Name: Spirosoma knui 15J8-12
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 140567

Type strain:

Species: Spirosoma knui

Strain Designation: 15J8-12

Culture col. no.: JCM 31407, KCTC 52510

Strain history: H.-Y. Jung; Kyungpook Natl. Univ., South Korea; 15J8-12.

NCBI tax ID(s): 1837376 (species)

Special Collections

Section

Spirosoma knui 15J8-12 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from fresh water sample collected from the Han River.

colony-forming
Gram-negative
rod-shaped
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	*Bacteroidota*
	Class	*Cytophagia*
	Order	*Cytophagales*
	Family	*Spirosomataceae*
	Genus	*Spirosoma*
	Species	**Spirosoma knui**
	Full Scientific Name (LPSN)	Spirosoma knui Lee et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #43212]	Gram stain	negative

[Ref.: #43212]	Cell length	1.1-6.5 µm

[Ref.: #43212]	Cell width	0.8-1.0 µm

[Ref.: #43212]	Cell shape	rod-shaped

[Ref.: #43212]	Motility	no

[Ref.: #43212]	Colony color	yellowish
[Ref.: #43212]	Colony shape	circular
[Ref.: #43212]	Incubation period	3 days
[Ref.: #43212]	Cultivation medium used	R2A agar

Information on culture and growth conditions Culture and growth conditions

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Culture medium

Reasoner's 2A agar (R2A)

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Culture medium growth

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Culture medium

LB (Luria-Bertani) MEDIUM

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Culture medium growth

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Culture medium

TSA agar

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Culture medium growth

	Kind of temperature		Temperature
[Ref.: #43212]		growth	37 °C
[Ref.: #43212]		growth	30 °C
[Ref.: #43212]	inconsistent	growth	10 °C
[Ref.: #67770]		growth	25 °C

	pH	Kind of pH		pH
[Ref.: #43212]			growth	5-9

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43212]

