Actinokineospora diospyrosa (DSM 44255, IFO 15665, JCM 9921)

Name: Actinokineospora diospyrosa (DSM 44255, IFO 15665, JCM 9921)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13199

Type strain

Culture col. no. DSM 44255 IFO 15665 JCM 9921 KCTC 9569 MTCC 2687 5 more

NCBI tax ID(s) 103728

Special Collections DSMZ JCM KCTC Wink compendium

History DSMZ <- IFO <- T. Tamura, YU8-1 KCTC <- IFO <- T. Tamura YU8-1 <- M. Hayakawa JCM <-- IFO 15665 <-- T. Tamura YU8-1 <-- M. Hayakawa.

Links

Actinokineospora diospyrosa DSM 44255 is an aerobe, Gram-positive bacterium that was isolated from fallen persimmon leaves.

Gram-positive aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 50537

MTCC 2687,DSM 44255,IFO 15665,JCM 9921,KCTC 9569,NCIMB 13657,VKM Ac-1984,NRRL B-24047,NBRC 15665

@ref 20215

Last LPSN update 2026-05-29 08:27:59

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Pseudonocardiales

Family Pseudonocardiaceae

Genus Actinokineospora

Species Actinokineospora diospyrosa

Full scientific name Actinokineospora diospyrosa Tamura et al. 1995

Morphology

Cell morphology

@ref	Gram stain	Confidence
67771	positive
125439	positive	99.822
125439		97.996

Colony morphology

@ref	Colony color	Incubation period	Medium used
19639	Red brown	10-14 days	ISP 2
19639	Ivory	10-14 days	ISP 3
19639	Sand yellow	10-14 days	ISP 4
19639	Sand yellow	10-14 days	ISP 5
19639	Light ivory	10-14 days	ISP 6
19639	Ivory	10-14 days	ISP 7

Multicellular morphology

@ref	Forms multicellular complex	Medium name
19639		ISP 2
19639		ISP 3
19639		ISP 4
19639		ISP 5
19639		ISP 6
19639		ISP 7

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
11627	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
19639	ISP 2		Name: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
19639	ISP 3		Name: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
19639	ISP 4		Name: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
19639	ISP 5		Name: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
19639	ISP 6		Name: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
19639	ISP 7		Name: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes

Culture temp

@ref	Growth	Type	Temperature (°C)
11627	positive	growth	28
67770	positive	growth	28
67771	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
67771	aerobe
125439	obligate aerobe	98.761

Spore formation

@ref	Spore formation	Confidence
125439		98.045

Halophily

@ref	Salt	Growth	Tested relation	Concentration
19639	NaCl	positive	maximum	2.5 %

Observation

@ref	Observation
67770	quinones: MK-9(H₄)
67771	quinones: MK-9(H_4_)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
19639	22599 ChEBI	arabinose	-
68368	29016 ChEBI	arginine	+	hydrolysis	from API 20E
19639	62968 ChEBI	cellulose	-
68368	16947 ChEBI	citrate	+	assimilation	from API 20E
19639	28757 ChEBI	fructose	-
68368	5291 ChEBI	gelatin	+	hydrolysis	from API 20E
19639	17234 ChEBI	glucose	+
68368	25094 ChEBI	lysine	+	degradation	from API 20E
19639	29864 ChEBI	mannitol	-
19639	17268 ChEBI	myo-inositol	-
68368	18257 ChEBI	ornithine	+	degradation	from API 20E
19639	16634 ChEBI	raffinose	-
19639	26546 ChEBI	rhamnose	-
19639	17992 ChEBI	sucrose	+
68368	27897 ChEBI	tryptophan	-	energy source	from API 20E
68368	16199 ChEBI	urea	+	hydrolysis	from API 20E
19639	18222 ChEBI	xylose	-

Metabolite production

@ref	Chebi-ID	Metabolite
68368	15688 ChEBI	acetoin	from API 20E
68368	16136 ChEBI	hydrogen sulfide	from API 20E
68368	35581 ChEBI	indole	from API 20E

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Indole test
68368	15688 ChEBI	acetoin	+		from API 20E
68368	35581 ChEBI	indole		-	from API 20E

