Name: Agromyces salentinus 108989
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 7273

Type strain:

Species: Agromyces salentinus

Strain Designation: 108989, 20-5

Culture col. no.: DSM 16198, HKI 0320, JCM 14323, CIP 108989, IAM 15297, NCIMB 13989

Strain history: I. Groth 20-5 (=HKI 0320) <-- Ch. Weigel.

NCBI tax ID(s): 269421 (species)

Section

Agromyces salentinus 108989 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from soil sample.

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

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	07-12-2022 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Micrococcales*
	Family	*Microbacteriaceae*
	Genus	*Agromyces*
	Species	**Agromyces salentinus**
	Full Scientific Name (PNU)	Agromyces salentinus Jurado et al. 2005

Information on morphological and physiological properties Morphology

[Ref.: #31281]	Gram stain	positive
[Ref.: #31281]	Cell shape	rod-shaped
[Ref.: #31281]	Motility	no

[Ref.: #18303]	Colony color	Rapeseed yellow (1021)
[Ref.: #18303]	Incubation period	10-14 days
[Ref.: #18303]	Cultivation medium used	ISP 2

[Ref.: #18303]	Colony color	Rapeseed yellow (1021)
[Ref.: #18303]	Incubation period	10-14 days
[Ref.: #18303]	Cultivation medium used	ISP 3

[Ref.: #18303]	Colony color	Rapeseed yellow (1021)
[Ref.: #18303]	Incubation period	10-14 days
[Ref.: #18303]	Cultivation medium used	ISP 4

[Ref.: #18303]	Colony color	Rapeseed yellow (1021)
[Ref.: #18303]	Incubation period	10-14 days
[Ref.: #18303]	Cultivation medium used	ISP 5

[Ref.: #18303]	Colony color	Rapeseed yellow (1021)
[Ref.: #18303]	Incubation period	10-14 days
[Ref.: #18303]	Cultivation medium used	ISP 6

[Ref.: #18303]	Colony color	Rapeseed yellow (1021)
[Ref.: #18303]	Incubation period	10-14 days
[Ref.: #18303]	Cultivation medium used	ISP 7

[Ref.: #31281]

Pigment production

yes

[Ref.: #18303]	Multicellular complex forming ability	no
[Ref.: #18303]	Medium Name (multicellularity)	ISP 2

[Ref.: #18303]	Multicellular complex forming ability	no
[Ref.: #18303]	Medium Name (multicellularity)	ISP 3

[Ref.: #18303]	Multicellular complex forming ability	no
[Ref.: #18303]	Medium Name (multicellularity)	ISP 4

[Ref.: #18303]	Multicellular complex forming ability	no
[Ref.: #18303]	Medium Name (multicellularity)	ISP 5

[Ref.: #18303]	Multicellular complex forming ability	no
[Ref.: #18303]	Medium Name (multicellularity)	ISP 6

[Ref.: #18303]	Multicellular complex forming ability	no
[Ref.: #18303]	Medium Name (multicellularity)	ISP 7

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6320]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #6320]

Culture medium growth

[Ref.: #6320]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #6320]

Culture medium composition

expand / minimize

[Ref.: #6320]

Culture medium

TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)

[Ref.: #6320]

Culture medium growth

[Ref.: #6320]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #6320]

Culture medium composition

expand / minimize

[Ref.: #18303]

Culture medium

ISP 2

[Ref.: #18303]

Culture medium growth

[Ref.: #18303]

Culture medium composition

expand / minimize

[Ref.: #18303]

Culture medium

ISP 3

[Ref.: #18303]

Culture medium growth

[Ref.: #18303]

Culture medium composition

expand / minimize

[Ref.: #18303]

Culture medium

ISP 4

[Ref.: #18303]

Culture medium growth

[Ref.: #18303]

Culture medium composition

expand / minimize

[Ref.: #18303]

Culture medium

ISP 5

[Ref.: #18303]

Culture medium growth

[Ref.: #18303]

Culture medium composition

expand / minimize

[Ref.: #18303]

Culture medium

ISP 6

[Ref.: #18303]

Culture medium growth

[Ref.: #18303]

Culture medium composition

expand / minimize

[Ref.: #18303]

Culture medium

ISP 7

[Ref.: #18303]

Culture medium growth

[Ref.: #18303]

Culture medium composition

expand / minimize

[Ref.: #36774]

Culture medium

MEDIUM 72- for trypto casein soja agar

[Ref.: #36774]

Culture medium growth

[Ref.: #36774]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #6320]	growth	28 °C
[Ref.: #18303]	optimum	28 °C
[Ref.: #31281]	growth	10-37 °C
[Ref.: #31281]	optimum	24 °C
[Ref.: #36774]	growth	30 °C
[Ref.: #67770]	growth	28 °C

[Ref.: #6320]	Temperature range	mesophilic
[Ref.: #18303]	Temperature range	mesophilic
[Ref.: #31281]	Temperature range	psychrophilic
[Ref.: #36774]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31281]

Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31281]		NaCl		growth	0-4	%
[Ref.: #31281]		NaCl		optimum	2	%

[Ref.: #31281]	Observation	aggregates in clumps
[Ref.: #67770]	Observation	quinones: MK-12, MK-11, MK-10, MK-13

