Name: Pseudokineococcus basanitobsidens SKC1-2
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 141047

Type strain:

Species: Pseudokineococcus basanitobsidens

Strain Designation: SKC1-2

Culture col. no.: DSM 103726, KCCM 43221

Strain history: <- B. S. Kim, Korea Univ., Seoul; SKC1-2 <- D. W. Lee and B. S. Kim

NCBI tax ID(s): 1926649 (species)

SI-ID 406412

DSM 103726

Section

Pseudokineococcus basanitobsidens SKC1-2 is an aerobe, Gram-positive, motile bacterium that forms circular colonies and was isolated from volcanic rock of the scoria cone of Seobjikoji, Jeju, Republic of Korea.

coccus-shaped
colony-forming
Gram-positive
motile
aerobe
16S sequence
Bacteria

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	*Actinomycetes*
	Order	*Kineosporiales*
	Family	*Kineosporiaceae*
	Genus	*Pseudokineococcus*
	Species	**Pseudokineococcus basanitobsidens**
	Full Scientific Name (LPSN)	Pseudokineococcus basanitobsidens Lee et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #43927]	Gram stain	positive

[Ref.: #43927]	Cell length	1.3-1.5 µm

[Ref.: #43927]	Cell width	1.3-1.5 µm

[Ref.: #43927]	Cell shape	coccus-shaped

[Ref.: #43927]	Motility	yes

[Ref.: #43927]	Colony color	dark orange
[Ref.: #43927]	Colony shape	circular
[Ref.: #43927]	Incubation period	5 days
[Ref.: #43927]	Cultivation medium used	Yeast extract-malt extract agar

Information on culture and growth conditions Culture and growth conditions

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Culture medium

Yeast extract-malt extract agar

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Culture medium growth

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Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

		Temperature
[Ref.: #43927]	growth	4-37 °C
[Ref.: #43927]	optimum	28 °C
[Ref.: #64893]	growth	28 °C

[Ref.: #43927]	Temperature range	mesophilic
[Ref.: #64893]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #43927]			optimum	7.0-8.0
[Ref.: #43927]			growth	5.0-11.0

