Name: Amycolatopsis pretoriensis ARC-OV1 0181
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 13247

Type strain:

Species: Amycolatopsis pretoriensis

Strain Designation: ARC-OV1 0181

Culture col. no.: DSM 44654, ARC OV1 0181, JCM 12673, NRRL B-24133, CIP 108184

Strain history: CIP <- 2003, D.P. Labeda, NCAUR, USDA, Peoria, Illinois, USA <- 1999, J.M. Donahue, LDDC, Univ. Kentuchky, Lexington, KY, USA: strain ARC-OV1 0181 <- 1999, M.M. Henton, ARC, Pretoria, South Africa

NCBI tax ID(s): 218821 (species)

SI-ID 97718

NRRL B-24133, DSM 44654, JCM 12673, CIP 108184

Section

Amycolatopsis pretoriensis ARC-OV1 0181 is an obligate aerobe, mesophilic, Gram-positive animal pathogen that builds an aerial mycelium and was isolated from equine placenta.

filament-shaped
Gram-positive
animal pathogen
mesophilic
obligate 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 pretoriensis**
	Full Scientific Name (LPSN)	Amycolatopsis pretoriensis Labeda et al. 2003

Information on morphological and physiological properties Morphology

[Ref.: #121951]	Gram stain	positive

[Ref.: #121951]	Cell shape	filament-shaped

[Ref.: #121951]	Motility	no

[Ref.: #20087]	Colony color	Honey yellow (1005)
[Ref.: #20087]	Incubation period	10-14 days
[Ref.: #20087]	Cultivation medium used	ISP 2

[Ref.: #20087]	Colony color	Cream (9001)
[Ref.: #20087]	Incubation period	10-14 days
[Ref.: #20087]	Cultivation medium used	ISP 3

[Ref.: #20087]	Colony color	Cream (9001)
[Ref.: #20087]	Incubation period	10-14 days
[Ref.: #20087]	Cultivation medium used	ISP 4

[Ref.: #20087]	Colony color	Beige (1001)
[Ref.: #20087]	Incubation period	10-14 days
[Ref.: #20087]	Cultivation medium used	ISP 5

[Ref.: #20087]	Colony color	Beige (1001)
[Ref.: #20087]	Incubation period	10-14 days
[Ref.: #20087]	Cultivation medium used	ISP 6

[Ref.: #20087]	Colony color	Beige (1001)
[Ref.: #20087]	Incubation period	10-14 days
[Ref.: #20087]	Cultivation medium used	ISP 7

[Ref.: #20087]	Multicellular complex forming ability	yes
[Ref.: #20087]	Multicellular complex name	Aerial Mycelium
[Ref.: #20087]	Multicellular complex color	Cream (9001)
[Ref.: #20087]	Medium Name (multicellularity)	ISP 2

[Ref.: #20087]	Multicellular complex forming ability	yes
[Ref.: #20087]	Multicellular complex name	Aerial Mycelium
[Ref.: #20087]	Multicellular complex color	Cream (9001)
[Ref.: #20087]	Medium Name (multicellularity)	ISP 3

[Ref.: #20087]	Multicellular complex forming ability	yes
[Ref.: #20087]	Multicellular complex name	Aerial Mycelium
[Ref.: #20087]	Multicellular complex color	Cream (9001)
[Ref.: #20087]	Medium Name (multicellularity)	ISP 4

[Ref.: #20087]	Multicellular complex forming ability	no
[Ref.: #20087]	Medium Name (multicellularity)	ISP 5

[Ref.: #20087]	Multicellular complex forming ability	no
[Ref.: #20087]	Medium Name (multicellularity)	ISP 6

[Ref.: #20087]	Multicellular complex forming ability	no
[Ref.: #20087]	Medium Name (multicellularity)	ISP 7

Information on culture and growth conditions Culture and growth conditions

[Ref.: #11963]

Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

[Ref.: #11963]

Culture medium growth

[Ref.: #11963]

Culture medium link

Medium recipe at MediaDive

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Culture medium composition

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Culture medium

N-Z-AMINE-MEDIUM (DSMZ Medium 554)

[Ref.: #11963]

Culture medium growth

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Culture medium link

Medium recipe at MediaDive

[Ref.: #11963]

Culture medium composition

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[Ref.: #20087]

Culture medium

ISP 2

[Ref.: #20087]

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

[Ref.: #20087]

Culture medium growth

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Culture medium composition

expand / minimize

[Ref.: #33905]

Culture medium

MEDIUM 56 - for Micromonospora purpurea

[Ref.: #33905]

Culture medium growth

[Ref.: #33905]

