Actinomycetospora chibensis (DSM 45769, KACC 14256, NBRC 103694)

Name: Actinomycetospora chibensis (DSM 45769, KACC 14256, NBRC 103694)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13500

Type strain

Strain Designation TT04-21

Culture col. no. DSM 45769 KACC 14256 NBRC 103694 TT04-21 JCM 17978

NCBI tax ID(s) 663606

Special Collections DSMZ JCM Wink compendium

History DSMZ <- S.-W. Kwon, KACC; KACC 14256 <- T. Tamura; TT04-21 JCM <-- KACC 14256 <-- NBRC 103694 <-- T. Tamura TT04-21.

Links

Actinomycetospora chibensis TT04-21 is a bacterium that builds an aerial mycelium and was isolated from paddy field soil.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 405475

NBRC 103694,JCM 17978,DSM 45769

@ref 20215

Last LPSN update 2026-05-29 08:28:03

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Pseudonocardiales

Family Pseudonocardiaceae

Genus Actinomycetospora

Species Actinomycetospora chibensis

Full scientific name Actinomycetospora chibensis Tamura et al. 2011

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	positive	96.177

Colony morphology

@ref	Colony color	Medium used
69429	Signal yellow (1003)	ISP 2
69429	Signal yellow (1003)	ISP 3
69429	Signal yellow (1003)	ISP 4
69429	Signal yellow (1003)	ISP 5
69429	Signal yellow (1003)	ISP 6
69429	Traffic yellow (1023)	ISP 7
69429	Traffic yellow (1023)	suter with tyrosine
69429	Traffic yellow (1023), maize yellow (1006)	suter without tyrosine

Multicellular morphology

@ref	Complex name	Medium name
69429	Aerial mycelium	ISP 2
69429	Aerial mycelium	ISP 3
69429	Aerial mycelium	ISP 4
69429	Aerial mycelium	ISP 5
69429	Aerial mycelium	ISP 6
69429	Aerial mycelium	ISP 7
69429	Aerial mycelium	suter with tyrosine
69429	Aerial mycelium	suter without tyrosine

Pigmentation

@ref	Production	Name
69429		melanin pigment
69429		soluble pigment

Multimedia

@ref:	69429
multimedia content:	DSM_45769_image3.jpeg
multimedia.multimedia content:	DSM_45769_image3.jpeg
caption:	Plates (65, ISP2, ISP3, ISP4, ISP5, ISP7)
intellectual property rights:	Helmholtz-Zentrum für Infektionsforschung GmbH
manual_annotation:	1

@ref:	69429
multimedia content:	DSM_45769_image4.jpeg
multimedia.multimedia content:	DSM_45769_image4.jpeg
caption:	Plates (65, ISP2, ISP3, ISP4, ISP5, ISP7)
intellectual property rights:	Helmholtz-Zentrum für Infektionsforschung GmbH
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
18183	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)		Medium recipe at MediaDive	Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
18183	positive	growth	28
67770	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	99.546

Halophily

@ref	Salt	Growth	Tested relation	Concentration
69429	NaCl	positive	growth	0-5 %

Observation

67770

Observationquinones: MK-8(H₄)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
69429	22599 ChEBI	arabinose	+	growth
69429	62968 ChEBI	cellulose	+	growth
68379	17634 ChEBI	D-glucose	-	fermentation	from API Coryne
68379	16899 ChEBI	D-mannitol	-	fermentation	from API Coryne
68379	16988 ChEBI	D-ribose	-	fermentation	from API Coryne
68379	65327 ChEBI	D-xylose	-	fermentation	from API Coryne
68379	4853 ChEBI	esculin	-	hydrolysis	from API Coryne
69429	28757 ChEBI	fructose	+	growth
68379	5291 ChEBI	gelatin	-	hydrolysis	from API Coryne
69429	17234 ChEBI	glucose	+	growth
68379	28087 ChEBI	glycogen	-	fermentation	from API Coryne
68379	17716 ChEBI	lactose	-	fermentation	from API Coryne
68379	17306 ChEBI	maltose	-	fermentation	from API Coryne
69429	37684 ChEBI	mannose	+	growth
69429	17268 ChEBI	myo-inositol	+	growth
68379	17632 ChEBI	nitrate	-	reduction	from API Coryne
69429	16634 ChEBI	raffinose	+	growth
69429	26546 ChEBI	rhamnose	+	growth
68379	17992 ChEBI	sucrose	-	fermentation	from API Coryne
69429	17992 ChEBI	sucrose	+	growth
68379	16199 ChEBI	urea	-	hydrolysis	from API Coryne
69429	18222 ChEBI	xylose	+	growth

