Name: Rugosimonospora africana Delta3
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 8049

Type strain:

Species: Rugosimonospora africana

Strain Designation: Delta3

Culture col. no.: DSM 45228, JCM 18305, NBRC 104875

Strain history: <- P. Monciardini, Vicuron Pharmaceuticals, Gerenzano, Italy; Delta3 <- L. Cavaletti

NCBI tax ID(s): 556532 (species)

SI-ID 405065

DSM 45228

Section

Rugosimonospora africana Delta3 is an aerobe, spore-forming, mesophilic bacterium that was isolated from 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	*Micromonosporales*
	Family	*Micromonosporaceae*
	Genus	*Rugosimonospora*
	Species	**Rugosimonospora africana**
	Full Scientific Name (LPSN)	Rugosimonospora africana Monciardini et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #29286]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #29286]	Cell width	0.75 µm

[Ref.: #29286]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %95.857

[Ref.: #20184]	Colony color	Light ivory (1015)
[Ref.: #20184]	Incubation period	10-14 days
[Ref.: #20184]	Cultivation medium used	ISP 3

[Ref.: #20184]	Colony color	Brown beige (1011)
[Ref.: #20184]	Incubation period	10-14 days
[Ref.: #20184]	Cultivation medium used	ISP 7

[Ref.: #29286]

Pigment production

yes

[Ref.: #20184]	Multicellular complex forming ability	no
[Ref.: #20184]	Medium Name (multicellularity)	ISP 3

[Ref.: #20184]	Multicellular complex forming ability	no
[Ref.: #20184]	Medium Name (multicellularity)	ISP 7

Information on culture and growth conditions Culture and growth conditions

[Ref.: #15807]

Culture medium

BTT MEDIUM (DSMZ Medium 1109)

[Ref.: #15807]

Culture medium growth

[Ref.: #15807]

Culture medium link

Medium recipe at MediaDive

[Ref.: #15807]

Culture medium composition

expand / minimize

[Ref.: #20184]

Culture medium

ISP 3

[Ref.: #20184]

Culture medium growth

[Ref.: #20184]

Culture medium composition

expand / minimize

[Ref.: #20184]

Culture medium

ISP 7

[Ref.: #20184]

Culture medium growth

[Ref.: #20184]

Culture medium composition

expand / minimize

[Ref.: #15807]

Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

[Ref.: #15807]

Culture medium growth

[Ref.: #15807]

Culture medium link

Medium recipe at MediaDive

[Ref.: #15807]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #15807]	growth	28 °C
[Ref.: #20184]	optimum	28 °C
[Ref.: #29286]	growth	15-37 °C
[Ref.: #29286]	optimum	25 °C

[Ref.: #15807]	Temperature range	mesophilic
[Ref.: #20184]	Temperature range	mesophilic
[Ref.: #29286]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #29286]			optimum	5.5
[Ref.: #29286]			growth	4.5-7.2

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29286]

Oxygen tolerance

aerobe

[Ref.: #29286]	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.: #29286]		NaCl		growth	<2	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #20184]	arabinose ChEBI	+/-
[Ref.: #20184]	cellulose ChEBI	+
[Ref.: #20184]	fructose ChEBI	+/-
[Ref.: #20184]	glucose ChEBI	+
[Ref.: #29286]	glycerol ChEBI	+	carbon source
[Ref.: #20184]	mannitol ChEBI	+/-
[Ref.: #29286]	mannose ChEBI	+	carbon source
[Ref.: #20184]	myo-inositol ChEBI	+
[Ref.: #20184]	raffinose ChEBI	-
[Ref.: #20184]	rhamnose ChEBI	+
[Ref.: #20184]	sucrose ChEBI	+/-
[Ref.: #20184]	xylose ChEBI	-
[Ref.: #29286]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #29286]		hydrogen sulfide ChEBI	yes

	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
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[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 (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #29286]	gelatinase	+
[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.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

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.: #20184]	965	not determinedn.d.	+	+	+	-	-	-	-	-	-	+	+	-	-	-	-	-	+	-	+

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

[Ref.: #15807]	Sample type/isolated from	soil
[Ref.: #15807]	Country	Cameroon
[Ref.: #15807]	Country ISO 3 Code	CMR
[Ref.: #15807]	Continent	Africa
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

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

[Ref.: #15807]

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.: #15807]	Rugosimonospora acidiphila partial 16S rRNA gene, type strain NBRC 104875T	FM208262	1439	ENA	556532 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Rugosimonospora africana NBRC 104875	GCA_016862975	contig	GenBank	556532 tax ID	*
[Ref.: #66792]	Rugosimonospora africana strain NBRC 104875	556532.3	wgs	PATRIC	556532 tax ID	*

[Ref.: #15807]

GC-content

71.9 mol%

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: Rugosimonospora africana strain NBRC 104875 PATRIC: 556532.3
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Rugosimonospora africana strain NBRC 104875 PATRIC: 556532.3
[Ref.: #69480]	gram-positive	yes	87.835	yes
[Ref.: #69480]	anaerobic	no	98.836	yes
[Ref.: #69480]	halophile	no	93.496	no
[Ref.: #69480]	spore-forming	yes	91.953	no
[Ref.: #69480]	glucose-util	yes	87.067	yes
[Ref.: #69480]	thermophile	no	98.642	no
[Ref.: #69480]	aerobic	yes	91.374	yes
[Ref.: #69480]	motile	no	92.128	yes
[Ref.: #69480]	flagellated	no	97.955	yes
[Ref.: #69480]	glucose-ferment	no	90.725	no

Availability in culture collections External links

[Ref.: #15807]

Culture collection no.

DSM 45228, JCM 18305, NBRC 104875

[Ref.: #77477]

SI-ID 405065

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Novel members of the family Micromonosporaceae, Rugosimonospora acidiphila gen. nov., sp. nov. and Rugosimonospora africana sp. nov.	Monciardini P, Cavaletti L, Ranghetti A, Schumann P, Rohde M, Bamonte R, Sosio M, Mezzelani A, Donadio S	Int J Syst Evol Microbiol	10.1099/ijs.0.010231-0	2009	*

References

#15807

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45228

#20184

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 )

#29286

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 #25702 (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) .

#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 )

#77477

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-ID405065.1 )

#25702

IJSEM 2752 2009 ( DOI 10.1099/ijs.0.010231-0 , PubMed 19625428 )

* These data were automatically processed and therefore are not curated

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Rugosimonospora africana strain NBRC 104875

Rugosimonospora africana strain NBRC 104875

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