Name: Curtobacterium albidum Y-3-2
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 7307

Type strain:

Species: Curtobacterium albidum

Strain Designation: Y-3-2

Culture col. no.: DSM 20512, ATCC 15831, CCM 2296, IAM 1631, NCIB 11030, JCM 1344, AJ 1472, BCRC 12116, CGMCC 1.1650, CGMCC 1.1903, CIP 102693, HAMBI 2039, IAM 12367, IFO 15078, JCM 20229, KCTC 3491, NBIMCC 1100, NBRC 15078, NCIMB 11030, VKM Ac-2186, VKM B-1206

Strain history: CIP <- 1986, NCIB <- K. Komagata: strain Y-3-2, Brevibacterium albidum

NCBI tax ID(s): 50728 (species)

SI-ID 36514

ATCC 15831, IAM 1631, CIP 102693, CCM 2296, DSM 20512, JCM 1344, NCIB 11030, CCRC 12116, IFO 15078, NCIMB 11030, VKM B-1206, CCRC 2296, KCTC 3491, NBRC 15078, HAMBI 2039, BCRC 12116, IAM 12367, NBIMCC 1100, VKM Ac-2186, CGMCC 1.1903, IFO 15087, CGMCC 1.1650, NCPPB 4110

Special Collections

Section

Curtobacterium albidum Y-3-2 is a Gram-positive bacterium that was isolated from paddy.

Gram-positive
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	*Micrococcales*
	Family	*Microbacteriaceae*
	Genus	*Curtobacterium*
	Species	**Curtobacterium albidum**
	Full Scientific Name (LPSN)	Curtobacterium albidum (Komagata and Iizuka 1964) Yamada and Komagata 1972 (Approved Lists 1980)

Synonym

Brevibacterium albidum

Information on morphological and physiological properties Morphology

[Ref.: #18443]	Colony color	Saffron yellow (1017)
[Ref.: #18443]	Incubation period	10-14 days
[Ref.: #18443]	Cultivation medium used	ISP 2

[Ref.: #18443]	Colony color	Saffron yellow (1017)
[Ref.: #18443]	Incubation period	10-14 days
[Ref.: #18443]	Cultivation medium used	ISP 3

[Ref.: #18443]	Colony color	Colorless
[Ref.: #18443]	Incubation period	10-14 days
[Ref.: #18443]	Cultivation medium used	ISP 4

[Ref.: #18443]	Colony color	Colorless
[Ref.: #18443]	Incubation period	10-14 days
[Ref.: #18443]	Cultivation medium used	ISP 6

[Ref.: #18443]	Colony color	Light ivory (1015)
[Ref.: #18443]	Incubation period	10-14 days
[Ref.: #18443]	Cultivation medium used	ISP 7

[Ref.: #18443]	Multicellular complex forming ability	no

[Ref.: #18443]	Multicellular complex forming ability	no
[Ref.: #18443]	Medium Name (multicellularity)	ISP 2

[Ref.: #18443]	Multicellular complex forming ability	no
[Ref.: #18443]	Medium Name (multicellularity)	ISP 3

[Ref.: #18443]	Multicellular complex forming ability	no
[Ref.: #18443]	Medium Name (multicellularity)	ISP 4

[Ref.: #18443]	Multicellular complex forming ability	no
[Ref.: #18443]	Medium Name (multicellularity)	ISP 6

[Ref.: #18443]	Multicellular complex forming ability	no
[Ref.: #18443]	Medium Name (multicellularity)	ISP 7

Information on culture and growth conditions Culture and growth conditions

[Ref.: #18443]

Culture medium

ISP 2

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Culture medium growth

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Culture medium composition

expand / minimize

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Culture medium

ISP 3

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Culture medium growth

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Culture medium composition

expand / minimize

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Culture medium

ISP 4

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Culture medium growth

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Culture medium composition

expand / minimize

[Ref.: #18443]

Culture medium

ISP 6

[Ref.: #18443]

Culture medium growth

[Ref.: #18443]

Culture medium composition

expand / minimize

[Ref.: #18443]

Culture medium

ISP 7

[Ref.: #18443]

Culture medium growth

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Culture medium composition

expand / minimize

[Ref.: #8861]

Culture medium

CORYNEBACTERIUM AGAR (DSMZ Medium 53)

[Ref.: #8861]

Culture medium growth

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Culture medium link

Medium recipe at MediaDive

[Ref.: #8861]

Culture medium composition

expand / minimize

[Ref.: #40447]

Culture medium

MEDIUM 3 - Columbia agar

[Ref.: #40447]

