Name: Actinomadura citrea DSM 43461
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 16925

Type strain:

Species: Actinomadura citrea

Culture col. no.: DSM 43461, ATCC 27887, IMET 9573, INA 1849, JCM 3295, BCRC 13352, CGMCC 4.1514, IFO 14678, IMSNU 20001, KCTC 9617, MTCC 1828, NBRC 14678, NRRL B-16121, VKM Ac-1119

Strain history: KCC A-0295 <-- MS 2135 <-- ATCC 27887 <-- INA 1849.

NCBI tax ID(s): 46158 (species)

SI-ID 265448

ATCC 27887, NRRL B-16121, DSM 43461, IMET 9573, JCM 3295, CCRC 13352, IFO 14678, VKM Ac-1119, KCTC 9617, NBRC 14678, BCRC 13352, NBIMCC 1033, CGMCC 4.1514

Section

Actinomadura citrea DSM 43461 is a spore-forming, Gram-positive bacterium that builds an aerial mycelium and was isolated from soil.

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

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Streptosporangiales*
	Family	*Thermomonosporaceae*
	Genus	*Actinomadura*
	Species	**Actinomadura citrea**
	Full Scientific Name (LPSN)	Actinomadura citrea Lavrova et al. 1972 (Approved Lists 1980)

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %91.377

[Ref.: #69480]	Motility	no Confidence in %90.973

[Ref.: #19572]	Colony color	Bright yellow
[Ref.: #19572]	Incubation period	10-14 days
[Ref.: #19572]	Cultivation medium used	ISP 4

[Ref.: #19572]	Colony color	Bright yellow
[Ref.: #19572]	Incubation period	10-14 days
[Ref.: #19572]	Cultivation medium used	ISP 5

[Ref.: #19572]	Colony color	Bright yellow
[Ref.: #19572]	Incubation period	10-14 days
[Ref.: #19572]	Cultivation medium used	ISP 7

[Ref.: #19572]	Incubation period	10-14 days
[Ref.: #19572]	Cultivation medium used	ISP 2

[Ref.: #19572]	Incubation period	10-14 days
[Ref.: #19572]	Cultivation medium used	ISP 3

[Ref.: #19572]	Incubation period	10-14 days
[Ref.: #19572]	Cultivation medium used	ISP 6

[Ref.: #19572]	Multicellular complex forming ability	yes
[Ref.: #19572]	Multicellular complex name	Aerial Mycelium
[Ref.: #19572]	Multicellular complex color	White
[Ref.: #19572]	Medium Name (multicellularity)	ISP 2

[Ref.: #19572]	Multicellular complex forming ability	yes
[Ref.: #19572]	Multicellular complex name	Aerial Mycelium
[Ref.: #19572]	Multicellular complex color	White
[Ref.: #19572]	Medium Name (multicellularity)	ISP 3

[Ref.: #19572]	Multicellular complex forming ability	yes
[Ref.: #19572]	Multicellular complex name	Aerial Mycelium
[Ref.: #19572]	Medium Name (multicellularity)	ISP 4

[Ref.: #19572]	Multicellular complex forming ability	no
[Ref.: #19572]	Medium Name (multicellularity)	ISP 5

[Ref.: #19572]	Multicellular complex forming ability	no
[Ref.: #19572]	Medium Name (multicellularity)	ISP 6

[Ref.: #19572]	Multicellular complex forming ability	no
[Ref.: #19572]	Medium Name (multicellularity)	ISP 7

Information on culture and growth conditions Culture and growth conditions

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Culture medium

ISP 2

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Culture medium growth

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Culture medium composition

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Culture medium

ISP 3

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Culture medium growth

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Culture medium composition

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Culture medium

ISP 4

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Culture medium growth

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Culture medium composition

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Culture medium

ISP 5

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Culture medium growth

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Culture medium composition

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Culture medium

ISP 6

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Culture medium growth

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Culture medium composition

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Culture medium

ISP 7

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Culture medium growth

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Culture medium composition

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Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

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Culture medium

GPHF-MEDIUM (DSMZ Medium 553)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

		Temperature
[Ref.: #11036]	growth	28 °C
[Ref.: #19572]	optimum	28 °C
[Ref.: #67770]	growth	28 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #19572]	Spore description	Formation of spores, spore surface smooth
[Ref.: #19572]	Type of spore	spore
[Ref.: #19572]	Ability of spore formation	yes
[Ref.: #69481]	Ability of spore formation	yes Confidence in %100
[Ref.: #69480]	Ability of spore formation	yes Confidence in %92.831

[Ref.: #67770]

Observation

quinones: MK-9(H₆), MK-9(H₆), MK-9(H₈), MK-9(H₄)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68368]	arginine ChEBI	+	hydrolysis	* from API 20E
[Ref.: #68368]	citrate ChEBI	+	assimilation	* from API 20E
[Ref.: #68368]	gelatin ChEBI	+	hydrolysis	* from API 20E
[Ref.: #68368]	lysine ChEBI	+	degradation	* from API 20E
[Ref.: #68368]	ornithine ChEBI	+	degradation	* from API 20E
[Ref.: #68368]	tryptophan ChEBI	-	energy source	* from API 20E
[Ref.: #68368]	urea ChEBI	+	hydrolysis	* from API 20E

