Name: Catenulispora rubra Aac-30
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 17637

Type strain:

Species: Catenulispora rubra

Strain Designation: Aac-30

Culture col. no.: DSM 44948, JCM 16000, NBRC 101179

Strain history: DSM 44948 <-- T. Tamura Aac-30 <-- T. Sakane.

NCBI tax ID(s): 280293 (species)

SI-ID 297462

DSM 44948, NBRC 101179, JCM 16000

Special Collections

Section

Catenulispora rubra Aac-30 is an aerobe, spore-forming, Gram-positive bacterium that builds an aerial mycelium and was isolated from soil.

Gram-positive
rod-shaped
spore-forming
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	*Catenulisporales*
	Family	*Catenulisporaceae*
	Genus	*Catenulispora*
	Species	**Catenulispora rubra**
	Full Scientific Name (LPSN)	Catenulispora rubra Tamura et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #32161]	Gram stain	positive

[Ref.: #32161]	Cell width	1.1 µm

[Ref.: #32161]	Cell shape	rod-shaped

[Ref.: #32161]	Motility	no

[Ref.: #19893]	Colony color	Yellow orange
[Ref.: #19893]	Incubation period	10-14 days
[Ref.: #19893]	Cultivation medium used	ISP 2

[Ref.: #19893]	Colony color	Sun yellow
[Ref.: #19893]	Incubation period	10-14 days
[Ref.: #19893]	Cultivation medium used	ISP 3

[Ref.: #19893]	Colony color	Cream
[Ref.: #19893]	Incubation period	10-14 days
[Ref.: #19893]	Cultivation medium used	ISP 4

[Ref.: #19893]	Colony color	Yellow orange
[Ref.: #19893]	Incubation period	10-14 days
[Ref.: #19893]	Cultivation medium used	ISP 5

[Ref.: #19893]	Colony color	Yellow orange
[Ref.: #19893]	Incubation period	10-14 days
[Ref.: #19893]	Cultivation medium used	ISP 6

[Ref.: #19893]	Colony color	Yellow orange
[Ref.: #19893]	Incubation period	10-14 days
[Ref.: #19893]	Cultivation medium used	ISP 7

[Ref.: #32161]

Pigment production

yes

[Ref.: #19893]	Multicellular complex forming ability	no
[Ref.: #19893]	Medium Name (multicellularity)	ISP 2

[Ref.: #19893]	Multicellular complex forming ability	no
[Ref.: #19893]	Medium Name (multicellularity)	ISP 3

[Ref.: #19893]	Multicellular complex forming ability	no
[Ref.: #19893]	Medium Name (multicellularity)	ISP 4

[Ref.: #19893]	Multicellular complex forming ability	no
[Ref.: #19893]	Medium Name (multicellularity)	ISP 5

[Ref.: #19893]	Multicellular complex forming ability	yes
[Ref.: #19893]	Multicellular complex name	Aerial Mycelium
[Ref.: #19893]	Multicellular complex color	Cream
[Ref.: #19893]	Medium Name (multicellularity)	ISP 6

[Ref.: #19893]	Multicellular complex forming ability	no
[Ref.: #19893]	Medium Name (multicellularity)	ISP 7

Information on culture and growth conditions Culture and growth conditions

[Ref.: #12112]

Culture medium

YEAST STARCH AGAR (A) (DSMZ Medium 1027)

[Ref.: #12112]

Culture medium growth

[Ref.: #12112]

Culture medium link

Medium recipe at MediaDive

[Ref.: #12112]

Culture medium composition

expand / minimize

[Ref.: #19893]

Culture medium

ISP 2

[Ref.: #19893]

Culture medium growth

[Ref.: #19893]

Culture medium composition

expand / minimize

[Ref.: #19893]

Culture medium

ISP 3

[Ref.: #19893]

Culture medium growth

[Ref.: #19893]

Culture medium composition

expand / minimize

[Ref.: #19893]

Culture medium

ISP 4

[Ref.: #19893]

Culture medium growth

[Ref.: #19893]

Culture medium composition

expand / minimize

[Ref.: #19893]

Culture medium

ISP 5

[Ref.: #19893]

Culture medium growth

[Ref.: #19893]

Culture medium composition

expand / minimize

[Ref.: #19893]

Culture medium

ISP 6

[Ref.: #19893]

Culture medium growth

[Ref.: #19893]

Culture medium composition

expand / minimize

[Ref.: #19893]

Culture medium

ISP 7

[Ref.: #19893]

Culture medium growth

[Ref.: #19893]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #12112]	growth	28 °C
[Ref.: #32161]	growth	20-30 °C
[Ref.: #32161]	optimum	25 °C
[Ref.: #67770]	growth	28 °C

	pH	Kind of pH		pH
[Ref.: #32161]			optimum	5
[Ref.: #32161]			growth	04-06

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32161]

Oxygen tolerance

aerobe

[Ref.: #32161]	Ability of spore formation	yes
[Ref.: #69481]	Ability of spore formation	yes Confidence in %97