Enzymes

@ref	Value	Activity	Ec
68379	alkaline phosphatase	-	3.1.3.1	from API Coryne
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68379	alpha-glucosidase	-	3.2.1.20	from API Coryne
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68382	beta-galactosidase	-	3.2.1.23	from API zym
68379	beta-galactosidase	-	3.2.1.23	from API Coryne
68382	beta-glucosidase	-	3.2.1.21	from API zym
68379	beta-glucosidase	-	3.2.1.21	from API Coryne
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68379	beta-glucuronidase	-	3.2.1.31	from API Coryne
68382	cystine arylamidase	-	3.4.11.3	from API zym
68382	esterase lipase (C 8)	+		from API zym
68379	gelatinase	-		from API Coryne
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68379	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API Coryne
68379	pyrazinamidase	-	3.5.1.B15	from API Coryne
68379	pyrrolidonyl arylamidase	-	3.4.19.3	from API Coryne
68382	trypsin	-	3.4.21.4	from API zym
68379	urease	-	3.5.1.5	from API Coryne

API coryne

@ref	Reduction of nitrateNIT	PYZ	PYRA	PAL	beta GUR	beta GAL	alpha GLU	beta NAG	ESC	URE	GEL	Control fermentationControl	GLU	RIB	XYL	MAN	MAL	LAC	SAC	GLYG	CAT
69429	-	-	-	-	-	-	-	-	-	-	-	not determinedn.d.	-	-	-	-	-	-	-	-	not determinedn.d.

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
69429	not determinedn.d.	+/-	+/-	+	-	+	+/-	-	-	-	+/-	+/-	-	-	-	+	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Agriculture	#Field
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Condition	#Anoxic (anaerobic)	-
#Condition	#Humid	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
18183	paddy field soil	Mobara, Chiba	Japan	JPN	Asia
67770	Paddy soil	Mobara, Chiba Pref.	Japan	JPN	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
18183	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	NCBI tax ID	Score
124043	ASM4265356v1 assembly for Actinomycetospora chibensis JCM 17978	scaffold	GCA_042653565	663606	62.47
124043	ASM3954211v1 assembly for Actinomycetospora chibensis JCM 17978	scaffold	GCA_039542115	663606	62.29

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
18183	Actinomycetospora chibensis gene for 16S rRNA, partial sequence, strain: TT04-21	AB514517	1487		663606

GC content

@ref	GC-content (mol%)	Method
18183	73
67770	73	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM4265356v1 assembly for Actinomycetospora chibensis JCM 17978
NCBI: GCA_042653565

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.55	no
125439	gram_stain	BacteriaNetⓘ	positive	96.18	no
125439	spore_formation	BacteriaNetⓘ	no	85.67	no
125439	motility	BacteriaNetⓘ	no	75.01	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Actinomycetospora callitridis sp. nov., an endophytic actinobacterium isolated from the surface-sterilised root of an Australian native pine tree.	Kaewkla O, Franco CMM	Antonie Van Leeuwenhoek	10.1007/s10482-018-1162-1	2018
Phylogeny	Actinomycetospora rhizophila sp. nov., an actinomycete isolated from rhizosphere soil of a peace lily (Spathi phyllum Kochii).	He H, Zhang Y, Ma Z, Li C, Liu C, Zhou Y, Li L, Wang X, Xiang W	Int J Syst Evol Microbiol	10.1099/ijs.0.000131	2015
Phylogeny	Description of Actinomycetospora chibensis sp. nov., Actinomycetospora chlora sp. nov., Actinomycetospora cinnamomea sp. nov., Actinomycetospora corticicola sp. nov., Actinomycetospora lutea sp. nov., Actinomycetospora straminea sp. nov. and Actinomycetospora succinea sp. nov. and emended description of the genus Actinomycetospora.	Tamura T, Ishida Y, Hamada M, Otoguro M, Yamamura H, Hayakawa M, Suzuki KI	Int J Syst Evol Microbiol	10.1099/ijs.0.024166-0	2010

References

#18183	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45769
#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 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68379	Automatically annotated from API Coryne .
#68382	Automatically annotated from API zym .
#69429	Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#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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Actinomycetospora chibensis (DSM 45769, KACC 14256, NBRC 103694)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Pigmentation

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Halophily

Observation

Metabolite utilization

Enzymes

API coryne

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_042653565

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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