Culture medium growth

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Culture medium composition

expand / minimize

[Ref.: #116189]

Culture medium

CIP Medium 3

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Culture medium growth

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Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #8861]	growth	30 °C
[Ref.: #18443]	optimum	28 °C
[Ref.: #40447]	growth	30 °C
[Ref.: #67770]	growth	28 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #8861]	Name of produced compound	restriction endonuclease BalI
[Ref.: #20216]	Name of produced compound	Endonuclease Bal I

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #18443]		NaCl		maximum	5	%

[Ref.: #8861]	Murein short key	B06
[Ref.: #8861]	Murein types	B2ß {Gly} [L-Hsr] D-Glu(Hyg)-Gly-D-Orn

[Ref.: #67770]

Observation

quinones: MK-9

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #18443]	arabinose ChEBI	+
[Ref.: #68368]	arginine ChEBI	-	hydrolysis	* from API 20E
[Ref.: #68368]	citrate ChEBI	-	assimilation	* from API 20E
[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.: #18443]	fructose ChEBI	+
[Ref.: #68379]	gelatin ChEBI	+	hydrolysis	* from API Coryne
[Ref.: #68368]	gelatin ChEBI	-	hydrolysis	* from API 20E
[Ref.: #18443]	glucose ChEBI	+
[Ref.: #68379]	glycogen ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	lactose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68368]	lysine ChEBI	-	degradation	* from API 20E
[Ref.: #68379]	maltose ChEBI	-	fermentation	* from API Coryne
[Ref.: #18443]	mannitol ChEBI	-
[Ref.: #18443]	myo-inositol ChEBI	+
[Ref.: #68379]	nitrate ChEBI	-	reduction	* from API Coryne
[Ref.: #68368]	ornithine ChEBI	-	degradation	* from API 20E
[Ref.: #18443]	raffinose ChEBI	+
[Ref.: #18443]	rhamnose ChEBI	+
[Ref.: #18443]	sucrose ChEBI	+
[Ref.: #68379]	sucrose ChEBI	+	fermentation	* from API Coryne
[Ref.: #68368]	tryptophan ChEBI	-	energy source	* from API 20E
[Ref.: #68368]	urea ChEBI	+	hydrolysis	* from API 20E, API Coryne
[Ref.: #18443]	xylose ChEBI	+
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #68368]	acetoin ChEBI	yes	* from API 20E
[Ref.: #68368]	hydrogen sulfide ChEBI	no	* from API 20E
[Ref.: #68368]	indole ChEBI	no	* from API 20E

	Physiological tests	Metabolite	Voges-Proskauer-test	Indole test
[Ref.: #68368]		acetoin ChEBI	+		* from API 20E
[Ref.: #68368]		indole ChEBI		-	* from API 20E

	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.: #68379]	alkaline phosphatase	-	3.1.3.1	* from API Coryne
[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.: #68368]	arginine dihydrolase	-	3.5.3.6	* from API 20E
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym, API Coryne, API 20E
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym, API Coryne
[Ref.: #68382]	beta-glucuronidase	+	3.2.1.31	* from API zym, API Coryne
[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.: #68379]	gelatinase	+		* from API Coryne
[Ref.: #68368]	gelatinase	-		* from API 20E
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68368]	lysine decarboxylase	-	4.1.1.18	* from API 20E
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym, API Coryne
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #68368]	ornithine decarboxylase	-	4.1.1.17	* from API 20E
[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.: #68368]	tryptophan deaminase	-	4.1.99.1	* from API 20E
[Ref.: #68379]	urease	+	3.5.1.5	* from API Coryne, API 20E
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® 20E:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	beta-GalactosidaseONPG	Arginine dihydrolaseADH (Arg)	Lysine decarboxylaseLDC (Lys)	Ornithine decarboxylaseODC	Citrate utilizationCIT	H2S productionH2S	Urease/urea hydrolysisURE	Tryptophan deaminaseTDA (Trp)	Indole productionIND	Acetoin production (Voges Proskauer test)VP	Gelatinase/gelatin hydrolysisGEL	Fermentation/oxidation of D-glucoseGLU	Fermentation/oxidation of D-mannitolMAN	Fermentation/oxidation of inositolINO	Fermentation/oxidation of sorbitolSor	Fermentation/oxidation of L-rhamnoseRHA	Fermentation/oxidation of sucroseSAC	Fermentation/oxidation of melibioseMEL	Fermentation/oxidation of amygdalinAMY	Fermentation/oxidation of L-arabinoseARA	Cytochrome oxidaseOX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	Oxidative catabolisation of D-glucoseOF-O	Fermentation of D-glucoseOF-F
[Ref.: #18443]	33	-	-	-	-	-	-	+	-	-	+	-	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.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