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31281]	acetate ChEBI	+	carbon source
[Ref.: #31281]	arabinose ChEBI	+	carbon source
[Ref.: #31281]	cellobiose ChEBI	+	carbon source
[Ref.: #31281]	esculin ChEBI	+	hydrolysis
[Ref.: #68379]	esculin ChEBI	+	hydrolysis	* from API Coryne
[Ref.: #31281]	fructose ChEBI	+	carbon source
[Ref.: #31281]	fucose ChEBI	+	carbon source
[Ref.: #31281]	galactose ChEBI	+	carbon source
[Ref.: #68379]	gelatin ChEBI	-	hydrolysis	* from API Coryne
[Ref.: #31281]	glucose ChEBI	+	carbon source
[Ref.: #31281]	glycerol ChEBI	+	carbon source
[Ref.: #31281]	glycogen ChEBI	+	carbon source
[Ref.: #31281]	maltose ChEBI	+	carbon source
[Ref.: #31281]	raffinose ChEBI	+	carbon source
[Ref.: #31281]	rhamnose ChEBI	+	carbon source
[Ref.: #31281]	ribose ChEBI	+	carbon source
[Ref.: #31281]	salicin ChEBI	+	carbon source
[Ref.: #31281]	sucrose ChEBI	+	carbon source
[Ref.: #68379]	sucrose ChEBI	-	fermentation	* from API Coryne
[Ref.: #31281]	trehalose ChEBI	+	carbon source
[Ref.: #68379]	urea ChEBI	+	hydrolysis	* from API Coryne
[Ref.: #31281]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite
[Ref.: #31281]		hydrogen sulfide ChEBI

	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-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.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym, API Coryne
[Ref.: #68382]	alpha-mannosidase	+	3.2.1.24	* from API zym
[Ref.: #68382]	beta-galactosidase	+	3.2.1.23	* from API zym, API Coryne
[Ref.: #68382]	beta-glucosidase	+	3.2.1.21	* from API zym, API Coryne
[Ref.: #68382]	beta-glucuronidase	+	3.2.1.31	* from API zym
[Ref.: #68379]	beta-glucuronidase	-	3.2.1.31	* from API Coryne
[Ref.: #31281]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[Ref.: #31281]	cytochrome oxidase	+	1.9.3.1
[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.: #68382]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API zym
[Ref.: #68379]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API Coryne
[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.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #31281]	urease	+	3.5.1.5
[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.: #18303]	7	not determinedn.d.	+	+	+/-	-	+	+	-	+	+	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	-	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.: #18303]	20	not determinedn.d.	-	+	+	-	+	+	+	+	-	+	+	+	+	+	+	+	+	+	+

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

[Ref.: #6320]	Sample type/isolated from	soil sample
[Ref.: #6320]	Geographic location (country and/or sea, region)	Porto Badisco
[Ref.: #6320]	Country	Italy
[Ref.: #6320]	Country ISO 3 Code	ITA
[Ref.: #6320]	Continent	Europe

[Ref.: #67770]	Sample type/isolated from	Top soil sample collected a few meters from the entrance of Grotta dei Cervi
[Ref.: #67770]	Geographic location (country and/or sea, region)	Porto Badisco
[Ref.: #67770]	Country	Italy
[Ref.: #67770]	Country ISO 3 Code	ITA
[Ref.: #67770]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AY507129 (>99% sequence identity) for Agromyces from Microbeatlas

Aquatic Samples	38
Soil Samples	271
Animal Samples	92
Plant Samples	12
Total Samples	413

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

[Ref.: #6320]

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.: #6320]	Agromyces salentinus strain 20-5 16S ribosomal RNA gene, partial sequence	AY507129	1381	ENA	269421 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Agromyces salentinus JCM 14323	GCA_009749395	contig	GenBank	269421 tax ID
[Ref.: #66792]	Agromyces salentinus strain JCM 14323	269421.3	wgs	PATRIC	269421 tax ID	*
[Ref.: #66792]	Agromyces terreus strain JCM 14323	424795.3	wgs	PATRIC	424795 tax ID	*

[Ref.: #6320]	GC-content	72.3 mol%
[Ref.: #67770]	GC-content	72.3 mol%	thermal denaturation, midpoint method (Tm)

Availability in culture collections External links

[Ref.: #6320]

Culture collection no.

DSM 16198, HKI 0320, JCM 14323, CIP 108989, IAM 15297, NCIMB 13989

[Ref.: #20218]

Associated Passport(s) in StrainInfo

382639, 382640

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Agromyces laixinhei sp. nov. isolated from bat feces in China.	Cheng Y, Bai Y, Huang Y, Yang J, Lu S, Jin D, Pu J, Zheng H, Li J, Huang Y, Wang S, Xu J	J Microbiol	10.1007/s12275-021-0546-5	2021	*
Phylogeny	Agromyces salentinus sp. nov. and Agromyces neolithicus sp. nov.	Jurado V, Groth I, Gonzalez JM, Laiz L, Saiz-Jimenez C	Int J Syst Evol Microbiol	10.1099/ijs.0.63199-0	2005	*

References

#6320

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16198

#18303

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 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#31281

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 #27601 (see below)

#36774 ; 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;

#68379

Automatically annotated from API Coryne .

#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 .

#27601

IJSEM 153 2005 ( DOI 10.1099/ijs.0.63199-0 , PubMed 15653869 )

* These data were automatically processed and therefore are not curated

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