Culture medium composition

expand / minimize

[Ref.: #121951]

Culture medium

CIP Medium 56

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Culture medium growth

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Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #11963]		growth	28 °C
[Ref.: #33905]		growth	30 °C
[Ref.: #67770]		growth	28 °C
[Ref.: #121951]		growth	25-37 °C
[Ref.: #121951]	no	growth	10 °C
[Ref.: #121951]	no	growth	41 °C
[Ref.: #121951]	no	growth	45 °C

[Ref.: #11963]	Temperature range	mesophilic
[Ref.: #33905]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic
[Ref.: #121951]	Temperature range	mesophilic
[Ref.: #121951]	Temperature range	psychrophilic
[Ref.: #121951]	Temperature range	thermophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #121951]

Oxygen tolerance

obligate aerobe

	Salt	Tested relation		Salt conc.
[Ref.: #121951]	NaCl		growth	0-4	%
[Ref.: #121951]	NaCl	no	growth	6	%
[Ref.: #121951]	NaCl	no	growth	8	%
[Ref.: #121951]	NaCl	no	growth	10	%

[Ref.: #67770]

Observation

quinones: MK-9(H₂), MK-9(H₄)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #20087]	arabinose ChEBI	+
[Ref.: #20087]	cellulose ChEBI	+
[Ref.: #121951]	citrate ChEBI	-	carbon source
[Ref.: #121951]	esculin ChEBI	+	hydrolysis
[Ref.: #20087]	fructose ChEBI	+
[Ref.: #20087]	glucose ChEBI	+
[Ref.: #121951]	hippurate ChEBI	+	hydrolysis
[Ref.: #20087]	mannitol ChEBI	+
[Ref.: #20087]	myo-inositol ChEBI	+
[Ref.: #121951]	nitrate ChEBI	-	reduction
[Ref.: #121951]	nitrate ChEBI	-	respiration
[Ref.: #121951]	nitrite ChEBI	-	reduction
[Ref.: #20087]	raffinose ChEBI	+
[Ref.: #20087]	rhamnose ChEBI	+
[Ref.: #20087]	sucrose ChEBI	+
[Ref.: #20087]	xylose ChEBI	+
	Only first 10 entries are displayed. Click here to see all.

	Antibiotica	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #121951]		0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)	yes	no

	Metabolite production	Metabolite	Production
[Ref.: #121951]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #121951]		acetoin ChEBI	-
[Ref.: #121951]		glucose ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #121951]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #68382]	alpha-chymotrypsin	+	3.4.21.1	* from API zym
[Ref.: #121951]	amylase	-
[Ref.: #121951]	beta-galactosidase	+	3.2.1.23
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #121951]	caseinase	+	3.4.21.50
[Ref.: #121951]	catalase	+	1.11.1.6
[Ref.: #121951]	DNase	-
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #121951]	gamma-glutamyltransferase	+	2.3.2.2
[Ref.: #121951]	gelatinase	+/-
[Ref.: #121951]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #121951]	lipase	-
[Ref.: #121951]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #121951]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #121951]	oxidase	-
[Ref.: #121951]	phenylalanine ammonia-lyase	-	4.3.1.24
[Ref.: #121951]	protease	-
[Ref.: #121951]	tryptophan deaminase	-
[Ref.: #121951]	tween esterase	-
[Ref.: #121951]	urease	-	3.5.1.5
	Only first 10 entries are displayed. Click here to see all.

API® Biotype100:

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

	API ID	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
[Ref.: #121951]	2629	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.: #20087]	868	not determinedn.d.	+	+	+	+	+	+	+	+	+	+	+	+	+	-	+	+	+	+	+
[Ref.: #121951]	10961	-	-	+	+	-	+	-	-	-	+	+	+	-	-	-	-	-	+	-	-

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

[Ref.: #11963]	Sample type/isolated from	equine placenta
[Ref.: #11963]	Geographic location (country and/or sea, region)	Pretoria South Africa
[Ref.: #11963]	Country	South Africa
[Ref.: #11963]	Country ISO 3 Code	ZAF
[Ref.: #11963]	Continent	Africa

[Ref.: #67770]	Sample type/isolated from	Equine placentas
[Ref.: #67770]	Geographic location (country and/or sea, region)	Pretoria
[Ref.: #67770]	Country	South Africa
[Ref.: #67770]	Country ISO 3 Code	ZAF
[Ref.: #67770]	Continent	Africa

