Amycolatopsis magusensis (DSM 45510, JCM 31204, KCTC 29056)

Name: Amycolatopsis magusensis (DSM 45510, JCM 31204, KCTC 29056)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13227

Type strain

Strain Designation KT2025

Culture col. no. DSM 45510 JCM 31204 KCTC 29056 KT2025

NCBI tax ID(s) 882444

Special Collections DSMZ JCM KCTC Wink compendium Literature strains

Links

Amycolatopsis magusensis KT2025 is an aerobe, mesophilic, Gram-positive prokaryote that builds an aerial mycelium and was isolated from arid soil.

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

Name and taxonomic classification

SI-ID 397828

KCTC 29056,JCM 31204,DSM 45510

@ref 20215

Last LPSN update 2025-12-16 09:50:02

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Pseudonocardiales

Family Pseudonocardiaceae

Genus Amycolatopsis

Species Amycolatopsis magusensis

Full scientific name Amycolatopsis magusensis Camas et al. 2013

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
30711	positive	rod-shaped
67771	positive
125439	positive		99.8

Colony morphology

@ref	Colony color	Medium used
69401	Daffodil yellow (1007)	ISP 7
69401	Ivory (1014)	ISP 3
69401	Ivory (1014)	ISP 6
69401	Light ivory (1015)	suter with tyrosine
69401	Light ivory (1015)	suter without tyrosine
69401	Maize yellow (1006), pastel yellow (1034)	ISP 5
69401	Saffron yellow (1017)	ISP 4
69401	Sand yellow (1002)	ISP 2

Multicellular morphology

@ref	Complex name	Complex color	Medium name
69401	Aerial mycelium	Cream (9001)	ISP 2
69401	Aerial mycelium	Cream (9001)	ISP 3
69401	Aerial mycelium	Cream (9001)	ISP 4
69401	Aerial mycelium		ISP 5
69401	Aerial mycelium		ISP 6
69401	Aerial mycelium	Cream (9001)	ISP 7
69401	Aerial mycelium		suter with tyrosine
69401	Aerial mycelium		suter without tyrosine

Pigmentation

@ref	Production	Name
30711
69401		Melanin
69401		soluble pigment

Multimedia

@ref:	69401
multimedia content:	DSM_45510_image3.jpeg
multimedia.multimedia content:	DSM_45510_image3.jpeg
caption:	Plates (65, ISP2, ISP3, ISP4, ISP5, ISP7)
intellectual property rights:	Helmholtz-Zentrum für Infektionsforschung GmbH
manual_annotation:	1

@ref:	69401
multimedia content:	DSM_45510_image4.jpeg
multimedia.multimedia content:	DSM_45510_image4.jpeg
caption:	Plates (65, ISP2, ISP3, ISP4, ISP5, ISP7)
intellectual property rights:	Helmholtz-Zentrum für Infektionsforschung GmbH
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
17456	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

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
17456	positive	growth	28	mesophilic
30711	positive	growth	20-37
30711	positive	optimum	28	mesophilic
67770	positive	growth	28	mesophilic
67771	positive	growth	28	mesophilic

Culture pH

@ref	Ability	Type	PH	PH range
30711	positive	optimum	7
30711	positive	growth	06-10	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
30711	aerobe
67771	aerobe
125439	obligate aerobe	98

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30711	NaCl	positive	growth	0-8 %
69401	NaCl	positive	growth	0-10 %

