEBI	+	carbon source
[Ref.: #32352]	lactate ChEBI	+	carbon source
[Ref.: #32352]	malate ChEBI	+	carbon source
[Ref.: #32352]	maltose ChEBI	+	carbon source
[Ref.: #32352]	mannitol ChEBI	+	carbon source
[Ref.: #32352]	mannose ChEBI	+	carbon source
[Ref.: #32352]	melibiose ChEBI	+	carbon source
[Ref.: #32352]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #32352]	rhamnose ChEBI	+	carbon source
[Ref.: #32352]	ribose ChEBI	+	carbon source
[Ref.: #32352]	salicin ChEBI	+	carbon source
[Ref.: #32352]	sorbitol ChEBI	+	carbon source
[Ref.: #32352]	sucrose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #32352]	acid phosphatase	+	3.1.3.2
[Ref.: #32352]	catalase	+	1.11.1.6
[Ref.: #32352]	cytochrome oxidase	+	1.9.3.1

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	acetoin degradation	100	3 of 3
[Ref.: #66794]	Entner Doudoroff pathway	100	10 of 10
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	threonine metabolism	100	10 of 10
[Ref.: #66794]	ethanol fermentation	100	2 of 2
[Ref.: #66794]	4-hydroxymandelate degradation	100	9 of 9
[Ref.: #66794]	glycogen metabolism	100	5 of 5
[Ref.: #66794]	acetate fermentation	100	4 of 4
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	butanoate fermentation	100	4 of 4
[Ref.: #66794]	molybdenum cofactor biosynthesis	100	9 of 9
[Ref.: #66794]	resorcinol degradation	100	2 of 2
[Ref.: #66794]	quinate degradation	100	2 of 2
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	sulfoquinovose degradation	100	3 of 3
[Ref.: #66794]	pentose phosphate pathway	100	11 of 11
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	ribulose monophosphate pathway	100	2 of 2
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	C4 and CAM-carbon fixation	100	8 of 8
[Ref.: #66794]	allantoin degradation	100	9 of 9
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	citric acid cycle	92.86	13 of 14
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	91.67	11 of 12
[Ref.: #66794]	valine metabolism	88.89	8 of 9
[Ref.: #66794]	serine metabolism	88.89	8 of 9
[Ref.: #66794]	d-mannose degradation	88.89	8 of 9
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	degradation of sugar acids	88	22 of 25
[Ref.: #66794]	ketogluconate metabolism	87.5	7 of 8
[Ref.: #66794]	propanol degradation	85.71	6 of 7
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	glutamate and glutamine metabolism	85.71	24 of 28
[Ref.: #66794]	photosynthesis	85.71	12 of 14
[Ref.: #66794]	phenylalanine metabolism	84.62	11 of 13
[Ref.: #66794]	pyrimidine metabolism	84.44	38 of 45
[Ref.: #66794]	NAD metabolism	83.33	15 of 18
[Ref.: #66794]	alanine metabolism	82.76	24 of 29
[Ref.: #66794]	glycolysis	82.35	14 of 17
[Ref.: #66794]	proline metabolism	81.82	9 of 11
[Ref.: #66794]	purine metabolism	80.85	76 of 94
[Ref.: #66794]	myo-inositol biosynthesis	80	8 of 10
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	cellulose degradation	80	4 of 5
[Ref.: #66794]	flavin biosynthesis	80	12 of 15
[Ref.: #66794]	gallate degradation	80	4 of 5
[Ref.: #66794]	vitamin B12 metabolism	79.41	27 of 34
[Ref.: #66794]	heme metabolism	78.57	11 of 14
[Ref.: #66794]	glutathione metabolism	78.57	11 of 14
[Ref.: #66794]	CO2 fixation in Crenarchaeota	77.78	7 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	77.78	7 of 9
[Ref.: #66794]	leucine metabolism	76.92	10 of 13
[Ref.: #66794]	vitamin B1 metabolism	76.92	10 of 13
[Ref.: #66794]	histidine metabolism	75.86	22 of 29
[Ref.: #66794]	degradation of pentoses	75	21 of 28
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	dTDPLrhamnose biosynthesis	75	6 of 8
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	d-xylose degradation	72.73	8 of 11
