Actinomadura rupiterrae (DSM 45251, KCTC 19559, CS5-AC15)

Name: Actinomadura rupiterrae (DSM 45251, KCTC 19559, CS5-AC15)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 17003

Type strain

Strain Designation CS5-AC15

Culture col. no. DSM 45251 KCTC 19559 CS5-AC15

NCBI tax ID(s) 559627

Special Collections DSMZ KCTC Literature strains

History <- S. D. Lee, Cheju National Univ., Rep. of Korea; CS5-AC15 <- SD Lee, Cheju Univ.

Links

Actinomadura rupiterrae CS5-AC15 is an aerobe, spore-forming, Gram-positive bacterium that was isolated from soil from a cliff.

spore-forming Gram-positive aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 402517

KCTC 19559,DSM 45251

@ref 20215

Last LPSN update 2026-02-09 11:22:06

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Streptosporangiales

Family Thermomonosporaceae

Genus Actinomadura

Species Actinomadura rupiterrae

Full scientific name Actinomadura rupiterrae Lee 2012

Morphology

Cell morphology

@ref	Gram stain	Confidence
67771	positive
125439	positive	100
125439		94.9

Pigmentation

30399

Productionyes

Multimedia

@ref:	15916
multimedia content:	DSM_45251.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_45251.jpg
caption:	Medium 554 28°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
15916	TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)	Medium recipe at MediaDive	Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
15916	N-Z-AMINE-MEDIUM (DSMZ Medium 554)	Medium recipe at MediaDive	Name: N-Z-AMINE-MEDIUM (DSMZ Medium 554) Composition: Starch 20.0 g/l Agar 20.0 g/l Glucose 10.0 g/l N-Z amine 5.0 g/l Yeast extract 5.0 g/l CaCO3 1.0 g/l Distilled water
15916	BHI MEDIUM (DSMZ Medium 215)	Medium recipe at MediaDive	Name: BHI MEDIUM (DSMZ Medium 215) Composition: Brain heart infusion 37.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
15916	positive	growth	28
30399	positive	growth	20-42
30399	positive	optimum	37-42
67771	positive	growth	30

Culture pH

@ref	Ability	Type	PH	PH range
30399	positive	optimum	06-08
30399	positive	growth	05-11	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
67771	aerobe
125439	obligate aerobe	98.2

Spore formation

@ref	Spore formation	Confidence
30399
125439		98.3

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30399	NaCl	positive	growth	<1 %

Observation

67771

Observationquinones: MK-9(H6), MK-9(H8)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
30399	16947 ChEBI	citrate	+	carbon source
30399	4853 ChEBI	esculin	+	hydrolysis
30399	17234 ChEBI	glucose	+	carbon source
30399	17716 ChEBI	lactose	+	carbon source
30399	29864 ChEBI	mannitol	+	carbon source
30399	17992 ChEBI	sucrose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
30399	catalase	+	1.11.1.6
30399	gelatinase	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Geologic
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
15916	soil from a cliff	Jeju, Mara Island	Republic of Korea	KOR	Asia
67771	From soil of cliff	Mara island, Jeju	Republic of Korea	KOR	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
15916	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	ASM2417212v1 assembly for Actinomadura rupiterrae DSM 45251	contig	GCA_024172125	559627.3	2863206357	559627	66.05

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
15916	Actinomadura rupiterrae CS5-AC15 partial 16S rRNA gene, strain CS5-AC15	FM210337	1437		559627

GC content

@ref	GC-content (mol%)	Method
15916	70.9	high performance liquid chromatography (HPLC)
30399	70.9

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Actinomadura rupiterrae DSM 45251
NCBI: GCA_024172125

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	98.30	no
125439	motility	BacteriaNetⓘ	no	94.90	no
125439	gram_stain	BacteriaNetⓘ	positive	100.00	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.20	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Actinomadura harenae sp. nov., a novel actinomycete isolated from sea sand in Sanya.	Hu J, Han C, Yu B, Zhao J, Guo X, Shen Y, Wang X, Xiang W	Int J Syst Evol Microbiol	10.1099/ijsem.0.003819	2020
Phylogeny	Actinomadura logoneensis sp. nov., a novel actinomycete isolated from the soil.	Shi L, Han L, Guo X, Zhao J, Wang J, Wang H, Jiang S, Xiang W, Wang X	Int J Syst Evol Microbiol	10.1099/ijsem.0.003579	2019
Phylogeny	Actinomadura rhizosphaerae sp. nov., isolated from rhizosphere soil of the plant Azadirachta indica.	Malisorn K, Kanchanasin P, Phongsopitanun W, Tanasupawat S	Int J Syst Evol Microbiol	10.1099/ijsem.0.002940	2018
Phylogeny	Actinomadura rupiterrae sp. nov., isolated from cliff soil.	Lee SD	Int J Syst Evol Microbiol	10.1099/ijs.0.035121-0	2011

References

#15916	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45251
#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 )
#26736	IJSEM 990 2012 ( DOI 10.1099/ijs.0.035121-0 , PubMed 21685258 )
#30399	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 #26736
#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) .
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#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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Actinomadura rupiterrae (DSM 45251, KCTC 19559, CS5-AC15)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_024172125

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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