Observation

@ref	Observation
67770	quinones: MK-9(H₄)
67771	quinones: MK-9(H4)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
30711	22599 ChEBI	arabinose	+	carbon source
69401	22599 ChEBI	arabinose	+	growth
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
30711	17057 ChEBI	cellobiose	+	carbon source
69401	62968 ChEBI	cellulose	+	growth
68379	17634 ChEBI	D-glucose	-	fermentation	from API Coryne
68369	17634 ChEBI	D-glucose	+	assimilation	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
68379	16899 ChEBI	D-mannitol	-	fermentation	from API Coryne
68369	16899 ChEBI	D-mannitol	+	assimilation	from API 20NE
68369	16024 ChEBI	D-mannose	+	assimilation	from API 20NE
68379	16988 ChEBI	D-ribose	-	fermentation	from API Coryne
68379	65327 ChEBI	D-xylose	-	fermentation	from API Coryne
68369	27689 ChEBI	decanoate	-	assimilation	from API 20NE
30711	4853 ChEBI	esculin	+	hydrolysis
68379	4853 ChEBI	esculin	+	hydrolysis	from API Coryne
68369	4853 ChEBI	esculin	+	hydrolysis	from API 20NE
30711	28757 ChEBI	fructose	+	carbon source
69401	28757 ChEBI	fructose	+	growth
30711	28260 ChEBI	galactose	+	carbon source
68379	5291 ChEBI	gelatin	+	hydrolysis	from API Coryne
68369	5291 ChEBI	gelatin	+	hydrolysis	from API 20NE
68369	24265 ChEBI	gluconate	+	assimilation	from API 20NE
69401	17234 ChEBI	glucose	+	growth
30711	29987 ChEBI	glutamate	+	carbon source
68379	28087 ChEBI	glycogen	-	fermentation	from API Coryne
69401	17268 ChEBI	inositol	+	growth
68369	30849 ChEBI	L-arabinose	+	assimilation	from API 20NE
68379	17716 ChEBI	lactose	-	fermentation	from API Coryne
68369	25115 ChEBI	malate	+	assimilation	from API 20NE
68379	17306 ChEBI	maltose	-	fermentation	from API Coryne
30711	29864 ChEBI	mannitol	+	carbon source
30711	37684 ChEBI	mannose	+	carbon source
69401	37684 ChEBI	mannose	+/-	growth
68369	59640 ChEBI	N-acetylglucosamine	+	assimilation	from API 20NE
68379	17632 ChEBI	nitrate	-	reduction	from API Coryne
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
69401	16634 ChEBI	raffinose	+	growth
30711	26546 ChEBI	rhamnose	+	carbon source
69401	26546 ChEBI	rhamnose	+	growth
30711	15963 ChEBI	ribitol	+	carbon source
68379	17992 ChEBI	sucrose	-	fermentation	from API Coryne
69401	17992 ChEBI	sucrose	+	growth
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68379	16199 ChEBI	urea	-	hydrolysis	from API Coryne
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE
69401	18222 ChEBI	xylose	-	growth

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68369	35581 ChEBI	indole		from API 20NE

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68369	35581 ChEBI	indole	-	from API 20NE

Enzymes

@ref	Value	Activity	Ec
30711	acid phosphatase	+	3.1.3.2
68382	acid phosphatase	+	3.1.3.2	from API zym
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68379	alkaline phosphatase	+	3.1.3.1	from API Coryne
68382	alpha-chymotrypsin	+	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
30711	alpha-galactosidase	+	3.2.1.22
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68379	alpha-glucosidase	+	3.2.1.20	from API Coryne
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68379	beta-galactosidase	-	3.2.1.23	from API Coryne
68369	beta-glucosidase	+	3.2.1.21	from API 20NE
68379	beta-glucosidase	+	3.2.1.21	from API Coryne
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68379	beta-glucuronidase	-	3.2.1.31	from API Coryne
30711	catalase	+	1.11.1.6
30711	gelatinase	+
68379	gelatinase	+		from API Coryne
68369	gelatinase	+		from API 20NE
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
68379	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API Coryne
68382	naphthol-AS-BI-phosphohydrolase	-		from API zym
68379	pyrazinamidase	-	3.5.1.B15	from API Coryne
68379	pyrrolidonyl arylamidase	-	3.4.19.3	from API Coryne
30711	urease	+	3.5.1.5
68379	urease	-	3.5.1.5	from API Coryne
68369	urease	-	3.5.1.5	from API 20NE

