Saccharothrix ecbatanensis HM 537 | Type strain | DSM 45486, CCUG 63021, UTMC 537, UTMC 00537 | BacDiveID:13488

Strain identifier

BacDive ID: 13488

Type strain:

Species: Saccharothrix ecbatanensis

Strain Designation: HM 537

Culture col. no.: DSM 45486, CCUG 63021, UTMC 537, UTMC 00537

Strain history: <- J. Hamedi, Univ. Tehran, Iran <- F. Mohammadipanah; UTMC 537

NCBI tax ID(s): 1105145 (species)

SI-ID 400822

DSM 45486, CCUG 63021

Section

Saccharothrix ecbatanensis HM 537 is an aerobe, spore-forming, mesophilic bacterium that was isolated from rhizospheric soil.

Gram-positive
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	*Saccharothrix*
	Species	**Saccharothrix ecbatanensis**
	Full Scientific Name (LPSN)	Saccharothrix ecbatanensis Mohammadipanah et al. 2015

Information on morphological and physiological properties Morphology

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

[Ref.: #21431]	Colony color	Light ivory (1015)
[Ref.: #21431]	Incubation period	10-14 days
[Ref.: #21431]	Cultivation medium used	ISP 2

[Ref.: #21431]	Colony color	Ivory (1014)
[Ref.: #21431]	Incubation period	10-14 days
[Ref.: #21431]	Cultivation medium used	ISP 3

[Ref.: #21431]	Colony color	Ivory (1014)
[Ref.: #21431]	Incubation period	10-14 days
[Ref.: #21431]	Cultivation medium used	ISP 4

[Ref.: #21431]	Colony color	Pastel yellow (1034)
[Ref.: #21431]	Incubation period	10-14 days
[Ref.: #21431]	Cultivation medium used	ISP 5

[Ref.: #21431]	Colony color	Light ivory (1015)
[Ref.: #21431]	Incubation period	10-14 days
[Ref.: #21431]	Cultivation medium used	ISP 6

[Ref.: #21431]	Colony color	Light ivory (1015)
[Ref.: #21431]	Incubation period	10-14 days
[Ref.: #21431]	Cultivation medium used	Suter with tyrosine

[Ref.: #21431]	Colony color	Light ivory (1015)
[Ref.: #21431]	Incubation period	10-14 days
[Ref.: #21431]	Cultivation medium used	Suter without tyrosine

[Ref.: #21431]	Incubation period	10-14 days
[Ref.: #21431]	Cultivation medium used	ISP 7

[Ref.: #62934]	Incubation period	2 days

Multimedia content

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Information on culture and growth conditions Culture and growth conditions

Culture medium

ISP 2

Culture medium growth

Culture medium composition

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Culture medium

ISP 3

Culture medium growth

Culture medium composition

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Culture medium

ISP 4

Culture medium growth

Culture medium composition

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Culture medium

ISP 5

Culture medium growth

Culture medium composition

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Culture medium

ISP 6

Culture medium growth

Culture medium composition

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Culture medium

ISP 7

Culture medium growth

Culture medium composition

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Culture medium

Suter with tyrosine

Culture medium growth

Culture medium composition

expand / minimize

Culture medium

Suter without tyrosine

Culture medium growth

Culture medium composition

expand / minimize

Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

Culture medium growth

Culture medium link

Medium recipe at MediaDive

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #17344]			growth	28 °C
[Ref.: #62934]			growth	30 °C

[Ref.: #17344]	Temperature range	mesophilic
[Ref.: #62934]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

Oxygen tolerance

aerobe

[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.: #21431]		NaCl		maximum	7.5	%

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #21431]		arabinose ChEBI	+
[Ref.: #21431]		cellulose ChEBI	-
[Ref.: #68379]		D-glucose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]		D-mannitol ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]		D-ribose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]		D-xylose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]		esculin ChEBI	+	hydrolysis	* from API Coryne
[Ref.: #21431]		fructose ChEBI	+
[Ref.: #68379]		gelatin ChEBI	+	hydrolysis	* from API Coryne
[Ref.: #21431]		glucose ChEBI	+
[Ref.: #68379]		lactose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]		maltose ChEBI	-	fermentation	* from API Coryne
[Ref.: #21431]		mannose ChEBI	+
[Ref.: #21431]		myo-inositol ChEBI	+
[Ref.: #68379]		nitrate ChEBI	-	reduction	* from API Coryne
[Ref.: #21431]		raffinose ChEBI	+
[Ref.: #21431]		rhamnose ChEBI	+
[Ref.: #21431]		sucrose ChEBI	+
[Ref.: #68379]		sucrose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]		urea ChEBI	+	hydrolysis	* from API Coryne
[Ref.: #21431]		xylose ChEBI	+
		Only first 10 entries are displayed. Click here to see all.

