Name: Kibdelosporangium kanagawaense K08-0175
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 140582

Type strain:

Species: Kibdelosporangium kanagawaense

Strain Designation: K08-0175

Culture col. no.: DSM 103925, TBRC 6786, NBRC 112388

Strain history: <- A. Matsumoto, Kitasato Univ., Tokyo, Japan; K8-0175 <- A. Fukada; K8-0175

NCBI tax ID(s): 1882231 (species)

SI-ID 400701

DSM 103925

Section

Kibdelosporangium kanagawaense K08-0175 is an aerobe, spore-forming, Gram-positive bacterium that builds a substrate mycelium and was isolated from plant root sample of Ophiopogon japonicus.

Gram-positive
spore-forming
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	*Pseudonocardiales*
	Family	*Pseudonocardiaceae*
	Genus	*Kibdelosporangium*
	Species	**Kibdelosporangium kanagawaense**
	Full Scientific Name (LPSN)	Kibdelosporangium kanagawaense Mingma et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #43258]	Gram stain	positive

[Ref.: #43258]	Motility	no

[Ref.: #43258]	Pigment production	no
[Ref.: #43258]	Pigment name	Soluble pigments
[Ref.: #43258]	Pigment production	no
[Ref.: #43258]	Pigment name	Melanin

[Ref.: #43258]	Multicellular complex forming ability	yes
[Ref.: #43258]	Multicellular complex name	substrate mycelium
[Ref.: #43258]	Multicellular complex color	white to pale yellow

[Ref.: #43258]	Multicellular complex forming ability	yes
[Ref.: #43258]	Multicellular complex name	aerial mycelium
[Ref.: #43258]	Multicellular complex color	white

[Ref.: #43258]	Multicellular complex forming ability	yes
[Ref.: #43258]	Multicellular complex name	substrate mycelium
[Ref.: #43258]	Multicellular complex color	pale yellow
[Ref.: #43258]	Medium Name (multicellularity)	ISP2

[Ref.: #43258]	Multicellular complex forming ability	yes
[Ref.: #43258]	Multicellular complex name	substrate mycelium
[Ref.: #43258]	Multicellular complex color	white
[Ref.: #43258]	Medium Name (multicellularity)	ISP3

[Ref.: #43258]	Multicellular complex forming ability	yes
[Ref.: #43258]	Multicellular complex name	substrate mycelium
[Ref.: #43258]	Multicellular complex color	pale yellow
[Ref.: #43258]	Medium Name (multicellularity)	ISP4

[Ref.: #43258]	Multicellular complex forming ability	yes
[Ref.: #43258]	Multicellular complex name	substrate mycelium
[Ref.: #43258]	Multicellular complex color	pale yellow
[Ref.: #43258]	Medium Name (multicellularity)	ISP5

[Ref.: #43258]	Multicellular complex forming ability	yes
[Ref.: #43258]	Multicellular complex name	substrate mycelium
[Ref.: #43258]	Multicellular complex color	pale yellow
[Ref.: #43258]	Medium Name (multicellularity)	potato dextrose agar

[Ref.: #43258]	Multicellular complex forming ability	yes
[Ref.: #43258]	Multicellular complex name	substrate mycelium
[Ref.: #43258]	Multicellular complex color	pale yellow
[Ref.: #43258]	Medium Name (multicellularity)	nutrient agar

[Ref.: #43258]	Multicellular complex forming ability	yes
[Ref.: #43258]	Multicellular complex name	substrate mycelium
[Ref.: #43258]	Multicellular complex color	pale yellow
[Ref.: #43258]	Medium Name (multicellularity)	Czapek's agar

Multimedia content

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Caption:

Medium 547 28°C

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Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

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Culture medium

ISP2

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Culture medium growth

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Culture medium

ISP3

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Culture medium growth

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Culture medium

ISP4

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Culture medium growth

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Culture medium

ISP5

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Culture medium growth

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Culture medium

potato dextrose agar

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Culture medium growth

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Culture medium

Nutrient agar (NA)

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Culture medium growth

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Culture medium

Czapek's agar

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Culture medium growth

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Culture medium

ISP2 MEDIUM (DSMZ Medium 987)

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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

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Culture medium

STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252)

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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.: #43258]	optimum	24-32 °C
[Ref.: #43258]	growth	16-38 °C
[Ref.: #64851]	growth	28 °C

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Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #43258]			growth	5.0-8.0

Information on physiology and metabolism Physiology and metabolism

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Oxygen tolerance

aerobe

[Ref.: #43258]	Spore description	Long straight chains of rod-shaped spores (more than 20 spores per chain) with smooth surfaces
[Ref.: #43258]	Type of spore	spore
[Ref.: #43258]	Ability of spore formation	yes