[Ref.: #32161]	Observation	aggregates in chains
[Ref.: #67770]	Observation	quinones: MK-9(H₆), MK-9(H₈)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #19893]	arabinose ChEBI	-
[Ref.: #32161]	arabinose ChEBI	+	carbon source
[Ref.: #19893]	cellulose ChEBI	+
[Ref.: #32161]	esculin ChEBI	+	hydrolysis
[Ref.: #19893]	fructose ChEBI	+
[Ref.: #32161]	fructose ChEBI	+	carbon source
[Ref.: #19893]	glucose ChEBI	+
[Ref.: #32161]	glucose ChEBI	+	carbon source
[Ref.: #19893]	mannitol ChEBI	+
[Ref.: #19893]	myo-inositol ChEBI	-
[Ref.: #19893]	raffinose ChEBI	-
[Ref.: #32161]	raffinose ChEBI	+	carbon source
[Ref.: #19893]	rhamnose ChEBI	-
[Ref.: #19893]	sucrose ChEBI	+
[Ref.: #32161]	sucrose ChEBI	+	carbon source
[Ref.: #19893]	xylose ChEBI	-
[Ref.: #32161]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #32161]	acid phosphatase	+	3.1.3.2
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #32161]	alkaline phosphatase	+	3.1.3.1
[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.: #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.: #19893]	705	not determinedn.d.	+	-	+	-	+	+	-	-	-	+	-	-	-	-	+	+	-	-	-

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

[Ref.: #12112]	Sample type/isolated from	soil
[Ref.: #12112]	Geographic location (country and/or sea, region)	Oodate, Akita
[Ref.: #12112]	Country	Japan
[Ref.: #12112]	Country ISO 3 Code	JPN
[Ref.: #12112]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Forest soil
[Ref.: #67770]	Geographic location (country and/or sea, region)	Oodate, Akita Pref.
[Ref.: #67770]	Country	Japan
[Ref.: #67770]	Country ISO 3 Code	JPN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB180773 (>99% sequence identity) for Catenulispora from Microbeatlas

Aquatic Samples	870
Soil Samples	16042
Animal Samples	1233
Plant Samples	2953
Total Samples	21098

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

[Ref.: #12112]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #19893]	Biosafety level	1	Risk group (German 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.: #12112]	Catenulispora rubra gene for 16S rRNA, partial sequence	AB180773	1472	GenBank ENA	280293 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Catenulispora rubra DSM 44948	GCA_015356825	contig	GenBank ENA	280293 tax ID	*
[Ref.: #66792]	Catenulispora rubra strain DSM 44948	280293.3	wgs	PATRIC	280293 tax ID	*

[Ref.: #12112]	GC-content	69.1 mol%
[Ref.: #67770]	GC-content	69.1 mol%	high performance liquid chromatography (HPLC)

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Catenulispora rubra strain DSM 44948 PATRIC: 280293.3
[Ref.: #69481]	spore-forming	spore-formingⓘ	yes	97	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Catenulispora rubra strain DSM 44948 PATRIC: 280293.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	88.386	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	97.822	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	yes	89.652	yes
[Ref.: #69480]	aerobic	aerobicⓘ	yes	89.583	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	95	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	88	yes

Availability in culture collections External links

[Ref.: #12112]

Culture collection no.

DSM 44948, JCM 16000, NBRC 101179

[Ref.: #86629]

SI-ID 297462

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Genomic-based classification of Catenulispora pinisilvae sp. nov., novel actinobacteria isolated from a pine forest soil in Poland and emended description of Catenulispora rubra.	Swiecimska M, Golinska P, Wypij M, Goodfellow M	Syst Appl Microbiol	10.1016/j.syapm.2020.126164	2020	*
Phylogeny	Catenulispora fulva sp. nov., isolated from forest soil.	Lee HJ, Whang KS	Int J Syst Evol Microbiol	10.1099/ijsem.0.000711	2015	*
Phylogeny	Catenulispora graminis sp. nov., a rhizobacterium from bamboo (Phyllostachys nigro var. henonis) rhizosphere soil.	Lee HJ, Han SI, Whang KS	Int J Syst Evol Microbiol	10.1099/ijs.0.035501-0	2011	*
Phylogeny	Catenulispora rubra sp. nov., an acidophilic actinomycete isolated from forest soil.	Tamura T, Ishida Y, Sakane T, Suzuki KI	Int J Syst Evol Microbiol	10.1099/ijs.0.65056-0	2007	*

References

#12112

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 44948

#19893

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 )

#32161

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 #28404 (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;

#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 )

#86629

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-ID297462.1 )

#28404

IJSEM 2272 2007 ( DOI 10.1099/ijs.0.65056-0 , PubMed 17911295 )

* These data were automatically processed and therefore are not curated

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Catenulispora rubra strain DSM 44948

Catenulispora rubra strain DSM 44948

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