Name: Amycolatopsis magusensis KT2025
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 13227

Type strain:

Species: Amycolatopsis magusensis

Strain Designation: KT2025

Culture col. no.: DSM 45510, JCM 31204, KCTC 29056

Strain history: <- Nevzat Sahin, Ondokuz Mayis Univ., Turkey

NCBI tax ID(s): 882444 (species)

SI-ID 397828

DSM 45510

Special Collections

Section

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

Gram-positive
rod-shaped
spore-forming
aerobe
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	*Pseudonocardiales*
	Family	*Pseudonocardiaceae*
	Genus	*Amycolatopsis*
	Species	**Amycolatopsis magusensis**
	Full Scientific Name (LPSN)	Amycolatopsis magusensis Camas et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30711]	Gram stain	positive
[Ref.: #67771]	Gram stain	positive

[Ref.: #30711]	Cell shape	rod-shaped

[Ref.: #30711]	Motility	no

[Ref.: #69401]	Colony color	Daffodil yellow (1007)
[Ref.: #69401]	Cultivation medium used	ISP 7

[Ref.: #69401]	Colony color	Ivory (1014)
[Ref.: #69401]	Cultivation medium used	ISP 3

[Ref.: #69401]	Colony color	Ivory (1014)
[Ref.: #69401]	Cultivation medium used	ISP 6

[Ref.: #69401]	Colony color	Light ivory (1015)
[Ref.: #69401]	Cultivation medium used	suter with tyrosine

[Ref.: #69401]	Colony color	Light ivory (1015)
[Ref.: #69401]	Cultivation medium used	suter without tyrosine

[Ref.: #69401]	Colony color	Maize yellow (1006), pastel yellow (1034)
[Ref.: #69401]	Cultivation medium used	ISP 5

[Ref.: #69401]	Colony color	Saffron yellow (1017)
[Ref.: #69401]	Cultivation medium used	ISP 4

[Ref.: #69401]	Colony color	Sand yellow (1002)
[Ref.: #69401]	Cultivation medium used	ISP 2

[Ref.: #30711]	Pigment production	yes
[Ref.: #69401]	Pigment production	no
[Ref.: #69401]	Pigment name	Melanin
[Ref.: #69401]	Pigment production	no
[Ref.: #69401]	Pigment name	soluble pigment

[Ref.: #69401]	Multicellular complex forming ability	yes
[Ref.: #69401]	Multicellular complex name	Aerial mycelium
[Ref.: #69401]	Multicellular complex color	Cream (9001)
[Ref.: #69401]	Medium Name (multicellularity)	ISP 2

[Ref.: #69401]	Multicellular complex forming ability	yes
[Ref.: #69401]	Multicellular complex name	Aerial mycelium
[Ref.: #69401]	Multicellular complex color	Cream (9001)
[Ref.: #69401]	Medium Name (multicellularity)	ISP 3

[Ref.: #69401]	Multicellular complex forming ability	yes
[Ref.: #69401]	Multicellular complex name	Aerial mycelium
[Ref.: #69401]	Multicellular complex color	Cream (9001)
[Ref.: #69401]	Medium Name (multicellularity)	ISP 4

[Ref.: #69401]	Multicellular complex forming ability	no
[Ref.: #69401]	Multicellular complex name	Aerial mycelium
[Ref.: #69401]	Medium Name (multicellularity)	ISP 5

[Ref.: #69401]	Multicellular complex forming ability	no
[Ref.: #69401]	Multicellular complex name	Aerial mycelium
[Ref.: #69401]	Medium Name (multicellularity)	ISP 6

[Ref.: #69401]	Multicellular complex forming ability	yes
[Ref.: #69401]	Multicellular complex name	Aerial mycelium
[Ref.: #69401]	Multicellular complex color	Cream (9001)
[Ref.: #69401]	Medium Name (multicellularity)	ISP 7

[Ref.: #69401]	Multicellular complex forming ability	no
[Ref.: #69401]	Multicellular complex name	Aerial mycelium
[Ref.: #69401]	Medium Name (multicellularity)	suter with tyrosine

[Ref.: #69401]	Multicellular complex forming ability	no
[Ref.: #69401]	Multicellular complex name	Aerial mycelium
[Ref.: #69401]	Medium Name (multicellularity)	suter without tyrosine

Multimedia content

[Ref.: #69401]

Caption:

Plates (65, ISP2, ISP3, ISP4, ISP5, ISP7)

[Ref.: #69401]

Intellectual property rights:

Helmholtz-Zentrum für Infektionsforschung GmbH

[Ref.: #69401]

Caption:

Plates (65, ISP2, ISP3, ISP4, ISP5, ISP7)

[Ref.: #69401]

Intellectual property rights:

Helmholtz-Zentrum für Infektionsforschung GmbH

Information on culture and growth conditions Culture and growth conditions

[Ref.: #17456]

Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

[Ref.: #17456]

Culture medium growth

[Ref.: #17456]

Culture medium link

Medium recipe at MediaDive

[Ref.: #17456]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #17456]	growth	28 °C
[Ref.: #30711]	growth	20-37 °C
[Ref.: #30711]	optimum	28 °C
[Ref.: #67770]	growth	28 °C
[Ref.: #67771]	growth	28 °C

	pH	Kind of pH		pH
[Ref.: #30711]			optimum	7
[Ref.: #30711]			growth	06-10

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30711]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #69481]

Ability of spore formation

yes Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30711]		NaCl		growth	0-8	%
[Ref.: #69401]		NaCl		growth	0-10	%

[Ref.: #67770]	Observation	quinones: MK-9(H₄)
[Ref.: #67771]	Observation	quinones: MK-9(H4)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30711]	arabinose ChEBI	+	carbon source
[Ref.: #69401]	arabinose ChEBI	+	growth
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #30711]	cellobiose ChEBI	+	carbon source
[Ref.: #69401]	cellulose ChEBI	+	growth
[Ref.: #68369]	D-glucose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE, API Coryne
[Ref.: #68369]	D-mannitol ChEBI	+	assimilation	* from API 20NE
[Ref.: #68379]	D-mannitol ChEBI	-	fermentation	* from API Coryne
[Ref.: #68369]	D-mannose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68379]	D-ribose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	D-xylose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #30711]	esculin ChEBI	+	hydrolysis
[Ref.: #68369]	esculin ChEBI	+	hydrolysis	* from API 20NE, API Coryne
[Ref.: #30711]	fructose ChEBI	+	carbon source
[Ref.: #69401]	fructose ChEBI	+	growth
[Ref.: #30711]	galactose ChEBI	+	carbon source
[Ref.: #68369]	gelatin ChEBI	+	hydrolysis	* from API 20NE, API Coryne
[Ref.: #68369]	gluconate ChEBI	+	assimilation	* from API 20NE
[Ref.: #69401]	glucose ChEBI	+	growth
[Ref.: #30711]	glutamate ChEBI	+	carbon source
[Ref.: #68379]	glycogen ChEBI	-	fermentation	* from API Coryne
[Ref.: #69401]	inositol ChEBI	+	growth
[Ref.: #68369]	L-arabinose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68379]	lactose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68379]	maltose ChEBI	-	fermentation	* from API Coryne
[Ref.: #30711]	mannitol ChEBI	+	carbon source
[Ref.: #30711]	mannose ChEBI	+	carbon source
[Ref.: #69401]	mannose ChEBI	+/-	growth
[Ref.: #68369]	N-acetylglucosamine ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE, API Coryne
[Ref.: #69401]	raffinose ChEBI	+	growth
[Ref.: #30711]	rhamnose ChEBI	+	carbon source
[Ref.: #69401]	rhamnose ChEBI	+	growth
[Ref.: #30711]	ribitol ChEBI	+	carbon source
[Ref.: #69401]	sucrose ChEBI	+	growth
[Ref.: #68379]	sucrose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE, API Coryne
[Ref.: #69401]	xylose ChEBI	-	growth
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #30711]	acid phosphatase	+	3.1.3.2
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68379]	alkaline phosphatase	+	3.1.3.1	* from API Coryne, 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.: #30711]	alpha-galactosidase	+	3.2.1.22
[Ref.: #68379]	alpha-glucosidase	+	3.2.1.20	* from API Coryne, API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68379]	beta-galactosidase	-	3.2.1.23	* from API Coryne
[Ref.: #68379]	beta-glucosidase	+	3.2.1.21	* from API Coryne, API 20NE
[Ref.: #68379]	beta-glucuronidase	-	3.2.1.31	* from API Coryne, API zym
[Ref.: #30711]	catalase	+	1.11.1.6
[Ref.: #30711]	gelatinase	+
[Ref.: #68379]	gelatinase	+		* from API Coryne, API 20NE
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	+		* from API zym
[Ref.: #68379]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API Coryne, API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	-		* from API zym
[Ref.: #68379]	pyrazinamidase	-	3.5.1.B15	* from API Coryne
[Ref.: #68379]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API Coryne
[Ref.: #30711]	urease	+	3.5.1.5
[Ref.: #68379]	urease	-	3.5.1.5	* from API Coryne, API 20NE
	Only first 10 entries are displayed. Click here to see all.