Oxygen tolerance

aerobe

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Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43212]		NaCl		growth	0-1	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43212]	2-oxogluconate	-	assimilation
[Ref.: #43212]	2-oxogluconate	-	builds acid from
[Ref.: #43212]	3-hydroxybenzoate ChEBI	-	assimilation
[Ref.: #43212]	3-hydroxybutyrate ChEBI	-	assimilation
[Ref.: #43212]	4-hydroxybenzoate ChEBI	-	assimilation
[Ref.: #43212]	5-dehydro-D-gluconate ChEBI	-	assimilation
[Ref.: #43212]	5-dehydro-D-gluconate ChEBI	-	builds acid from
[Ref.: #43212]	acetate ChEBI	-	assimilation
[Ref.: #43212]	adipate ChEBI	-	assimilation
[Ref.: #43212]	amygdalin ChEBI	+	builds acid from
[Ref.: #43212]	arbutin ChEBI	+	builds acid from
[Ref.: #43212]	cellobiose ChEBI	+	builds acid from
[Ref.: #43212]	citrate ChEBI	-	assimilation
[Ref.: #43212]	D-arabinose ChEBI	+/-	builds acid from
[Ref.: #43212]	D-arabitol ChEBI	-	builds acid from
[Ref.: #43212]	D-fructose ChEBI	-	builds acid from
[Ref.: #43212]	D-fucose ChEBI	-	builds acid from
[Ref.: #43212]	D-galactose ChEBI	+	builds acid from
[Ref.: #43212]	D-glucose ChEBI	+	assimilation
[Ref.: #43212]	D-mannitol ChEBI	-	assimilation
[Ref.: #43212]	D-mannitol ChEBI	-	builds acid from
[Ref.: #43212]	D-mannose ChEBI	+	assimilation
[Ref.: #43212]	D-mannose ChEBI	+	builds acid from
[Ref.: #43212]	D-ribose ChEBI	-	assimilation
[Ref.: #43212]	D-ribose ChEBI	-	builds acid from
[Ref.: #43212]	D-sorbitol ChEBI	-	assimilation
[Ref.: #43212]	D-sorbitol ChEBI	-	builds acid from
[Ref.: #43212]	D-tagatose ChEBI	-	builds acid from
[Ref.: #43212]	D-trehalose ChEBI	+	builds acid from
[Ref.: #43212]	D-xylose ChEBI	+/-	builds acid from
[Ref.: #43212]	decanoate ChEBI	-	assimilation
[Ref.: #43212]	erythritol ChEBI	-	builds acid from
[Ref.: #43212]	esculin ChEBI	+	hydrolysis
[Ref.: #43212]	esculin ChEBI	+	builds acid from
[Ref.: #43212]	galactitol ChEBI	-	builds acid from
[Ref.: #43212]	gelatin ChEBI	-	hydrolysis
[Ref.: #43212]	gentiobiose ChEBI	+	builds acid from
[Ref.: #43212]	gluconate ChEBI	-	assimilation
[Ref.: #43212]	glucose ChEBI	-	fermentation
[Ref.: #43212]	glycerol ChEBI	-	builds acid from
[Ref.: #43212]	glycogen ChEBI	-	assimilation
[Ref.: #43212]	glycogen ChEBI	+	builds acid from
[Ref.: #43212]	inulin ChEBI	+	builds acid from
[Ref.: #43212]	itaconate ChEBI	-	assimilation
[Ref.: #43212]	L-alanine ChEBI	-	assimilation
[Ref.: #43212]	L-arabinose ChEBI	-	assimilation
[Ref.: #43212]	L-arabinose ChEBI	+/-	builds acid from
[Ref.: #43212]	L-arabitol ChEBI	-	builds acid from
[Ref.: #43212]	L-fucose ChEBI	-	assimilation
[Ref.: #43212]	L-fucose ChEBI	-	builds acid from
[Ref.: #43212]	L-histidine ChEBI	-	assimilation
[Ref.: #43212]	L-malate ChEBI	-	assimilation
[Ref.: #43212]	L-proline-4-nitroanilide	-	assimilation
[Ref.: #43212]	L-rhamnose ChEBI	-	assimilation
[Ref.: #43212]	L-rhamnose ChEBI	-	builds acid from
[Ref.: #43212]	L-serine ChEBI	-	assimilation
[Ref.: #43212]	L-sorbose ChEBI	-	builds acid from
[Ref.: #43212]	L-xylose ChEBI	-	builds acid from
[Ref.: #43212]	lactate ChEBI	-	assimilation
[Ref.: #43212]	lactose ChEBI	+	builds acid from
[Ref.: #43212]	malonate ChEBI	-	assimilation
[Ref.: #43212]	maltose ChEBI	+	assimilation
[Ref.: #43212]	maltose ChEBI	+	builds acid from
[Ref.: #43212]	melezitose ChEBI	-	builds acid from
[Ref.: #43212]	melibiose ChEBI	+	assimilation
[Ref.: #43212]	melibiose ChEBI	+	builds acid from
[Ref.: #43212]	methyl alpha-D-glucopyranoside ChEBI	+	builds acid from
[Ref.: #43212]	methyl alpha-D-mannoside ChEBI	+	builds acid from
[Ref.: #43212]	methyl beta-D-xylopyranoside ChEBI	-	builds acid from
[Ref.: #43212]	myo-inositol ChEBI	-	assimilation
[Ref.: #43212]	myo-inositol ChEBI	-	builds acid from
[Ref.: #43212]	N-acetylglucosamine ChEBI	+	assimilation
[Ref.: #43212]	N-acetylglucosamine ChEBI	+	builds acid from
[Ref.: #43212]	nitrate ChEBI	-	reduction
[Ref.: #43212]	phenylacetate ChEBI	-	assimilation
[Ref.: #43212]	potassium gluconate ChEBI	-	builds acid from
[Ref.: #43212]	propionate ChEBI	-	assimilation
[Ref.: #43212]	raffinose ChEBI	+	builds acid from
[Ref.: #43212]	ribitol ChEBI	-	builds acid from
[Ref.: #43212]	salicin ChEBI	+	assimilation
[Ref.: #43212]	salicin ChEBI	+	builds acid from
[Ref.: #43212]	starch ChEBI	+/-	builds acid from
[Ref.: #43212]	suberic acid ChEBI	-	assimilation
[Ref.: #43212]	sucrose ChEBI	+	assimilation
[Ref.: #43212]	sucrose ChEBI	+	builds acid from
[Ref.: #43212]	turanose ChEBI	+	builds acid from
[Ref.: #43212]	urea ChEBI	-	hydrolysis
[Ref.: #43212]	valerate ChEBI	-	assimilation
[Ref.: #43212]	xylitol ChEBI	-	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #43212]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #43212]	acid phosphatase	+	3.1.3.2
[Ref.: #43212]	alkaline phosphatase	+	3.1.3.1
[Ref.: #43212]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #43212]	alpha-fucosidase	-	3.2.1.51
[Ref.: #43212]	alpha-galactosidase	+	3.2.1.22
[Ref.: #43212]	alpha-glucosidase	+	3.2.1.20
[Ref.: #43212]	alpha-mannosidase	+	3.2.1.24
[Ref.: #43212]	arginine dihydrolase	-	3.5.3.6
[Ref.: #43212]	beta-galactosidase	+	3.2.1.23
[Ref.: #43212]	beta-glucosidase	+	3.2.1.21
[Ref.: #43212]	beta-glucuronidase	-	3.2.1.31
[Ref.: #43212]	catalase	+	1.11.1.6
[Ref.: #43212]	cystine arylamidase	+	3.4.11.3
[Ref.: #43212]	cytochrome oxidase	+	1.9.3.1
[Ref.: #43212]	esterase (C 4)	+/-
[Ref.: #43212]	esterase Lipase (C 8)	+/-
[Ref.: #43212]	leucine arylamidase	+	3.4.11.1
[Ref.: #43212]	lipase (C 14)	-
[Ref.: #43212]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #43212]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #43212]	trypsin	+	3.4.21.4
[Ref.: #43212]	urease	-	3.5.1.5
[Ref.: #43212]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #43212]

