Name: Amycolatopsis taiwanensis 0345M-7
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 13263

Type strain:

Species: Amycolatopsis taiwanensis

Strain Designation: 0345M-7

Culture col. no.: DSM 45107, BCRC 16802, KCTC 19116, JCM 14925, NBRC 102103, NCIMB 14409, BCRC 0345.7

Strain history: <- M Tseng, BCRC, Taiwan

NCBI tax ID(s): 1120984 (strain), 342230 (species)

SI-ID 297124

BCRC 16802, KCTC 19116, CCRC 16802, NBRC 102103, DSM 45107, JCM 14925

Section

Amycolatopsis taiwanensis 0345M-7 is an aerobe, spore-forming, mesophilic bacterium that was isolated from soil.

Gram-positive
rod-shaped
spore-forming
aerobe
mesophilic
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 taiwanensis**
	Full Scientific Name (LPSN)	Amycolatopsis taiwanensis Tseng et al. 2006

Information on morphological and physiological properties Morphology

[Ref.: #31737]	Gram stain	positive
[Ref.: #67771]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #31737]	Cell shape	rod-shaped

[Ref.: #31737]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %92.243

[Ref.: #31737]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #12349]

Culture medium

GPHF-MEDIUM (DSMZ Medium 553)

[Ref.: #12349]

Culture medium growth

[Ref.: #12349]

Culture medium link

Medium recipe at MediaDive

[Ref.: #12349]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #12349]	growth	28 °C
[Ref.: #31737]	growth	20-40 °C
[Ref.: #31737]	optimum	30 °C
[Ref.: #67770]	growth	28 °C
[Ref.: #67771]	growth	28 °C

[Ref.: #12349]	Temperature range	mesophilic
[Ref.: #31737]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #31737]			optimum	7
[Ref.: #31737]			growth	7

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31737]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #31737]	Ability of spore formation	yes
[Ref.: #69481]	Ability of spore formation	yes Confidence in %100
[Ref.: #69480]	Ability of spore formation	yes Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31737]		NaCl		growth	0-1	%
[Ref.: #31737]		NaCl		optimum	0-1	%

[Ref.: #31737]	Observation	aggregates in chains
[Ref.: #67770]	Observation	quinones: MK-9(H₄)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	+	assimilation	* from API 20NE
[Ref.: #31737]	arabinose ChEBI	+	carbon source
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #31737]	cellobiose ChEBI	+	carbon source
[Ref.: #68369]	D-glucose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-mannose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #31737]	esculin ChEBI	+	hydrolysis
[Ref.: #68369]	esculin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #68369]	gelatin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	+	assimilation	* from API 20NE
[Ref.: #31737]	glucose ChEBI	+	carbon source
[Ref.: #68369]	N-acetylglucosamine ChEBI	+	assimilation	* from API 20NE
[Ref.: #31737]	nitrate ChEBI	+	reduction
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #31737]	sucrose ChEBI	+	carbon source
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
	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.: #68382]	acid phosphatase	-	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	-	3.1.3.1	* 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.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68369]	beta-glucosidase	+	3.2.1.21	* from API 20NE
[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 lipase (C 8)	+		* from API zym
[Ref.: #68369]	gelatinase	+		* from API 20NE
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	-		* from API zym
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE
[Ref.: #68382]	valine arylamidase	-		* from API zym
	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.: #12349]	24890	-	-	-	-	-	+	+	+	+	+/-	+	+	+	+/-	+	-	+	+/-	+/-	-	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.: #12349]	14199	-	-	+/-	+	-	+	-	-	-	+/-	-	-	-	-	-	-	+/-	-	-	-

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

[Ref.: #12349]	Sample type/isolated from	soil
[Ref.: #12349]	Geographic location (country and/or sea, region)	Yilan country
[Ref.: #12349]	Country	Taiwan
[Ref.: #12349]	Country ISO 3 Code	TWN
[Ref.: #12349]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Soil
[Ref.: #67770]	Geographic location (country and/or sea, region)	Yilan county
[Ref.: #67770]	Country	Taiwan
[Ref.: #67770]	Country ISO 3 Code	TWN
[Ref.: #67770]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From soil
[Ref.: #67771]	Geographic location (country and/or sea, region)	Yilan
[Ref.: #67771]	Country	Taiwan
[Ref.: #67771]	Country ISO 3 Code	TWN
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ160215 (>99% sequence identity) for Amycolatopsis from Microbeatlas

Aquatic Samples	27
Soil Samples	505
Animal Samples	73
Plant Samples	88
Total Samples	693

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

[Ref.: #12349]

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.: #12349]	Amycolatopsis taiwanensis strain 0345M-7 16S ribosomal RNA gene, partial sequence	DQ160215	1507	ENA	342230 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Amycolatopsis taiwanensis DSM 45107	GCA_000519205	scaffold	GenBank	1120984 tax ID
[Ref.: #66792]	Amycolatopsis taiwanensis DSM 45107	1120984.3	wgs	PATRIC	1120984 tax ID	*
[Ref.: #66792]	Amycolatopsis taiwanensis DSM 45107	2515154032	draft	JGI IMG/M	1120984 tax ID	*

[Ref.: #12349]	GC-content	68.9 mol%
[Ref.: #67770]	GC-content	68.9 mol%	high performance liquid chromatography (HPLC)

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: Amycolatopsis taiwanensis DSM 45107 DSM 45107 NCBI: GCA_000519205.1
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Amycolatopsis taiwanensis DSM 45107 PATRIC: 1120984.3
[Ref.: #69480]	motile	no	94.392	yes
[Ref.: #69480]	flagellated	no	98.464	yes
[Ref.: #69480]	gram-positive	yes	85.576	yes
[Ref.: #69480]	anaerobic	no	99.148	yes
[Ref.: #69480]	aerobic	yes	90.859	yes
[Ref.: #69480]	halophile	no	83.797	no
[Ref.: #69480]	spore-forming	yes	86.586	no
[Ref.: #69480]	glucose-util	yes	87.445	yes
[Ref.: #69480]	thermophile	no	96.747	yes
[Ref.: #69480]	glucose-ferment	no	91.415	yes

Availability in culture collections External links

[Ref.: #12349]

Culture collection no.

DSM 45107, BCRC 16802, KCTC 19116, JCM 14925, NBRC 102103, NCIMB 14409, BCRC 0345.7

[Ref.: #82467]

SI-ID 297124

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Amycolatopsis pithecelloba sp. nov., a novel actinomycete isolated from roots of Pithecellobium dulce in Thailand.	Mingma R, Inahashi Y, Matsumoto A, Takahashi Y, Duangmal K	J Antibiot (Tokyo)	10.1038/s41429-019-0271-z	2020	*
Phylogeny	Amycolatopsis taiwanensis sp. nov., from soil.	Tseng M, Yang SF, Li WJ, Jiang CL	Int J Syst Evol Microbiol	10.1099/ijs.0.64149-0	2006	*

References

#12349

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45107

#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 )

#31737

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 #28013 (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 .

#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) .

#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 )

#82467

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-ID297124.1 )

#28013

IJSEM 1811 2006 ( DOI 10.1099/ijs.0.64149-0 , PubMed 16902013 )

* These data were automatically processed and therefore are not curated

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Amycolatopsis taiwanensis DSM 45107 DSM 45107

Amycolatopsis taiwanensis DSM 45107

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