Actinopolymorpha rutila (DSM 18448, CCTCC AA 206004, JCM 16537)

Name: Actinopolymorpha rutila (DSM 18448, CCTCC AA 206004, JCM 16537)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 11159

Type strain

Culture col. no. DSM 18448 CCTCC AA 206004 JCM 16537 YIM 45725

NCBI tax ID(s) 446787

Special Collections DSMZ JCM Wink compendium Literature strains

History DSMZ <- S.-K. Tang <- Y.-X. Wang; YIM 45725 JCM <-- DSM 18448 <-- S.-K. Tang <-- Y.-X. Wang YIM 45725.

Links

Actinopolymorpha rutila DSM 18448 is an aerobe, Gram-positive, rod-shaped bacterium that was isolated from forest soil.

Gram-positive rod-shaped aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 396798

JCM 16537,DSM 18448

@ref 20215

Last LPSN update 2026-05-29 08:27:30

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Propionibacteriales

Family Actinopolymorphaceae

Genus Actinopolymorpha

Species Actinopolymorpha rutila

Full scientific name Actinopolymorpha rutila Wang et al. 2008

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility	Confidence
32524	positive	rod-shaped
125439	positive			97.852

Colony morphology

@ref	Colony color	Incubation period	Medium used
18319	Salmon orange (2012)	10-14 days	ISP 2
18319	Salmon orange (2012)	10-14 days	ISP 3
18319	Beige red (3012)	10-14 days	ISP 4
18319	Ivory (1014)	10-14 days	ISP 5
18319	Salmon orange (2012)	10-14 days	ISP 6
18319	Beige red (3012)	10-14 days	ISP 7

Multicellular morphology

@ref	Forms multicellular complex	Medium name
18319		ISP 2
18319		ISP 3
18319		ISP 4
18319		ISP 5
18319		ISP 6
18319		ISP 7

Pigmentation

32524

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
7477	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
7477	CZAPEK PEPTONE AGAR (DSMZ Medium 83)	Medium recipe at MediaDive	Name: CZAPEK PEPTONE AGAR (DSMZ Medium 83) Composition: Sucrose 30.0 g/l Agar 20.0 g/l Peptone 5.0 g/l NaNO3 3.0 g/l Yeast extract 2.0 g/l K2HPO4 1.0 g/l MgSO4 x 7 H2O 0.5 g/l KCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Distilled water
18319	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
18319	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:
18319	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
18319	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
18319	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
18319	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)
7477	positive	growth	28
18319	positive	optimum	28
32524	positive	growth	15-37
32524	positive	optimum	28
67770	positive	growth	28

Culture pH

@ref	Ability	Type	PH
32524	positive	optimum	06-08
32524	positive	growth	06-08

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
32524	aerobe
125439	obligate aerobe	99.475

Spore formation

32524

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
32524	NaCl	positive	growth	0-5 %
32524	NaCl	positive	optimum	0-5 %

Observation

@ref	Observation
32524	aggregates in chains
67770	quinones: MK-9(H₄)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
32524	17057 ChEBI	cellobiose	+	carbon source
32524	28260 ChEBI	galactose	+	carbon source
32524	17716 ChEBI	lactose	+	carbon source
32524	15792 ChEBI	malonate	+	carbon source
32524	17306 ChEBI	maltose	+	carbon source
32524	37684 ChEBI	mannose	+	carbon source
32524	28053 ChEBI	melibiose	+	carbon source
32524	16634 ChEBI	raffinose	+	carbon source
32524	15963 ChEBI	ribitol	+	carbon source
32524	33942 ChEBI	ribose	+	carbon source
32524	17814 ChEBI	salicin	+	carbon source
32524	17151 ChEBI	xylitol	+	carbon source

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
68382	beta-galactosidase	-	3.2.1.23	from API zym
68382	beta-glucosidase	+	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
32524	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
32524	cytochrome oxidase	+	1.9.3.1
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
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
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
68382	trypsin	-	3.4.21.4	from API zym
68382	valine arylamidase	+		from API zym

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
18319	not determinedn.d.	+	+	+	-	+	+	-	-	-	+	+	-	-	-	+	+	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Forest
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
7477	forest soil	Yunnan Province, south-west China	China	CHN	Asia
67770	Soil in Yunnan Province		China	CHN	Asia

Taxonmaps

69479

Global distribution of 16S sequence EF601829 (>99% sequence identity) for Actinopolymorpha from Microbeatlas

Aquatic Samples	38
Soil Samples	505
Animal Samples	37
Plant Samples	53
Total Samples	633

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
18319	1	German classification According to TRBA 466
7477	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
67770	ASM1340785v1 assembly for Actinopolymorpha rutila DSM 18448	contig	GCA_013407855	446787.3	2830934857	446787	73.03
124043	ASM3953240v1 assembly for Actinopolymorpha rutila JCM 16537	scaffold	GCA_039532405			446787	57.98

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
7477	Actinopolymorpha rutilus strain YIM 45725 16S ribosomal RNA gene, partial sequence	EF601829	1429		446787

GC content

@ref	GC-content (mol%)	Method
7477	67.7	high performance liquid chromatography (HPLC)
32524	67.7

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM1340785v1 assembly for Actinopolymorpha rutila DSM 18448
NCBI: GCA_013407855

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.48	no
125439	gram_stain	BacteriaNetⓘ	positive	97.85	no
125439	motility	BacteriaNetⓘ	no	88.12	no
125439	spore_formation	BacteriaNetⓘ	yes	59.06	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Actinopolymorpha rutila strain DSM 18448
PATRIC: 446787.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	88.50	yes
125438	anaerobic	anaerobicⓘ	no	93.86	yes
125438	spore-forming	spore-formingⓘ	yes	69.86	no
125438	aerobic	aerobicⓘ	yes	88.90	no
125438	thermophilic	thermophileⓘ	no	94.42	no
125438	flagellated	motile2+ⓘ	no	88.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Actinopolymorpha pittospori sp. nov., an endophyte isolated from surface-sterilized leaves of an apricot tree (Pittosporum phylliraeoides).	Kaewkla O, Franco CMM	Int J Syst Evol Microbiol	10.1099/ijs.0.029579-0	2010
Phylogeny	Actinopolymorpha alba sp. nov., isolated from a rhizosphere soil.	Cao YR, Jiang Y, Wu JY, Xu LH, Jiang CL	Int J Syst Evol Microbiol	10.1099/ijs.0.010280-0	2009
Phylogeny	Actinopolymorpha rutila sp. nov., isolated from a forest soil.	Wang YX, Zhang YQ, Xu LH, Li WJ	Int J Syst Evol Microbiol	10.1099/ijs.0.65629-0	2008

References

#7477	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18448
#18319	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 )
#28743	IJSEM 2443 2008 ( DOI 10.1099/ijs.0.65629-0 , PubMed 18842872 )
#32524	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #28743
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 )
#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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Actinopolymorpha rutila (DSM 18448, CCTCC AA 206004, JCM 16537)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Enzymes

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_013407855

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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