Information on physiology and metabolism Physiology and metabolism

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Oxygen tolerance

aerobe

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Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43927]		NaCl		growth	0-7	%(w/v)
[Ref.: #43927]		NaCl		optimum	0-2	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43927]	(R)-lactate ChEBI	+	carbon source
[Ref.: #43927]	(S)-lactate ChEBI	-	carbon source
[Ref.: #43927]	2,3-butanediol ChEBI	-	carbon source
[Ref.: #43927]	2-deoxyadenosine ChEBI	-	carbon source
[Ref.: #43927]	2-hydroxybutyrate ChEBI	+	carbon source
[Ref.: #43927]	2-oxoglutarate ChEBI	-	carbon source
[Ref.: #43927]	2-oxopentanoate ChEBI	-	carbon source
[Ref.: #43927]	4-hydroxybutyrate ChEBI	-	carbon source
[Ref.: #43927]	4-hydroxyphenylacetic acid ChEBI	-	carbon source
[Ref.: #43927]	acetate ChEBI	+	carbon source
[Ref.: #43927]	adenosine ChEBI	+	carbon source
[Ref.: #43927]	alpha-cyclodextrin ChEBI	-	carbon source
[Ref.: #43927]	alpha-D-glucose ChEBI	-	carbon source
[Ref.: #43927]	alpha-D-glucose 6-phosphate ChEBI	-	carbon source
[Ref.: #43927]	amp ChEBI	-	carbon source
[Ref.: #43927]	amygdalin ChEBI	-	carbon source
[Ref.: #43927]	arbutin ChEBI	+	carbon source
[Ref.: #43927]	beta-cyclodextrin ChEBI	-	carbon source
[Ref.: #43927]	beta-hydroxybutyrate ChEBI	-	carbon source
[Ref.: #43927]	carboxymethylcellulose ChEBI	-	hydrolysis
[Ref.: #43927]	casein	+	hydrolysis
[Ref.: #43927]	cellobiose ChEBI	-	carbon source
[Ref.: #43927]	D-alanine ChEBI	+	carbon source
[Ref.: #43927]	D-arabitol ChEBI	-	carbon source
[Ref.: #43927]	D-fructose ChEBI	-	carbon source
[Ref.: #43927]	D-fructose 6-phosphate ChEBI	-	carbon source
[Ref.: #43927]	D-galactose ChEBI	-	carbon source
[Ref.: #43927]	D-galacturonic acid ChEBI	-	carbon source
[Ref.: #43927]	D-gluconate ChEBI	+	carbon source
[Ref.: #43927]	D-glucose 6-phosphate ChEBI	-	carbon source
[Ref.: #43927]	D-malate ChEBI	-	carbon source
[Ref.: #43927]	D-mannitol ChEBI	+	carbon source
[Ref.: #43927]	D-mannose ChEBI	-	carbon source
[Ref.: #43927]	D-psicose ChEBI	+	carbon source
[Ref.: #43927]	D-ribose ChEBI	-	carbon source
[Ref.: #43927]	D-sorbitol ChEBI	-	carbon source
[Ref.: #43927]	D-tagatose ChEBI	-	carbon source
[Ref.: #43927]	D-xylose ChEBI	-	carbon source
[Ref.: #43927]	dextrin ChEBI	+	carbon source
[Ref.: #43927]	dna ChEBI	-	hydrolysis
[Ref.: #43927]	esculin ChEBI	+	hydrolysis
[Ref.: #43927]	gelatin ChEBI	+	hydrolysis
[Ref.: #43927]	gentiobiose ChEBI	-	carbon source
[Ref.: #43927]	glycerol 1-phosphate ChEBI	-	carbon source
[Ref.: #43927]	glycerol 3-phosphate ChEBI	-	carbon source
[Ref.: #43927]	glycogen ChEBI	-	carbon source
[Ref.: #43927]	glycyl-l-glutamate ChEBI	-	carbon source
[Ref.: #43927]	hypoxanthine ChEBI	-	hydrolysis
[Ref.: #43927]	inosine ChEBI	-	carbon source
[Ref.: #43927]	inulin ChEBI	-	carbon source
[Ref.: #43927]	L-alaninamide ChEBI	-	carbon source
[Ref.: #43927]	L-alanine ChEBI	+	carbon source
[Ref.: #43927]	L-alanylglycine ChEBI	-	carbon source
[Ref.: #43927]	L-arabinose ChEBI	-	carbon source
[Ref.: #43927]	L-asparagine ChEBI	-	carbon source
[Ref.: #43927]	L-fucose ChEBI	-	carbon source
[Ref.: #43927]	L-glutamate ChEBI	-	carbon source
[Ref.: #43927]	L-malate ChEBI	-	carbon source
[Ref.: #43927]	L-pyroglutamic acid ChEBI	-	carbon source
[Ref.: #43927]	L-rhamnose ChEBI	+	carbon source
[Ref.: #43927]	L-serine ChEBI	-	carbon source
[Ref.: #43927]	lactamide ChEBI	-	carbon source
[Ref.: #43927]	lactose ChEBI	-	carbon source
[Ref.: #43927]	lactulose ChEBI	-	carbon source
[Ref.: #43927]	maltose ChEBI	-	carbon source
[Ref.: #43927]	maltotriose ChEBI	+	carbon source
[Ref.: #43927]	mannan ChEBI	-	carbon source
[Ref.: #43927]	melezitose ChEBI	-	carbon source
[Ref.: #43927]	melibiose ChEBI	-	carbon source
[Ref.: #43927]	methyl alpha-D-galactoside ChEBI	-	carbon source
[Ref.: #43927]	methyl alpha-D-glucopyranoside ChEBI	-	carbon source
[Ref.: #43927]	methyl alpha-D-mannoside ChEBI	-	carbon source
[Ref.: #43927]	methyl beta-D-galactoside ChEBI	-	carbon source
[Ref.: #43927]	methyl beta-D-glucopyranoside ChEBI	+	carbon source
[Ref.: #43927]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #43927]	monomethyl succinate ChEBI	-	carbon source
[Ref.: #43927]	myo-inositol ChEBI	-	carbon source
[Ref.: #43927]	N-acetyl-D-mannosamine ChEBI	-	carbon source
[Ref.: #43927]	N-acetyl-L-glutamate ChEBI	-	carbon source
[Ref.: #43927]	N-acetylglucosamine ChEBI	-	carbon source
[Ref.: #43927]	palatinose ChEBI	+	carbon source
[Ref.: #43927]	propionate ChEBI	+	carbon source
[Ref.: #43927]	putrescine ChEBI	-	carbon source
[Ref.: #43927]	pyruvate ChEBI	-	carbon source
[Ref.: #43927]	raffinose ChEBI	+	carbon source
[Ref.: #43927]	salicin ChEBI	+	carbon source
[Ref.: #43927]	sedoheptulosan	-	carbon source
[Ref.: #43927]	stachyose ChEBI	-	carbon source
[Ref.: #43927]	starch ChEBI	+	hydrolysis
[Ref.: #43927]	succinamate ChEBI	-	carbon source
[Ref.: #43927]	succinate ChEBI	-	carbon source
[Ref.: #43927]	sucrose ChEBI	-	carbon source
[Ref.: #43927]	thymidine ChEBI	-	carbon source
[Ref.: #43927]	thymidine 5'-monophosphate ChEBI	-	carbon source
[Ref.: #43927]	trehalose ChEBI	-	carbon source
[Ref.: #43927]	turanose ChEBI	+	carbon source
[Ref.: #43927]	tween 40 ChEBI	+	carbon source
[Ref.: #43927]	tween 80 ChEBI	-	carbon source
[Ref.: #43927]	uridine ChEBI	-	carbon source
[Ref.: #43927]	uridine 5'-monophosphate ChEBI	-	carbon source
[Ref.: #43927]	xanthine ChEBI	-	hydrolysis
[Ref.: #43927]	xylitol ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #43927]		hydrogen sulfide ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #43927]	acid phosphatase	-	3.1.3.2
[Ref.: #43927]	alkaline phosphatase	-	3.1.3.1
[Ref.: #43927]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #43927]	alpha-fucosidase	-	3.2.1.51
[Ref.: #43927]	alpha-galactosidase	-	3.2.1.22
[Ref.: #43927]	alpha-glucosidase	+	3.2.1.20
[Ref.: #43927]	alpha-mannosidase	+	3.2.1.24
[Ref.: #43927]	beta-galactosidase	-	3.2.1.23
[Ref.: #43927]	beta-glucosidase	+	3.2.1.21
[Ref.: #43927]	beta-glucuronidase	-	3.2.1.31
[Ref.: #43927]	catalase		1.11.1.6
[Ref.: #43927]	cystine arylamidase	-	3.4.11.3
[Ref.: #43927]	cytochrome oxidase	-	1.9.3.1
[Ref.: #43927]	esterase (C 4)	+
[Ref.: #43927]	esterase Lipase (C 8)	+
[Ref.: #43927]	leucine arylamidase	-	3.4.11.1
[Ref.: #43927]	lipase (C 14)	-
[Ref.: #43927]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #43927]	naphthol-AS-BI-phosphohydrolase	-
[Ref.: #43927]	trypsin	-	3.4.21.4
[Ref.: #43927]	valine arylamidase	-
	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.: #43927]	Sample type/isolated from	volcanic rock of the scoria cone of Seobjikoji, Jeju, Republic of Korea
[Ref.: #43927]	Geographic location (country and/or sea, region)	Seobjikoji, Jeju
[Ref.: #43927]	Country	Republic of Korea
[Ref.: #43927]	Country ISO 3 Code	KOR
[Ref.: #43927]	Continent	Asia
[Ref.: #43927]	Enrichment culture	starch-casein agar
[Ref.: #43927]	Enrichment culture composition	1.0 % soluble starch, 0.03 % casein, 0.2 % KNO3, 0.2 % NaCl, 0.2 % KH2PO4, 0.002 % CaCO3, 0.005 % MgSO4.7H2O, 0.001 % FeSO4.7H2O, 1.8 % agar, pH 7.2, supplemented with 0.5 mg/mL cyclohexamide
[Ref.: #43927]	Enrichment culture duration	2 weeks
[Ref.: #43927]	Enrichment culture temperature	28 ̊C