API® 20NE:

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

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #17456]	25396	-	-	-	-	-	+	+	+	+	+	+	+	+	+/-	+	-	+/-	+	+/-	+/-	not determinedn.d.

API® Coryne:

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

	API ID	Reduction of nitrateNIT	PyrazinamidasePYZ	Pyrrolidonyl arylamidasePYRA	Alkaline phosphatasePAL	beta-Glucuronidasebeta GUR	beta-Galactosidasebeta GAL	alpha-Glucosidasealpha GLU	N-Acetyl-beta-Glucosidasebeta NAG	Esculin hydrolysis/beta-GlucosidaseESC	Urease/urea hydrolysisURE	Gelatinase/gelatin hydrolysisGEL	Control fermentationControl	Fermentation of D-glucoseGLU	Fermentation of D-riboseRIB	Fermentation of D-xyloseXYL	Fermentation of D-mannitolMAN	Fermentation of maltoseMAL	Fermentation of lactoseLAC	Fermentation of sucroseSAC	Fermentation of glycogenGLYG	CatalaseCAT
[Ref.: #69401]	3894	-	-	-	+	-	-	+	+	+	-	+	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.: #17456]	14360	-	+	+/-	+/-	+	+	+/-	+	+/-	+	+	-	-	-	-	+	+/-	+	-	-
[Ref.: #69401]	6078	not determinedn.d.	+	+/-	+	+	+	+	+/-	+	+	+	-	+	+/-	-	+	+	+	-	-

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

[Ref.: #17456]	Sample type/isolated from	arid soil
[Ref.: #17456]	Geographic location (country and/or sea, region)	Northern Cyprus, Magusa
[Ref.: #17456]	Country	Cyprus
[Ref.: #17456]	Country ISO 3 Code	CYP
[Ref.: #17456]	Continent	Europe

[Ref.: #67770]	Sample type/isolated from	Arid soil from Magusa
[Ref.: #67770]	Geographic location (country and/or sea, region)	northern Cyprus
[Ref.: #67770]	Country	Turkey
[Ref.: #67770]	Country ISO 3 Code	TUR
[Ref.: #67770]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From soil
[Ref.: #67771]	Geographic location (country and/or sea, region)	Arid estate, Abuja city, Nijeria
[Ref.: #67771]	Country	Cyprus
[Ref.: #67771]	Country ISO 3 Code	CYP
[Ref.: #67771]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Soil
#Condition	#Xerophilic	-

What are isolation sources categories?

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

[Ref.: #17456]

Biosafety level

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.: #17456]	Amycolatopsis magusensis strain KT2025 16S ribosomal RNA gene, partial sequence	HQ157190	1471	GenBank ENA	882444 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Amycolatopsis magusensis DSM 45510	GCA_017875555	contig	GenBank ENA	882444 tax ID	*
[Ref.: #66792]	Amycolatopsis magusensis strain DSM 45510	882444.3	wgs	PATRIC	882444 tax ID	*
[Ref.: #66792]	Amycolatopsis magusensis DSM 45510	2917971604	draft	JGI IMG/M	882444 tax ID	*

[Ref.: #17456]	GC-content	70.8 mol%	fluorimetric
[Ref.: #30711]	GC-content	70.8 mol%
[Ref.: #67770]	GC-content	70.8 mol%	thermal denaturation, midpoint method (Tm)

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Amycolatopsis magusensis strain DSM 45510 PATRIC: 882444.3
[Ref.: #69481]	spore-forming	spore-formingⓘ	yes	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Amycolatopsis magusensis strain DSM 45510 PATRIC: 882444.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	89.567	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	98.418	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	89.043	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	yes	82.89	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	97.5	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	85.591	no

Availability in culture collections External links

[Ref.: #17456]

Culture collection no.

DSM 45510, JCM 31204, KCTC 29056

[Ref.: #82433]

SI-ID 397828

Literature:

Topic	Title	Authors	Journal	DOI	Year
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 .

#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 )

#82433

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-ID397828.1 )

#27042

IJSEM 1254 2013 ( DOI 10.1099/ijs.0.042770-0 , PubMed 22771685 )

* These data were automatically processed and therefore are not curated

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Amycolatopsis magusensis strain DSM 45510

Amycolatopsis magusensis strain DSM 45510

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