Kibdelosporangium rhizosphaerae (NBRC 112389, TBRC 6787, DSM 103926)

Name: Kibdelosporangium rhizosphaerae (NBRC 112389, TBRC 6787, DSM 103926)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 140583

Type strain

Strain Designation K10-0543

Culture col. no. NBRC 112389 TBRC 6787 DSM 103926 K10-0543

NCBI tax ID(s) 1882232

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Kibdelosporangium rhizosphaerae K10-0543 is an aerobe, spore-forming, mesophilic prokaryote that builds a substrate mycelium and was isolated from rhizosphere soil of Ophiopogon japonicus.

spore-forming Gram-positive aerobe mesophilic 16S sequence

Name and taxonomic classification

SI-ID 404450

TBRC 6787,NBRC 112389,DSM 103926

@ref 20215

Last LPSN update 2025-12-16 10:03:38

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Pseudonocardiales

Family Pseudonocardiaceae

Genus Kibdelosporangium

Species Kibdelosporangium rhizosphaerae

Full scientific name Kibdelosporangium rhizosphaerae Mingma et al. 2017

Morphology

Cell morphology

@ref	Gram stain	Motility
43258	positive

Multicellular morphology

@ref	Forms multicellular complex	Complex name	Complex color
43258		substrate mycelium	pale yellow to yellow
43258		aerial mycelium	white

Pigmentation

@ref	Production	Name
43258		Soluble pigments
43258		Melanin

Multimedia

@ref:	64852
multimedia content:	DSM_103926.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_103926.jpg
caption:	Medium 65 28°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
43258	ISP2
43258	ISP3
43258	ISP4
43258	ISP5
43258	Nutrient agar (NA)
43258	Czapek's agar
64852	ISP2 MEDIUM (DSMZ Medium 987)	Medium recipe at MediaDive	Name: ISP 2 MEDIUM (DSMZ Medium 987) Composition: Agar 20.0 g/l Malt extract 10.0 g/l Dextrose 4.0 g/l Yeast extract 4.0 g/l Distilled water
43258	potato dextrose agar

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
43258	positive	optimum	28-32	mesophilic
43258	positive	growth	16-36
64852	positive	growth	28	mesophilic

Culture pH

@ref	Ability	Type	PH
43258	positive	growth	6.0-8.0

Physiology and metabolism

Oxygen tolerance

43258

Oxygen toleranceaerobe

Spore formation

@ref	Spore description	Type of spore	Spore formation
43258	Long straight chains of rod-shaped spores (more than 20 spores per chain) with smooth surfaces	spore

Halophily

@ref	Salt	Growth	Tested relation	Concentration
43258	NaCl	positive	growth	0-1 %(w/v)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
43258	48095 ChEBI	(-)-D-fructose	-	carbon source
43258	48095 ChEBI	(-)-D-fructose	-	builds acid from
43258		(-)-D-rhamnose	+	builds acid from
43258	36218 ChEBI	beta-lactose	+	builds acid from
43258	17057 ChEBI	cellobiose	+	carbon source
43258	17057 ChEBI	cellobiose	+	builds acid from
43258	12936 ChEBI	D-galactose	+	carbon source
43258	12936 ChEBI	D-galactose	+	builds acid from
43258	16899 ChEBI	D-mannitol	-	carbon source
43258	17234 ChEBI	glucose	+	carbon source
43258	17234 ChEBI	glucose	+	builds acid from
43258	30849 ChEBI	L-arabinose	-	carbon source
43258	30849 ChEBI	L-arabinose	-	builds acid from
43258	17306 ChEBI	maltose	+	carbon source
43258	17306 ChEBI	maltose	+	builds acid from
43258	37684 ChEBI	mannose	+	carbon source
43258	37684 ChEBI	mannose	-	builds acid from
43258	28053 ChEBI	melibiose	+	carbon source
43258	28053 ChEBI	melibiose	+	builds acid from
43258	17268 ChEBI	myo-inositol	+	carbon source
43258	17268 ChEBI	myo-inositol	+	builds acid from
43258	17632 ChEBI	nitrate	-	reduction
43258	16634 ChEBI	raffinose	+	carbon source
43258	16634 ChEBI	raffinose	+	builds acid from
43258	26546 ChEBI	rhamnose	+/-	carbon source
43258	33942 ChEBI	ribose	+	carbon source
43258	27922 ChEBI	sorbose	-	carbon source
43258	17992 ChEBI	sucrose	+	carbon source
43258	17992 ChEBI	sucrose	-	builds acid from
43258	17151 ChEBI	xylitol	-	carbon source
43258	17151 ChEBI	xylitol	-	builds acid from
43258	18222 ChEBI	xylose	+	carbon source
43258	18222 ChEBI	xylose	+	builds acid from

Enzymes

@ref	Value	Activity	Ec
43258	acid phosphatase	+	3.1.3.2
43258	alkaline phosphatase	+	3.1.3.1
43258	alpha-chymotrypsin	-	3.4.21.1
43258	alpha-fucosidase	-	3.2.1.51
43258	alpha-galactosidase	+/-	3.2.1.22
43258	alpha-glucosidase	+	3.2.1.20
43258	alpha-mannosidase	+	3.2.1.24
43258	beta-galactosidase	+/-	3.2.1.23
43258	beta-glucosidase	-	3.2.1.21
43258	beta-glucuronidase	-	3.2.1.31
43258	catalase	+	1.11.1.6
43258	cystine arylamidase	+	3.4.11.3
43258	cytochrome oxidase	-	1.9.3.1
43258	esterase (C 4)	+
43258	esterase Lipase (C 8)	+
43258	glucosaminidase	-
43258	leucine aminopeptidase	+	3.4.1.1
43258	lipase (C 14)	-
43258	phosphoamidase	-	3.9.1.1
43258	trypsin	+	3.4.21.4
43258	urease	+	3.5.1.5
43258	valine arylamidase	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Rhizosphere

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
43258	rhizosphere soil of Ophiopogon japonicus	Kanagawa, Japan	Japan	JPN	Asia
64852	rhizosphere soil of Ophiopogon japonicus	Kanagawa prefecture	Japan	JPN	Asia

Taxonmaps

69479

Global distribution of 16S sequence LC169781 (>99% sequence identity) for Kibdelosporangium from Microbeatlas

Aquatic Samples
Soil Samples	22
Animal Samples	5
Plant Samples
Total Samples	27

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
64852	1	Risk group (German classification)

Sequence information

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
64852	Kibdelosporangium rhizosphaerae gene for 16S ribosomal RNA, partial sequence	LC169781	1455		1882232

GC content

@ref	GC-content (mol%)	Method
64852	66.5	high performance liquid chromatography (HPLC)

Genome-based predictions

Literature

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 )
#64852	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 103926
#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 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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