Kitasatospora misakiensis (DSM 40222, ATCC 23938, CBS 278.65)

Name: Kitasatospora misakiensis (DSM 40222, ATCC 23938, CBS 278.65)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 15413

Type strain

Strain Designation IPCR 7617

Culture col. no. DSM 40222 ATCC 23938 CBS 278.65 CBS 922.68 IFO 12891 14 more

NCBI tax ID(s) 67330

Special Collections DSMZ JCM KCTC Wink compendium

History <- E.B. Shirling, ISP <- S. Suzuki, IPCR, 7617 KCC S-0062 <-- G. Nakamura 7617 (=1755).

Links

Kitasatospora misakiensis IPCR 7617 is a spore-forming, mesophilic prokaryote that builds an aerial mycelium and produces antibiotic compounds.

antibiotic compound production spore-forming mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 14119

LMG 19369,ATCC 23938,DSM 40222,IFO 12891,JCM 4062,JCM 4653,NCIMB 9852,NRRL B-2923,VKM Ac-625,CBS 922.68,CBS 278.65,AS 4.1437,NBRC 12891,BCRC 13799,CCRC 13799,KCTC 19951,NCIB 9852,CGMCC 4.1437

@ref 20215

Last LPSN update 2025-12-16 09:50:35

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Kitasatosporales

Family Streptomycetaceae

Genus Kitasatospora

Species Kitasatospora misakiensis

Full scientific name Kitasatospora misakiensis (Nakamura 1961) Labeda et al. 2017

Synonyms (1)

Streptomyces misakiensis

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	positive	100
125439		91.2
125438		93
125438	positive	90.531

Colony morphology

@ref	Colony color	Incubation period	Medium used
19425	Light red	10-14 days	ISP 2
19425	Yellow red	10-14 days	ISP 3
19425	Yellow	10-14 days	ISP 4
19425	Brown	10-14 days	ISP 5
19425	Brown	10-14 days	ISP 6
19425	Brown red	10-14 days	ISP 7

Multicellular morphology

@ref	Complex name	Complex color	Medium name
19425	Aerial Mycelium	Grey	ISP 2
19425	Aerial Mycelium	Light grey	ISP 3
19425	Aerial Mycelium	Grey	ISP 4
19425	Aerial Mycelium	Grey	ISP 5
19425			ISP 6
19425	Aerial Mycelium	Grey	ISP 7

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
9279	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
19425	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
19425	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:
19425	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
19425	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
19425	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
19425	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
9279	ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)	Medium recipe at MediaDive	Name: ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) Composition: Agar 20.0 g/l Rolled oats 20.0 g/l ZnSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
9279	positive	growth	28	mesophilic
19425	positive	optimum	28	mesophilic
67770	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	99.5

Spore formation

@ref	Spore description	Spore formation	Confidence
19425	Formation of spore chains: rectiflixibilis, spore surface: smooth
125439			97.3

Compound production

@ref	Compound
9279	tubermycin A
9279	tubermycin B
9279	tubermycin A, B
20216	Tubermycin A
20216	Tubermycin B
67770	Tubermycins A and B

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
19425	22599 ChEBI	arabinose	-
68368	29016 ChEBI	arginine	+	hydrolysis	from API 20E
19425	62968 ChEBI	cellulose	-
68368	16947 ChEBI	citrate	+	assimilation	from API 20E
19425	28757 ChEBI	fructose	+
68368	5291 ChEBI	gelatin	-	hydrolysis	from API 20E
19425	17234 ChEBI	glucose	+
68368	25094 ChEBI	lysine	+	degradation	from API 20E
19425	29864 ChEBI	mannitol	-
19425	17268 ChEBI	myo-inositol	-
68368	18257 ChEBI	ornithine	+	degradation	from API 20E
19425	16634 ChEBI	raffinose	-
19425	26546 ChEBI	rhamnose	-
19425	17992 ChEBI	sucrose	+
68368	27897 ChEBI	tryptophan	-	energy source	from API 20E
68368	16199 ChEBI	urea	+	hydrolysis	from API 20E
19425	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
68368	arginine dihydrolase	+	3.5.3.6	from API 20E
68368	beta-galactosidase	+	3.2.1.23	from API 20E
68368	gelatinase	-		from API 20E
68368	lysine decarboxylase	+	4.1.1.18	from API 20E
68368	ornithine decarboxylase	+	4.1.1.17	from API 20E
68368	tryptophan deaminase	-	4.1.99.1	from API 20E
68368	urease	+	3.5.1.5	from API 20E