[Ref.: #121951]	Sample type/isolated from	Animal, Equine, placenta
[Ref.: #121951]	Geographic location (country and/or sea, region)	Pretoria
[Ref.: #121951]	Country	South Africa
[Ref.: #121951]	Country ISO 3 Code	ZAF
[Ref.: #121951]	Continent	Africa
* marker position based on {}

Isolation sources categories

#Host	#Mammals	#Equidae (Horse)
#Host Body Product	#Urogenital tract	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AY183356 (>99% sequence identity) for Amycolatopsis from Microbeatlas

Aquatic Samples	156
Soil Samples	4583
Animal Samples	306
Plant Samples	815
Total Samples	5860

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

[Ref.: #11963]	Pathogenicity (animal)	yes
[Ref.: #11963]	Biosafety level	2	Risk group (German classification) According to TRBA 466
[Ref.: #20087]	Biosafety level	1	German classification
[Ref.: #121951]	Biosafety level	1	Risk group (French classification)

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.: #11963]	Amycolatopsis pretoriensis 16S ribosomal RNA gene, partial sequence	AY183356	1398	ENA	218821 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Amycolatopsis pretoriensis DSM 44654	GCA_900107925	contig	GenBank	218821 tax ID
[Ref.: #67770]	Amycolatopsis pretoriensis NRRL B-24133	GCA_002156025	scaffold	GenBank	218821 tax ID
[Ref.: #66792]	Amycolatopsis pretoriensis strain DSM 44654	218821.8	wgs	PATRIC	218821 tax ID	*
[Ref.: #66792]	Amycolatopsis pretoriensis DSM 44654	2675903153	draft	JGI IMG/M	218821 tax ID	*

[Ref.: #67770]

GC-content

71.2 mol%

genome sequence analysis

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Amycolatopsis pretoriensis strain DSM 44654 PATRIC: 218821.8
[Ref.: #69480]	motile	no	91.803	no
[Ref.: #69480]	gram-positive	yes	85.101	no
[Ref.: #69480]	anaerobic	no	99.336	no
[Ref.: #69480]	aerobic	yes	93.364	no
[Ref.: #69480]	halophile	no	88.583	no
[Ref.: #69480]	spore-forming	yes	87.894	no
[Ref.: #69480]	glucose-util	yes	88.701	no
[Ref.: #69480]	flagellated	no	97.064	no
[Ref.: #69480]	thermophile	no	98.53	yes
[Ref.: #69480]	glucose-ferment	no	92.121	no

Availability in culture collections External links

[Ref.: #11963]

Culture collection no.

DSM 44654, ARC OV1 0181, JCM 12673, NRRL B-24133, CIP 108184

[Ref.: #82451]

SI-ID 97718

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Amycolatopsis camponoti sp. nov., new tetracenomycin-producing actinomycete isolated from carpenter ant Camponotus vagus.	Zakalyukina YV, Osterman IA, Wolf J, Neumann-Schaal M, Nouioui I, Biryukov MV	Antonie Van Leeuwenhoek	10.1007/s10482-022-01716-w	2022	*
Phylogeny	Amycolatopsis silviterrae sp. nov., isolated from forest soil.	Jamjan W, Suriyachadkun C, Tanasupawat S, Sakai K, Tashiro Y, Okugawa Y, Tongpim S	Int J Syst Evol Microbiol	10.1099/ijsem.0.002687	2018	*
Phylogeny	Amycolatopsis stemonae sp. nov., isolated from a Thai medicinal plant.	Klykleung N, Tanasupawat S, Pittayakhajonwut P, Ohkuma M, Kudo T	Int J Syst Evol Microbiol	10.1099/ijsem.0.000509	2015	*
Phylogeny	Reclassification of Amycolatopsis mediterranei DSM 46095 as Amycolatopsis rifamycinica sp. nov.	Bala S, Khanna R, Dadhwal M, Prabagaran SR, Shivaji S, Cullum J, Lal R	Int J Syst Evol Microbiol	10.1099/ijs.0.02901-0	2004	*
Phylogeny	Amycolatopsis kentuckyensis sp. nov., Amycolatopsis lexingtonensis sp. nov. and Amycolatopsis pretoriensis sp. nov., isolated from equine placentas.	Labeda DP, Donahue JM, Williams NM, Sells SF, Henton MM	Int J Syst Evol Microbiol	10.1099/ijs.0.02691-0	2003	*

References

#11963

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 44654

#20087

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 )

#33905 ; Curators of the CIP;

#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;

#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 .

#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) .

#82451

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-ID97718.1 )

#121951 Collection of Institut Pasteur ; Curators of the CIP; CIP 108184
* These data were automatically processed and therefore are not curated

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Amycolatopsis pretoriensis strain DSM 44654

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