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
68382	alkaline phosphatase	+	3.1.3.1	from API zym
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
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68368	arginine dihydrolase	+	3.5.3.6	from API 20E
68382	beta-galactosidase	-	3.2.1.23	from API zym
68368	beta-galactosidase	-	3.2.1.23	from API 20E
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68382	cystine arylamidase	-	3.4.11.3	from API zym
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
68368	gelatinase	+		from API 20E
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	+		from API zym
68368	lysine decarboxylase	+	4.1.1.18	from API 20E
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	-		from API zym
68368	ornithine decarboxylase	+	4.1.1.17	from API 20E
68382	trypsin	+	3.4.21.4	from API zym
68368	tryptophan deaminase	-	4.1.99.1	from API 20E
68368	urease	+	3.5.1.5	from API 20E
68382	valine arylamidase	+		from API zym

API 20E

@ref	ONPG	ADH (Arg)	LDC (Lys)	ODC	CIT	H2S productionH2S	URE	TDA (Trp)	IND	Acetoin production (Voges Proskauer test)VP	GEL	GLU	MAN	INO	Sor	RHA	SAC	MEL	AMY	ARA	OX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	OF-O	OF-F
19639	-	+	+	+	+	-	+	-	-	+	+	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	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
19639	not determinedn.d.	+	+	+	+	+	+	-	+	-	+	-	-	-	-	+	-	+	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Tree
#Host Body-Site	#Plant	#Leaf (Phyllosphere)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
11627	fallen persimmon leaves	Yamanashi prefecture	Japan	JPN	Asia
67770	Fallen persimmon leaves	Yamanashi Pref.	Japan	JPN	Asia
67771	From fallen persimmon leaves	Yamanashi Pref.	Japan	JPN	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
11627	1	Risk group (German classification) According to TRBA 466
19639	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM2417192v1 assembly for Actinokineospora diospyrosa DSM 44255	scaffold	GCA_024171925	103728.3	2596583538	103728	69.5
124043	ASM3953430v1 assembly for Actinokineospora diospyrosa JCM 9921	scaffold	GCA_039534305			103728	65.69

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Actinokineospora diospyrosa strain NRRL B-24047T 16S ribosomal RNA gene, partial sequence	AF114797	1512		103728

GC content

@ref	GC-content (mol%)	Method
11627	69.3
67770	69.3	high performance liquid chromatography (HPLC)
67770	70.3	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM2417192v1 assembly for Actinokineospora diospyrosa DSM 44255
NCBI: GCA_024171925

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	gram_stain	BacteriaNetⓘ	positive	99.82	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.76	no
125439	motility	BacteriaNetⓘ	no	98.00	no
125439	spore_formation	BacteriaNetⓘ	yes	98.05	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Improving the production of carbamoyltobramycin by an industrial Streptoalloteichus tenebrarius through metabolic engineering.	Feng Y, Jiang Y, Chen X, Zhu L, Xue H, Wu M, Yang L, Yu H, Lin J.	Appl Microbiol Biotechnol	10.1007/s00253-024-13141-2	2024
Transcriptome	Single-Cell RNA Sequencing of Plant-Associated Bacterial Communities.	Ma Q, Bucking H, Gonzalez Hernandez JL, Subramanian S.	Front Microbiol	10.3389/fmicb.2019.02452	2019
Genetics	Genome-Based Taxonomic Classification of the Phylum Actinobacteria.	Nouioui I, Carro L, Garcia-Lopez M, Meier-Kolthoff JP, Woyke T, Kyrpides NC, Pukall R, Klenk HP, Goodfellow M, Goker M.	Front Microbiol	10.3389/fmicb.2018.02007	2018
Phylogeny	Actinokineospora spheciospongiae sp. nov., isolated from the marine sponge Spheciospongia vagabunda.	Kampfer P, Glaeser SP, Busse HJ, Abdelmohsen UR, Ahmed S, Hentschel U.	Int J Syst Evol Microbiol	10.1099/ijs.0.000031	2015

References

#11627	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 44255
#19639	Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#68368	Automatically annotated from API 20E .
#68382	Automatically annotated from API zym .
#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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Actinokineospora diospyrosa (DSM 44255, IFO 15665, JCM 9921)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API 20E

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_024171925

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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