API coryne

@ref	Reduction of nitrateNIT	PYZ	PYRA	PAL	beta GUR	beta GAL	alpha GLU	beta NAG	ESC	URE	GEL	Control fermentationControl	GLU	RIB	XYL	MAN	MAL	LAC	SAC	GLYG	CAT
69401	-	-	-	+	-	-	+	+	+	-	+	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
69401	not determinedn.d.	+	+/-	+	+	+	+	+/-	+	+	+	-	+	+/-	-	+	+	+	-	-
17456	-	+	+/-	+/-	+	+	+/-	+	+/-	+	+	-	-	-	-	+	+/-	+	-	-

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
17456	-	-	-	-	-	+	+	+	+	+	+	+	+	+/-	+	-	+/-	+	+/-	+/-	not determinedn.d.

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil
#Condition	#Xerophilic	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
17456	arid soil	Northern Cyprus, Magusa	Cyprus	CYP	Europe
67770	Arid soil from Magusa	northern Cyprus	Turkey	TUR	Asia
67771	From soil	Arid estate, Abuja city, Nijeria	Cyprus	CYP	Europe

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
17456	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	ASM1787555v1 assembly for Amycolatopsis magusensis DSM 45510	contig	GCA_017875555	882444.3	2917971604	882444	77.61

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
17456	Amycolatopsis magusensis strain KT2025 16S ribosomal RNA gene, partial sequence	HQ157190	1471		882444

GC content

@ref	GC-content (mol%)	Method
17456	70.8	fluorimetric
30711	70.8
67770	70.8	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Amycolatopsis magusensis DSM 45510
NCBI: GCA_017875555

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	87.80	no
125439	motility	BacteriaNetⓘ	no	89.80	no
125439	gram_stain	BacteriaNetⓘ	positive	99.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.00	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Amycolatopsis magusensis strain DSM 45510
PATRIC: 882444.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	89.57	yes
125438	anaerobic	anaerobicⓘ	no	98.42	no
125438	aerobic	aerobicⓘ	yes	89.04	no
125438	spore-forming	spore-formingⓘ	yes	82.89	no
125438	thermophilic	thermophileⓘ	no	97.50	yes
125438	flagellated	motile2+ⓘ	no	85.59	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Genomic insight into O-demethylation of 4-methoxybenzoate by a two-component system from Amycolatopsis magusensis KCCM40447.	Pardhe BD, Paudel L, Han SR, Oh TJ.	Heliyon	10.1016/j.heliyon.2024.e25083	2024
Phylogeny	Amycolatopsis antarctica sp. nov., isolated from the surface of an Antarctic brown macroalga.	Wang J, Leiva S, Huang J, Huang Y	Int J Syst Evol Microbiol	10.1099/ijsem.0.002844	2018
Phylogeny	Amycolatopsis xuchangensis sp. nov. and Amycolatopsis jiguanensis sp. nov., isolated from soil.	Huang JR, Ming H, Li S, Zhao ZL, Meng XL, Zhang JX, Tang Z, Li WJ, Nie GX	Antonie Van Leeuwenhoek	10.1007/s10482-016-0742-1	2016
Phylogeny	Amycolatopsis cihanbeyliensis sp. nov., a halotolerant actinomycete isolated from a salt mine.	Tatar D, Sazak A, Guven K, Cetin D, Sahin N	Int J Syst Evol Microbiol	10.1099/ijs.0.050963-0	2013
Phylogeny	Amycolatopsis magusensis sp. nov., isolated from soil.	Camas M, Sahin N, Sazak A, Sproer C, Klenk HP	Int J Syst Evol Microbiol	10.1099/ijs.0.042770-0	2012

References

#17456	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45510
#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 )
#30711	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 #27042 (see below)
#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;
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#68369	Automatically annotated from API 20NE .
#68379	Automatically annotated from API Coryne .
#68382	Automatically annotated from API zym .
#69401	Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#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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Amycolatopsis magusensis (DSM 45510, JCM 31204, KCTC 29056)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Pigmentation

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Halophily

Observation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API coryne

API zym

API 20NE

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_017875555

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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