[Ref.: #64893]	Sample type/isolated from	volcanic rock of a scoria cone
[Ref.: #64893]	Geographic location (country and/or sea, region)	Jeju, Seobjikoj
[Ref.: #64893]	Country	Republic of Korea
[Ref.: #64893]	Country ISO 3 Code	KOR
[Ref.: #64893]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Volcanic

What are isolation sources categories?

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Global distribution of 16S sequence KY244028 (>99% sequence identity) for Pseudokineococcus basanitobsidens from Microbeatlas

Aquatic Samples	20
Soil Samples	16
Animal Samples	80
Plant Samples	14
Total Samples	130

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

[Ref.: #64893]

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.: #64893]	Pseudokineococcus basanitobsidens strain SKC1-2 16S ribosomal RNA gene, partial sequence	KY244028	1434	ENA	1926649 tax ID

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GC-content

74.9 mol%

high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #64893]

Culture collection no.

DSM 103726, KCCM 43221

[Ref.: #96847]

SI-ID 406412

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pseudokineococcus galaxeicola sp. nov., isolated from mucus of a stony coral.	Li Q, Zheng Y, Guo A, Chen Y, Zhang S, Li J	Int J Syst Evol Microbiol	10.1099/ijsem.0.004460	2020	*
Phylogeny	Pseudokineococcus basanitobsidens sp. nov., isolated from volcanic rock.	Lee DW, Park MY, Kim JJ, Kim BS	Int J Syst Evol Microbiol	10.1099/ijsem.0.002206	2017	*

References

#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 )

#43927

Dong Wan Lee, Min Young Park, Jae-Jin Kim, Beom Seok Kim: Pseudokineococcus basanitobsidens sp. nov., isolated from volcanic rock. IJSEM 67: 3824 - 3828 2017 ( DOI 10.1099/ijsem.0.002206 , PubMed 28879845 )

#64893

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 103726

#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 .

#96847

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-ID406412.1 )

* These data were automatically processed and therefore are not curated

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