Fatty acid	Percentage
C16:1ω7c / C16:1ω6c	40.5
C16:1ω5c	35.3
C15:0 iso	6.9
C16:0	6.8
C15:0 anteiso	2.6
C13:1 at 12-13	2.1
C18:0	2
C14:0	1.3
C17:0 iso 3OH	1

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

[Ref.: #43212]	Sample type/isolated from	fresh water sample collected from the Han River
[Ref.: #43212]	Geographic location (country and/or sea, region)	Han River, South Korea
[Ref.: #43212]	Country	Republic of Korea
[Ref.: #43212]	Country ISO 3 Code	KOR
[Ref.: #43212]	Continent	Asia
[Ref.: #43212]	Geographic location	37.0000°/126.0000°

[Ref.: #67770]	Sample type/isolated from	Water from the Han River
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Freshwater
#Environmental	#Aquatic	#River (Creek)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence LC148303 (>99% sequence identity) for Spirosoma knui subclade from Microbeatlas

Aquatic Samples	49
Soil Samples	70
Animal Samples	76
Plant Samples	23
Total Samples	218

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.: #43212]	Spirosoma knui gene for 16S ribosomal RNA, partial sequence	LC148303	1444	GenBank ENA	1837376 tax ID

[Ref.: #43212]

GC-content

51.3 mol%

high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #43212]

Culture collection no.

JCM 31407, KCTC 52510

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Spirosoma pomorum sp. nov., isolated from apple orchard soil.	Li W, Lee SY, Kang IK, Ten LN, Jung HY	J Microbiol	10.1007/s12275-018-7430-y	2018	*
Phylogeny	Spirosoma koreense sp. nov., a species of the family Cytophagaceae isolated from beach soil.	Ten LN, Okiria J, Lee JJ, Lee SY, Kang IK, Lee DS, Jung HY	Int J Syst Evol Microbiol	10.1099/ijsem.0.002440	2017	*
Phylogeny	Spirosoma metallicus sp. nov., isolated from an automobile air conditioning system.	Lee H, Kim DU, Lee S, Park S, Yoon JH, Park SY, Ka JO	J Microbiol	10.1007/s12275-017-7162-4	2017	*
Phylogeny	Spirosoma knui sp. nov., a radiation-resistant bacterium isolated from the Han River.	Lee JJ, Lee YH, Park SJ, Lee SY, Kim BO, Ten LN, Kim MK, Jung HY	Int J Syst Evol Microbiol	10.1099/ijsem.0.001817	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 )

#43212

Jae-Jin Lee, Yeon-Hee Lee, Su-Jin Park, Seung-Yeol Lee, Byung-Oh Kim, Leonid N. Ten, Myung Kyum Kim and Hee-Young Jung: Spirosoma knui sp. nov., a radiation-resistant bacterium isolated from the Han River. IJSEM 67: 1359 - 1365 2017 ( DOI 10.1099/ijsem.0.001817 , PubMed 28113041 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 .

* These data were automatically processed and therefore are not curated

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