[Ref.: #66794]	vitamin B6 metabolism	72.73	8 of 11
[Ref.: #66794]	degradation of hexoses	72.22	13 of 18
[Ref.: #66794]	ubiquinone biosynthesis	71.43	5 of 7
[Ref.: #66794]	non-pathway related	71.05	27 of 38
[Ref.: #66794]	tryptophan metabolism	71.05	27 of 38
[Ref.: #66794]	propionate fermentation	70	7 of 10
[Ref.: #66794]	starch degradation	70	7 of 10
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	69.23	9 of 13
[Ref.: #66794]	oxidative phosphorylation	69.23	63 of 91
[Ref.: #66794]	lipid metabolism	67.74	21 of 31
[Ref.: #66794]	IAA biosynthesis	66.67	2 of 3
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	3-phenylpropionate degradation	66.67	10 of 15
[Ref.: #66794]	glycolate and glyoxylate degradation	66.67	4 of 6
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	66.67	2 of 3
[Ref.: #66794]	methionine metabolism	65.38	17 of 26
[Ref.: #66794]	tetrahydrofolate metabolism	64.29	9 of 14
[Ref.: #66794]	tyrosine metabolism	64.29	9 of 14
[Ref.: #66794]	arginine metabolism	62.5	15 of 24
[Ref.: #66794]	degradation of sugar alcohols	62.5	10 of 16
[Ref.: #66794]	urea cycle	61.54	8 of 13
[Ref.: #66794]	cysteine metabolism	61.11	11 of 18
[Ref.: #66794]	lipoate biosynthesis	60	3 of 5
[Ref.: #66794]	phenol degradation	60	12 of 20
[Ref.: #66794]	hydrogen production	60	3 of 5
[Ref.: #66794]	coenzyme M biosynthesis	60	6 of 10
[Ref.: #66794]	ascorbate metabolism	59.09	13 of 22
[Ref.: #66794]	isoprenoid biosynthesis	57.69	15 of 26
[Ref.: #66794]	lysine metabolism	54.76	23 of 42
[Ref.: #66794]	sulfate reduction	53.85	7 of 13
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	cyclohexanol degradation	50	2 of 4
[Ref.: #66794]	lactate fermentation	50	2 of 4
[Ref.: #66794]	biotin biosynthesis	50	2 of 4
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	bile acid biosynthesis, neutral pathway	47.06	8 of 17
[Ref.: #66794]	metabolism of disaccharids	45.45	5 of 11
[Ref.: #66794]	arachidonic acid metabolism	44.44	8 of 18
[Ref.: #66794]	nitrate assimilation	44.44	4 of 9
[Ref.: #66794]	androgen and estrogen metabolism	43.75	7 of 16
[Ref.: #66794]	cardiolipin biosynthesis	42.86	3 of 7
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	glycine betaine biosynthesis	40	2 of 5
[Ref.: #66794]	creatinine degradation	40	2 of 5
[Ref.: #66794]	metabolism of amino sugars and derivatives	40	2 of 5
[Ref.: #66794]	bacilysin biosynthesis	40	2 of 5
[Ref.: #66794]	4-hydroxyphenylacetate degradation	40	4 of 10
[Ref.: #66794]	3-chlorocatechol degradation	40	2 of 5
[Ref.: #66794]	D-cycloserine biosynthesis	40	2 of 5
[Ref.: #66794]	ethylmalonyl-CoA pathway	40	2 of 5
[Ref.: #66794]	carnitine metabolism	37.5	3 of 8
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	phenylpropanoid biosynthesis	30.77	4 of 13
[Ref.: #66794]	benzoyl-CoA degradation	28.57	2 of 7
[Ref.: #66794]	polyamine pathway	26.09	6 of 23
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	catecholamine biosynthesis	25	1 of 4
[Ref.: #66794]	daunorubicin 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.: #8015]	Sample type/isolated from	peat layer (wetland located about 1200 m above sea level)
[Ref.: #8015]	Geographic location (country and/or sea, region)	Yongneup (38° 12' 53'' N 128° 07' 30'' E)
[Ref.: #8015]	Country	Republic of Korea
[Ref.: #8015]	Country ISO 3 Code	KOR
[Ref.: #8015]	Continent	Asia
[Ref.: #8015]	Geographic location	38.2147°/128.1250°
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Wetland (Swamp)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence EF592609 (>99% sequence identity) for Kaistia soli from Microbeatlas