	Metabolite	Production
[Ref.: #68368]	acetoin ChEBI	yes	* from API 20E
[Ref.: #68368]	hydrogen sulfide ChEBI	no	* from API 20E
[Ref.: #68368]	indole ChEBI	no	* from API 20E

	Physiological tests	Metabolite	Voges-Proskauer-test	Indole test
[Ref.: #68368]		acetoin ChEBI	+		* from API 20E
[Ref.: #68368]		indole ChEBI		-	* from API 20E

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68368]	arginine dihydrolase	+	3.5.3.6	* from API 20E
[Ref.: #68368]	beta-galactosidase	+	3.2.1.23	* from API 20E
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	+	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68368]	gelatinase	+		* from API 20E
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	+		* from API zym
[Ref.: #68368]	lysine decarboxylase	+	4.1.1.18	* from API 20E
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #68368]	ornithine decarboxylase	+	4.1.1.17	* from API 20E
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #68368]	tryptophan deaminase	-	4.1.99.1	* from API 20E
[Ref.: #68368]	urease	+	3.5.1.5	* from API 20E
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® 20E:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	beta-GalactosidaseONPG	Arginine dihydrolaseADH (Arg)	Lysine decarboxylaseLDC (Lys)	Ornithine decarboxylaseODC	Citrate utilizationCIT	H2S productionH2S	Urease/urea hydrolysisURE	Tryptophan deaminaseTDA (Trp)	Indole productionIND	Acetoin production (Voges Proskauer test)VP	Gelatinase/gelatin hydrolysisGEL	Fermentation/oxidation of D-glucoseGLU	Fermentation/oxidation of D-mannitolMAN	Fermentation/oxidation of inositolINO	Fermentation/oxidation of sorbitolSor	Fermentation/oxidation of L-rhamnoseRHA	Fermentation/oxidation of sucroseSAC	Fermentation/oxidation of melibioseMEL	Fermentation/oxidation of amygdalinAMY	Fermentation/oxidation of L-arabinoseARA	Cytochrome oxidaseOX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	Oxidative catabolisation of D-glucoseOF-O	Fermentation of D-glucoseOF-F
[Ref.: #19572]	423	+	+	+	+	+	-	+	-	-	+	+	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:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #19572]	409	not determinedn.d.	+	+	+	+	+	+	+	-	-	+	+	-	-	-	+	+	-	-	-

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #11036]	Sample type/isolated from	soil

[Ref.: #67770]	Sample type/isolated from	Soil
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #19572]	Biosafety level	1	Risk group (German classification)
[Ref.: #11036]	Biosafety level	1	Risk group (German classification) According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #20218]	Actinomadura citrea strain ATCC27887 16S ribosomal RNA gene, partial sequence	AF051377	117	GenBank ENA	46158 tax ID	*
[Ref.: #20218]	Actinomadura citrea 16S rRNA gene, strain DSM 43461T	AJ420139	1447	GenBank ENA	46158 tax ID	*
[Ref.: #20218]	Actinomadura citrea 16S-23S ribosomal RNA intergenic spacer region, partial sequence	AF134091	446	GenBank ENA	46158 tax ID	*
[Ref.: #20218]	Actinomadura citrea 16S rRNA gene	U49001	1410	GenBank ENA	46158 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Actinomadura citrea DSM 43461	GCA_013409045	contig	GenBank ENA	46158 tax ID
[Ref.: #66792]	Actinomadura citrea JCM 3295	GCA_014648455	scaffold	GenBank ENA	46158 tax ID	*
[Ref.: #66792]	Actinomadura citrea strain DSM 43461	46158.3	wgs	PATRIC	46158 tax ID	*
[Ref.: #66792]	Actinomadura citrea strain JCM 3295	46158.4	wgs	PATRIC	46158 tax ID	*
[Ref.: #66792]	Actinomadura citrea DSM 43461	2844992467	draft	JGI IMG/M	46158 tax ID	*

[Ref.: #11036]	GC-content	67.6 mol%
[Ref.: #67770]	GC-content	67.6 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #67770]	GC-content	68 mol%	thermal denaturation, midpoint method (Tm)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Actinomadura citrea JCM 3295 NCBI: GCA_014648455.1
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Actinomadura citrea JCM 3295 NCBI: GCA_014648455.1
[Ref.: #69480]	flagellated	no	98.132	no
[Ref.: #69480]	gram-positive	yes	91.377	no
[Ref.: #69480]	anaerobic	no	98.621	no
[Ref.: #69480]	aerobic	yes	88.472	no
[Ref.: #69480]	halophile	no	92.129	no
[Ref.: #69480]	spore-forming	yes	92.831	no
[Ref.: #69480]	thermophile	no	96.586	yes
[Ref.: #69480]	glucose-util	yes	90.04	no
[Ref.: #69480]	motile	no	90.973	no
[Ref.: #69480]	glucose-ferment	no	89.888	no

Availability in culture collections External links

[Ref.: #11036]

Culture collection no.

DSM 43461, ATCC 27887, IMET 9573, INA 1849, JCM 3295, BCRC 13352, CGMCC 4.1514, IFO 14678, IMSNU 20001, KCTC 9617, MTCC 1828, NBRC 14678, NRRL B-16121, VKM Ac-1119

[Ref.: #85930]

SI-ID 265448

References

#11036

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 43461

#19572

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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#85930

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID265448.1 )

* These data were automatically processed and therefore are not curated

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