Kibdelosporangium philippinense (DSM 44226, ATCC 49844, NRRL 18198)

Name: Kibdelosporangium philippinense (DSM 44226, ATCC 49844, NRRL 18198)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13292

Type strain

Strain Designation A80407

Culture col. no. DSM 44226 ATCC 49844 NRRL 18198 A80407 JCM 9918 6 more

NCBI tax ID(s) 211113

Special Collections DSMZ JCM KCTC Wink compendium

History DSMZ <- NRRL <- F. P. Mertz, A 80407 JCM <-- ATCC 49844 <-- NRRL 18198 <-- F. P. Mertz A80407.

Links

Kibdelosporangium philippinense A80407 is a spore-forming bacterium that builds an aerial mycelium and was isolated from soil.

spore-forming genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 42714

ATCC 49844,NRRL 18198,JCM 9918,DSM 44226,NCIMB 13200,KCTC 9838,IFO 14839,NBRC 14839,NBRC 15154,IFO 15154

@ref 20215

Last LPSN update 2026-05-29 08:28:00

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Pseudonocardiales

Family Pseudonocardiaceae

Genus Kibdelosporangium

Species Kibdelosporangium philippinense

Full scientific name Kibdelosporangium philippinense Mertz and Yao 1988

Morphology

Colony morphology

@ref	Colony color	Incubation period	Medium used
19638	Beige	10-14 days	ISP 2
19638	Beige	10-14 days	ISP 3
19638	Beige	10-14 days	ISP 4
19638	Beige	10-14 days	ISP 5
19638	Beige	10-14 days	ISP 6
19638	Beige	10-14 days	ISP 7

Multicellular morphology

@ref	Complex name	Complex color	Medium name
19638	Aerial Mycelium	White	ISP 2
19638	Aerial Mycelium	White	ISP 3
19638	Aerial Mycelium	White	ISP 4
19638			ISP 5
19638			ISP 6
19638			ISP 7

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
11610	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
19638	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
19638	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:
19638	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
19638	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
19638	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
19638	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)
11610	positive	growth	28
19638	positive	optimum	28
67770	positive	growth	28

Physiology and metabolism

Spore formation

@ref	Spore description	Type of spore	Spore formation
19638	Formation of spore chains (spirales), spore surface smooth, no fragmentation	spore

Halophily

@ref	Salt	Growth	Tested relation	Concentration
19638	NaCl	positive	maximum	2.5 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
19638	22599 ChEBI	arabinose	-
68368	29016 ChEBI	arginine	-	hydrolysis	from API 20E
19638	62968 ChEBI	cellulose	-
68368	16947 ChEBI	citrate	-	assimilation	from API 20E
19638	28757 ChEBI	fructose	+
68368	5291 ChEBI	gelatin	+	hydrolysis	from API 20E
19638	17234 ChEBI	glucose	+
68368	25094 ChEBI	lysine	-	degradation	from API 20E
19638	29864 ChEBI	mannitol	+
19638	17268 ChEBI	myo-inositol	+
68368	18257 ChEBI	ornithine	-	degradation	from API 20E
19638	16634 ChEBI	raffinose	-
19638	26546 ChEBI	rhamnose	-
19638	17992 ChEBI	sucrose	-
68368	27897 ChEBI	tryptophan	-	energy source	from API 20E
68368	16199 ChEBI	urea	+	hydrolysis	from API 20E
19638	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
19638	+	-	-	-	-	-	+	-	-	+	+	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
19638	not determinedn.d.	+	+	+	+	+	+	+	+	+	+	+	+	+	-	+	+	+	+	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
11610	soil	Philippines	PHL	Asia
67770	Soil	Philippines	PHL	Asia

Taxonmaps

69479

Global distribution of 16S sequence AJ512464 (>99% sequence identity) for Kibdelosporangium philippinense subclade from Microbeatlas

Aquatic Samples	0
Soil Samples	28
Animal Samples	6
Plant Samples	2
Total Samples	36

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
11610	1	Risk group (German classification) According to TRBA 466
19638	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	ASM2139043v3 assembly for Kibdelosporangium philippinense ATCC 49844	contig	GCA_021390435	211113.4	8046885588	211113	73.66
124043	ASM4265246v1 assembly for Kibdelosporangium philippinense JCM 9918	contig	GCA_042652465			211113	59.26
124043	ASM4243126v1 assembly for Kibdelosporangium philippinense JCM 9918	scaffold	GCA_042431265			211113	0

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Kibdelosporangium philippinense 16S rRNA gene, type strain DSM 44226T	AJ512464	1490		211113

Genome-based predictions

Predictions

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Kibdelosporangium philippinense ATCC 49844
NCBI: GCA_021390435.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	85.53	no
125438	anaerobic	anaerobicⓘ	no	95.97	no
125438	aerobic	aerobicⓘ	yes	80.11	no
125438	spore-forming	spore-formingⓘ	yes	82.26	yes
125438	thermophilic	thermophileⓘ	no	96.00	no
125438	flagellated	motile2+ⓘ	no	86.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Genus-specific secondary metabolome in Allokutzneria and Kibdelosporangium.	Ma MJ, Yu WC, Sun HY, Dong BC, Hu GA, Zhou ZY, Hua Y, Basnet BB, Yu YL, Wang H, Wei B.	Synth Syst Biotechnol	10.1016/j.synbio.2024.03.015	2024
	A rare peptide scaffold in kineomicins, the glycopeptide antibiotics produced by Actinokineospora auranticolor DSM 44650.	Yushchuk O, Berini F, Zhong L, Ruckert-Reed C, Bernasconi E, Bartolone L, Busche T, Kalinowski J, Sussmuth RD, Marinelli F.	Commun Chem	10.1038/s42004-025-01534-x	2025
Genetics	High-Quality Draft Genome Sequence of Kibdelosporangium philippinense, Generated by Hybrid Assembly of Short and Long Sequencing Reads.	Fedorov EA, Omeragic M, Shalygina KF, Farwell AC, MacLea KS	Microbiol Resour Announc	10.1128/mra.00020-22	2022
Phylogeny	Kibdelosporangium lantanae sp. nov., isolated from the rhizosphere soil of an ornamental plant, Lantana camara L.	Li D, Huang Y, Song S, Xue C, Wu Y, Deng X	Int J Syst Evol Microbiol	10.1099/ijs.0.000302	2015
Phylogeny	Kibdelosporangium phytohabitans sp. nov., a novel endophytic actinomycete isolated from oil-seed plant Jatropha curcas L. containing 1-aminocyclopropane-1-carboxylic acid deaminase.	Xing K, Bian GK, Qin S, Klenk HP, Yuan B, Zhang YJ, Li WJ, Jiang JH	Antonie Van Leeuwenhoek	10.1007/s10482-011-9652-4	2011

References

#11610	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 44226
#19638	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;
#68368	Automatically annotated from API 20E .
#68382	Automatically annotated from API zym .
#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 .
#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 )
#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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Kibdelosporangium philippinense (DSM 44226, ATCC 49844, NRRL 18198)

Name and taxonomic classification

Morphology

Colony morphology

Multicellular morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Spore formation

Halophily

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API 20E

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_021390435

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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