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
19425	+	+	+	+	+	-	+	-	-	+	-	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.

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
9279	soil		Japan	JPN	Asia
67770	Soil	Misaki, Kanagawa Pref.	Japan	JPN	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
9279	1	Risk group (German classification) According to TRBA 466
19425	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
124043	ASM4265600v1 assembly for Kitasatospora misakiensis CGMCC 4.1437	scaffold	GCA_042656005			67330	37.69
67770	ASM71558v2 assembly for Kitasatospora misakiensis NRRL B-2923	contig	GCA_000715585	67330.3	2767802018	67330

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Streptomyces misakiensis strain DSM 40222 16S ribosomal RNA gene, partial sequence	AY999839	1420	67330
20218	Streptomyces misakiensis gene for 16S rRNA, partial sequence	AB122749	564	67330
20218	Streptomyces misakiensis gene for 16S ribosomal RNA, partial sequence, strain: JCM 4653	D44287	120	67330
20218	Streptomyces misakiensis 16S rRNA gene, type strain LMG 19369	AJ781325	1476	67330
20218	Streptomyces misakiensis gene for 16S rRNA, partial sequence, strain: NBRC 12891	AB184223	1473	67330
9279	Streptomyces misakiensis gene for 16S rRNA, partial sequence, strain:IFO 12891	AB217605	1473	67330

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Kitasatospora misakiensis NRRL B-2923
NCBI: GCA_000715585

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	97.30	no
125439	motility	BacteriaNetⓘ	no	91.20	no
125439	gram_stain	BacteriaNetⓘ	positive	100.00	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Kitasatospora misakiensis NRRL B-2923
NCBI: GCA_000715585.2

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	90.53	no
125438	anaerobic	anaerobicⓘ	no	98.89	no
125438	aerobic	aerobicⓘ	yes	88.03	no
125438	spore-forming	spore-formingⓘ	yes	89.34	yes
125438	thermophilic	thermophileⓘ	no	96.50	no
125438	flagellated	motile2+ⓘ	no	93.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Responses of Soil Bacteria Communities to Organic Material Application and Their Antagonistic Activity against Diaporthe destruens Causing Sweet Potato Foot Rot Disease.	Soe ZM, Sakai M, Kihara S, Fukahori D, Nakamura M, Ueno D, Sakagami JI, Ikenaga M.	Microbes Environ	10.1264/jsme2.me25011	2025
Phylogeny	Phylogenetic relationships in the family Streptomycetaceae using multi-locus sequence analysis.	Labeda DP, Dunlap CA, Rong X, Huang Y, Doroghazi JR, Ju KS, Metcalf WW.	Antonie Van Leeuwenhoek	10.1007/s10482-016-0824-0	2017
Phylogeny	Streptomyces polygonati sp. nov., an endophytic actinomycete isolated from a root of Polygonatum odoratum (Mill.).	Guo S, Liu C, Liu S, Guan X, Guo L, Jia F, Wang X, Xiang W	Int J Syst Evol Microbiol	10.1099/ijsem.0.000906	2016

References

#9279	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 40222
#19425	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 )
#20216	Curators of the HKI: Collection Description Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI) . Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI):
#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 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68368	Automatically annotated from API 20E .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#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 )

Rate our new design

Content

About us

Kitasatospora misakiensis (DSM 40222, ATCC 23938, CBS 278.65)

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

Compound production

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API 20E

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_042656005

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

Social Media