Aquatic Samples	358
Soil Samples	597
Animal Samples	124
Plant Samples	153
Total Samples	1232

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

[Ref.: #8015]

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.: #8015]	Kaistia soli strain 5YN9-8 16S ribosomal RNA gene, partial sequence	EF592609	1391	ENA	1122133 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Kaistia soli DSM 19436	GCA_900129325	scaffold	GenBank	1122133 tax ID	*
[Ref.: #66792]	Kaistia soli DSM 19436	1122133.4	wgs	PATRIC	1122133 tax ID	*
[Ref.: #66792]	Kaistia soli DSM 19436	2582581302	draft	JGI IMG/M	1122133 tax ID	*

[Ref.: #8015]	GC-content	67.0 mol%
[Ref.: #32352]	GC-content	67 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: Kaistia soli DSM 19436 DSM 19436 NCBI: GCA_900129325.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Kaistia soli DSM 19436 DSM 19436 NCBI: GCA_900129325.1
[Ref.: #69480]	motile	no	85.648	yes
[Ref.: #69480]	flagellated	no	96.741	yes
[Ref.: #69480]	gram-positive	no	96.889	yes
[Ref.: #69480]	anaerobic	no	99.198	no
[Ref.: #69480]	aerobic	yes	90.17	no
[Ref.: #69480]	halophile	no	92.971	no
[Ref.: #69480]	spore-forming	no	96.295	no
[Ref.: #69480]	thermophile	no	96.355	no
[Ref.: #69480]	glucose-util	yes	93.464	no
[Ref.: #69480]	glucose-ferment	no	90.61	no

Availability in culture collections External links

[Ref.: #8015]

Culture collection no.

DSM 19436, KACC 12605

[Ref.: #82753]

SI-ID 403754

Literature:

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

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Kaistia algarum sp. nov., isolated from a freshwater green alga Paulinella chromatophora.	Lee Y, Jeon CO	Int J Syst Evol Microbiol	10.1099/ijsem.0.002943	2018	*
Phylogeny	Pinisolibacter ravus gen. nov., sp. nov., isolated from pine forest soil and allocation of the genera Ancalomicrobium and Pinisolibacter to the family Ancalomicrobiaceae fam. nov., and emendation of the genus Ancalomicrobium Staley 1968.	Dahal RH, Chaudhary DK, Kim J	Int J Syst Evol Microbiol	10.1099/ijsem.0.002772	2018	*
Phylogeny	Pseudoxanthobacter liyangensis sp. nov., isolated from dichlorodiphenyltrichloroethane-contaminated soil.	Liu XM, Chen K, Meng C, Zhang L, Zhu JC, Huang X, Li SP, Jiang JD	Int J Syst Evol Microbiol	10.1099/ijs.0.056507-0	2014	*
Phylogeny	Kaistia defluvii sp. nov., isolated from river sediment.	Jin L, Kim KK, Lee HG, Ahn CY, Oh HM	Int J Syst Evol Microbiol	10.1099/ijs.0.038687-0	2012	*
Phylogeny	Kaistia geumhonensis sp. nov. and Kaistia dalseonensis sp. nov., two members of the class Alphaproteobacteria.	Jin L, Kim KK, Baek SH, Lee ST	Int J Syst Evol Microbiol	10.1099/ijs.0.028894-0	2010	*
Phylogeny	Kaistia terrae sp. nov., isolated from a wetland in Korea.	Kim SJ, Weon HY, Kim YS, Anandham R, Yoo SH, Park IC, Kwon SW	Int J Syst Evol Microbiol	10.1099/ijs.0.011924-0	2009	*
Phylogeny	Kaistia soli sp. nov., isolated from a wetland in Korea.	Weon HY, Lee CM, Hong SB, Kim BY, Yoo SH, Kwon SW, Go SJ	Int J Syst Evol Microbiol	10.1099/ijs.0.65366-0	2008	*

References

#8015

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19436

#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 )

#32352

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 #28582 (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 )

#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 )

#82753

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-ID403754.1 )

#28582

IJSEM 1522 2008 ( DOI 10.1099/ijs.0.65366-0 , PubMed 18599687 )

* These data were automatically processed and therefore are not curated

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Kaistia soli DSM 19436 DSM 19436

Kaistia soli DSM 19436 DSM 19436

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