	Enzymes	Enzyme	Enzyme activity	EC number
[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.: #68382]		alpha-galactosidase	+	3.2.1.22	* from API zym
[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.: #68379]		beta-galactosidase	+	3.2.1.23	* from API Coryne, API zym
[Ref.: #68379]		beta-glucosidase	+	3.2.1.21	* from API Coryne, API zym
[Ref.: #68379]		beta-glucuronidase	-	3.2.1.31	* from API Coryne
[Ref.: #68382]		esterase (C 4)	+		* from API zym
[Ref.: #68382]		esterase lipase (C 8)	+		* from API zym
[Ref.: #68379]		gelatinase	+		* from API Coryne
[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.: #68379]		pyrazinamidase	-	3.5.1.B15	* from API Coryne
[Ref.: #68379]		pyrrolidonyl arylamidase	-	3.4.19.3	* from API Coryne
[Ref.: #68382]		trypsin	+	3.4.21.4	* from API zym
[Ref.: #68379]		urease	+	3.5.1.5	* from API Coryne
[Ref.: #68382]		valine arylamidase	+		* from API zym
		Only first 10 entries are displayed. Click here to see all.

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.: #21431]	547	-	-	-	+	-	+	+	+	+	+	+	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.: #21431]	1068	not determinedn.d.	+	+	+	+	+	+	+/-	+	+	+	+/-	+	+	+/-	+	+	+	-	-

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

[Ref.: #17344]	Sample type/isolated from	rhizospheric soil
[Ref.: #17344]	Geographic location (country and/or sea, region)	Hamedan Province
[Ref.: #17344]	Country	Iran
[Ref.: #17344]	Country ISO 3 Code	IRN
[Ref.: #17344]	Continent	Asia

[Ref.: #62934]	Sample type/isolated from	Soil,rhizosperic
[Ref.: #62934]	Sampling date	2008
[Ref.: #62934]	Geographic location (country and/or sea, region)	Khuzestan province
[Ref.: #62934]	Country	Iran
[Ref.: #62934]	Country ISO 3 Code	IRN
[Ref.: #62934]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Soil
#Host Body-Site	#Plant	#Rhizosphere

What are isolation sources categories?

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

[Ref.: #21431]	Biosafety level	L1	German classification
[Ref.: #17344]	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.: #17344]	Saccharothrix ecbatanensis strain UTMC 00537 16S ribosomal RNA gene, partial sequence	JN038074	1512	ENA	1105145 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Saccharothrix ecbatanensis DSM 45486	GCA_014205015	contig	GenBank	1105145 tax ID	*
[Ref.: #66792]	Saccharothrix ecbatanensis strain DSM 45486	1105145.3	wgs	PATRIC	1105145 tax ID	*
[Ref.: #66792]	Saccharothrix ecbatanensis DSM 45486	2870721527	draft	JGI IMG/M	1105145 tax ID	*

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: Saccharothrix ecbatanensis strain DSM 45486 PATRIC: 1105145.3
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Saccharothrix ecbatanensis strain DSM 45486 PATRIC: 1105145.3
[Ref.: #69480]	motile	no	89.458	no
[Ref.: #69480]	flagellated	no	97.035	no
[Ref.: #69480]	gram-positive	yes	85.747	no
[Ref.: #69480]	anaerobic	no	98.528	no
[Ref.: #69480]	aerobic	yes	89.702	yes
[Ref.: #69480]	halophile	no	87.639	no
[Ref.: #69480]	spore-forming	yes	95.214	no
[Ref.: #69480]	thermophile	no	99.551	no
[Ref.: #69480]	glucose-util	yes	88.456	no
[Ref.: #69480]	glucose-ferment	no	91.316	yes

Availability in culture collections External links

Culture collection no.

DSM 45486, CCUG 63021, UTMC 537, UTMC 00537

SI-ID 400822

*

Literature:

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Potential of rare actinomycetes in the production of metabolites against multiple oxidant agents.	Mohammadipanah F, Momenilandi M	Pharm Biol	10.1080/13880209.2017.1417451	2018	*
Phylogeny	Saccharothrix isguenensis sp. nov., an actinobacterium isolated from desert soil.	Bouznada K, Bouras N, Mokrane S, Chaabane Chaouch F, Zitouni A, Potter G, Sproer C, Klenk HP, Sabaou N	Int J Syst Evol Microbiol	10.1099/ijsem.0.001430	2016	*
Phylogeny	Saccharothrix ecbatanensis sp. nov., an actinobacterium isolated from soil.	Mohammadipanah F, Hamedi J, Schumann P, Sproer C, Carmen Montero-Calasanz MD, Klenk HP	Int J Syst Evol Microbiol	10.1099/ijsem.0.000607	2015	*

References

#17344

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45486

#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 )

#21431

Wink, J.: Compendium of Actinobacteria . HZI-Helmholtz-Centre for Infection Research, Braunschweig .

#62934 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 63021

#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) .

#66793

Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )

#68379

Automatically annotated from API Coryne .

#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 )

#82680

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-ID400822.1 )

* These data were automatically processed and therefore are not curated

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