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43258]		NaCl		growth	0-2	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43258]	(-)-D-fructose ChEBI	+	carbon source
[Ref.: #43258]	(-)-D-fructose ChEBI	+	builds acid from
[Ref.: #43258]	(-)-D-rhamnose	+	carbon source
[Ref.: #43258]	(-)-D-rhamnose	+	builds acid from
[Ref.: #43258]	beta-lactose ChEBI	+	carbon source
[Ref.: #43258]	beta-lactose ChEBI	+	builds acid from
[Ref.: #43258]	cellobiose ChEBI	+	carbon source
[Ref.: #43258]	cellobiose ChEBI	+	builds acid from
[Ref.: #43258]	D-galactose ChEBI	+	carbon source
[Ref.: #43258]	D-galactose ChEBI	+	builds acid from
[Ref.: #43258]	D-mannitol ChEBI	+	carbon source
[Ref.: #43258]	D-mannitol ChEBI	+	builds acid from
[Ref.: #43258]	D-mannose ChEBI	+	carbon source
[Ref.: #43258]	D-mannose ChEBI	+	builds acid from
[Ref.: #43258]	glucose ChEBI	+	carbon source
[Ref.: #43258]	glucose ChEBI	+	builds acid from
[Ref.: #43258]	L-arabinose ChEBI	+	carbon source
[Ref.: #43258]	L-arabinose ChEBI	+	builds acid from
[Ref.: #43258]	maltose ChEBI	+	carbon source
[Ref.: #43258]	melibiose ChEBI	+	carbon source
[Ref.: #43258]	melibiose ChEBI	+	builds acid from
[Ref.: #43258]	myo-inositol ChEBI	+	carbon source
[Ref.: #43258]	myo-inositol ChEBI	+	builds acid from
[Ref.: #43258]	nitrate ChEBI	-	reduction
[Ref.: #43258]	raffinose ChEBI	+	carbon source
[Ref.: #43258]	raffinose ChEBI	-	builds acid from
[Ref.: #43258]	ribose ChEBI	+	carbon source
[Ref.: #43258]	sorbose ChEBI	-	carbon source
[Ref.: #43258]	sucrose ChEBI	+	carbon source
[Ref.: #43258]	sucrose ChEBI	+	builds acid from
[Ref.: #43258]	xylitol ChEBI	-	carbon source
[Ref.: #43258]	xylitol ChEBI	-	builds acid from
[Ref.: #43258]	xylose ChEBI	+	carbon source
[Ref.: #43258]	xylose ChEBI	+	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #43258]	acid phosphatase	+	3.1.3.2
[Ref.: #43258]	alkaline phosphatase	+	3.1.3.1
[Ref.: #43258]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #43258]	alpha-fucosidase	-	3.2.1.51
[Ref.: #43258]	alpha-galactosidase	+/-	3.2.1.22
[Ref.: #43258]	alpha-glucosidase	+	3.2.1.20
[Ref.: #43258]	alpha-mannosidase	+	3.2.1.24
[Ref.: #43258]	beta-galactosidase	+/-	3.2.1.23
[Ref.: #43258]	beta-glucosidase	-	3.2.1.21
[Ref.: #43258]	beta-glucuronidase	-	3.2.1.31
[Ref.: #43258]	catalase	+	1.11.1.6
[Ref.: #43258]	cystine arylamidase	+	3.4.11.3
[Ref.: #43258]	cytochrome oxidase	-	1.9.3.1
[Ref.: #43258]	esterase (C 4)	+
[Ref.: #43258]	esterase Lipase (C 8)	+
[Ref.: #43258]	glucosaminidase	-
[Ref.: #43258]	leucine aminopeptidase	+	3.4.1.1
[Ref.: #43258]	lipase (C 14)	-
[Ref.: #43258]	phosphoamidase	+	3.9.1.1
[Ref.: #43258]	trypsin	+	3.4.21.4
[Ref.: #43258]	urease	+	3.5.1.5
[Ref.: #43258]	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.: #43258]	Sample type/isolated from	plant root sample of Ophiopogon japonicus
[Ref.: #43258]	Geographic location (country and/or sea, region)	Kanagawa, Japan
[Ref.: #43258]	Country	Japan
[Ref.: #43258]	Country ISO 3 Code	JPN
[Ref.: #43258]	Continent	Asia

[Ref.: #64851]	Sample type/isolated from	root of Ophiopogon japonicus
[Ref.: #64851]	Geographic location (country and/or sea, region)	Kanagawa prefecture
[Ref.: #64851]	Country	Japan
[Ref.: #64851]	Country ISO 3 Code	JPN
[Ref.: #64851]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Root (Rhizome)

What are isolation sources categories?

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Global distribution of 16S sequence LC169780 (>99% sequence identity) for Kibdelosporangium kanagawaense from Microbeatlas

Aquatic Samples
Soil Samples	14
Animal Samples	2
Plant Samples
Total Samples	16

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

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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.: #64851]	Kibdelosporangium kanagawaense gene for 16S ribosomal RNA, partial sequence	LC169780	1424	ENA	1882231 tax ID

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GC-content

64.9 mol%

high performance liquid chromatography (HPLC)

Availability in culture collections External links

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Culture collection no.

DSM 103925, TBRC 6786, NBRC 112388

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SI-ID 400701

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Three novel species of the genus Kibdelosporangium; Kibdelosporangium kanagawaense sp. nov., Kibdelosporangiumrhizosphaerae sp. nov. and Kibdelosporangium rhizovicinum sp. nov.	Mingma R, Duangmal K, Omura S, Takahashi Y, Matsumoto A	Int J Syst Evol Microbiol	10.1099/ijsem.0.001861	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 )

#43258

Ratchanee Mingma, Kannika Duangmal, Satoshi Omura, Yoko Takahashi and Atsuko Matsumoto: Three novel species of the genus Kibdelosporangium; Kibdelosporangium kanagawaense sp. nov., Kibdelosporangium rhizosphaerae sp. nov. and Kibdelosporangium rhizovicinum sp. nov.. IJSEM 67: 1758 - 1765 2017 ( DOI 10.1099/ijsem.0.001861 , PubMed 28598312 )

#64851

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 103925

#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 .

#96747

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-ID400701.1 )

* These data were automatically processed and therefore are not curated

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