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.: #18443]	120	-	+	+	-	+	-	-	-	-	+	+	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.: #18443]	155	not determinedn.d.	+	+	+	-	+	-	-	-	-	+	+	-	-	+	-	-	-	-	-

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

[Ref.: #8861]	Sample type/isolated from	paddy

[Ref.: #67770]	Sample type/isolated from	Chinese paddy

[Ref.: #116189]	Sample type/isolated from	Environment, Chinese paddy
[Ref.: #116189]	Country	China
[Ref.: #116189]	Country ISO 3 Code	CHN
[Ref.: #116189]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Agriculture	#Field
#Host	#Plants	#Herbaceous plants (Grass,Crops)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence LC110196 (>99% sequence identity) for Curtobacterium from Microbeatlas

Aquatic Samples	6793
Soil Samples	11124
Animal Samples	21247
Plant Samples	9659
Total Samples	48823

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

[Ref.: #18443]	Biosafety level	1	German classification
[Ref.: #8861]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #116189]	Biosafety level	1	Risk group (French classification)

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Curtobacterium albidum gene for 16S ribosomal RNA, partial sequence, strain: JCM 1344	LC110195	1407	GenBank ENA	50728 tax ID
[Ref.: #67770]	Curtobacterium albidum gene for 16S ribosomal RNA, partial sequence, strain: IAM 1631 = JCM 20229	LC110196	1456	GenBank ENA	50728 tax ID
[Ref.: #20218]	Curtobacterium albidum 16S-23S ribosomal RNA intergenic spacer region, partial sequence	AY191509	520	GenBank ENA	50728 tax ID	*
[Ref.: #20218]	Curtobacterium albidum 16S rRNA gene, strain DSM 20512	AM042692	1443	GenBank ENA	50728 tax ID	*
[Ref.: #20218]	Curtobacterium albidum partial 16S rRNA gene, type strain DSM 20512	AM410691	1504	GenBank ENA	50728 tax ID	*
[Ref.: #20218]	Curtobacterium albidum gene for 16S rRNA, partial sequence	AB046363	1504	GenBank ENA	50728 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Curtobacterium albidum DSM 20512	GCA_013359825	contig	GenBank ENA	50728 tax ID
[Ref.: #66792]	Curtobacterium albidum strain DSM 20512	50728.3	wgs	PATRIC	50728 tax ID	*

[Ref.: #8861]	GC-content	70.0 mol%
[Ref.: #67770]	GC-content	72 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #67770]	GC-content	70 mol%	thermal denaturation, midpoint method (Tm)

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: Curtobacterium albidum strain DSM 20512 PATRIC: 50728.3
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	86	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Curtobacterium albidum strain DSM 20512 PATRIC: 50728.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	88.096	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	95.854	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	75.286	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	84.95	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	98	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	78.5	no

Availability in culture collections External links

[Ref.: #8861]

Culture collection no.

DSM 20512, ATCC 15831, CCM 2296, IAM 1631, NCIB 11030, JCM 1344, AJ 1472, BCRC 12116, CGMCC 1.1650, CGMCC 1.1903, CIP 102693, HAMBI 2039, IAM 12367, IFO 15078, JCM 20229, KCTC 3491, NBIMCC 1100, NBRC 15078, NCIMB 11030, VKM Ac-2186, VKM B-1206

[Ref.: #76757]

SI-ID 36514

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Curtobacterium ginsengisoli sp. nov., isolated from soil of a ginseng field.	Kim MK, Kim YJ, Kim HB, Kim SY, Yi TH, Yang DC	Int J Syst Evol Microbiol	10.1099/ijs.0.65591-0	2008	*
Enzymology	Cloning of the lambda resistant genes from Brevibacterium albidum and Proteus vulgaris into Escherichia coli.	Chae KS, Yoo OJ	Biochem Biophys Res Commun	10.1016/0006-291x(86)90748-5	1986	*

References

#8861

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 20512

#18443

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 )

#20216

Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI) Curators of the HKI: Collection Description Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI) .

#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 )

#40447 ; 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;

#68368

Automatically annotated from API 20E .

#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 .

#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 )

#76757

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-ID36514.1 )

#116189 Collection of Institut Pasteur ; Curators of the CIP; CIP 102693
* These data were automatically processed and therefore are not curated

Change proposal

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Curtobacterium albidum strain DSM 20512

Curtobacterium albidum strain DSM 20512

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Change proposal