Name: Curtobacterium citreum 2Y-10
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 7308

Type strain:

Species: Curtobacterium citreum

Strain Designation: 2Y-10

Culture col. no.: DSM 20528, ATCC 15828, CCM 2297, IAM 1614, NCIB 10702, JCM 1345, BCRC 12126, CCUG 12163, CCUG 28999, CGMCC 1.1904, CIP 81.26, IFO 12677, IMET 10359, KCCM 12166, KCTC 9100, LMG 8786, NBRC 12677, NCIMB 10702, NRIC 1859, VKM Ac-2187, VKM B-1207, CCUG 23579

Strain history: CIP <- 1981, IAM <- K. Komagata: strain 2Y-10, Brevibacterium citreum

NCBI tax ID(s): 2036 (species)

SI-ID 92584

LMG 8786, ATCC 15828, CCM 2297, DSM 20528, IAM 1614, IFO 12677, JCM 1345, NCIB 10702, CCUG 12163, CCUG 28999, CCUG 23579, IMET 10359, CCRC 12126, NCIMB 10702, VKM B-1207, KCTC 9100, AS 1.1904, CCRC 2297, NBRC 12677, BCRC 12126, VKM Ac-2187, CGMCC 1.1904, NCPPB 4111, CIP 81.26

Special Collections

Other strains from Curtobacterium citreum

Section

Curtobacterium citreum 2Y-10 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 citreum**
	Full Scientific Name (LPSN)	Curtobacterium citreum (Komagata and Iizuka 1964) Yamada and Komagata 1972 (Approved Lists 1980)

Synonym

Brevibacterium citreum

Information on morphological and physiological properties Morphology

[Ref.: #18752]	Colony color	Maize yellow
[Ref.: #18752]	Incubation period	10-14 days
[Ref.: #18752]	Cultivation medium used	ISP 2

[Ref.: #18752]	Colony color	Zinc yellow
[Ref.: #18752]	Incubation period	10-14 days
[Ref.: #18752]	Cultivation medium used	ISP 3

[Ref.: #18752]	Colony color	Light ivory
[Ref.: #18752]	Incubation period	10-14 days
[Ref.: #18752]	Cultivation medium used	ISP 4

[Ref.: #18752]	Colony color	Oyster white
[Ref.: #18752]	Incubation period	10-14 days
[Ref.: #18752]	Cultivation medium used	ISP 5

[Ref.: #18752]	Colony color	Ivory
[Ref.: #18752]	Incubation period	10-14 days
[Ref.: #18752]	Cultivation medium used	ISP 7

[Ref.: #18752]	Incubation period	10-14 days
[Ref.: #18752]	Cultivation medium used	ISP 6

[Ref.: #18752]	Multicellular complex forming ability	no
[Ref.: #18752]	Medium Name (multicellularity)	ISP 2

[Ref.: #18752]	Multicellular complex forming ability	no
[Ref.: #18752]	Medium Name (multicellularity)	ISP 3

[Ref.: #18752]	Multicellular complex forming ability	no
[Ref.: #18752]	Medium Name (multicellularity)	ISP 4

[Ref.: #18752]	Multicellular complex forming ability	no
[Ref.: #18752]	Medium Name (multicellularity)	ISP 5

[Ref.: #18752]	Multicellular complex forming ability	no
[Ref.: #18752]	Medium Name (multicellularity)	ISP 6

[Ref.: #18752]	Multicellular complex forming ability	no
[Ref.: #18752]	Medium Name (multicellularity)	ISP 7

Information on culture and growth conditions Culture and growth conditions

[Ref.: #18752]

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

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Culture medium

ISP 4

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Culture medium growth

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Culture medium composition

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Culture medium

ISP 5

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Culture medium growth

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Culture medium composition

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Culture medium

ISP 6

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Culture medium growth

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Culture medium composition

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[Ref.: #18752]

Culture medium

ISP 7

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Culture medium growth

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Culture medium composition

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[Ref.: #8895]

Culture medium

CORYNEBACTERIUM AGAR (DSMZ Medium 53)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

[Ref.: #8895]

Culture medium composition

expand / minimize

[Ref.: #37720]

Culture medium

MEDIUM 3 - Columbia agar

[Ref.: #37720]

Culture medium growth

[Ref.: #37720]

Culture medium composition

expand / minimize

[Ref.: #118297]

Culture medium

CIP Medium 3

[Ref.: #118297]

Culture medium growth

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Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #8895]	growth	30 °C
[Ref.: #18752]	optimum	28 °C
[Ref.: #37720]	growth	30 °C
[Ref.: #67770]	growth	28 °C

Information on physiology and metabolism Physiology and metabolism

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #18752]		NaCl		maximum	5	%

[Ref.: #8895]	Murein short key	B05
[Ref.: #8895]	Murein types	B2ß {Gly} [L-Hsr] D-Glu-D-Orn

[Ref.: #67770]

Observation

quinones: MK-9

	Metabolite	Utilization activity	Kind of utilization tested
[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.: #68379]	gelatin ChEBI	+	hydrolysis	* from API Coryne
[Ref.: #68368]	gelatin ChEBI	-	hydrolysis	* from API 20E
[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.: #68379]	nitrate ChEBI	+	reduction	* from API Coryne
[Ref.: #68368]	ornithine ChEBI	-	degradation	* from API 20E
[Ref.: #68379]	sucrose ChEBI	+	fermentation	* from API Coryne
[Ref.: #68368]	tryptophan ChEBI	-	energy source	* from API 20E
[Ref.: #68379]	urea ChEBI	+	hydrolysis	* from API Coryne
[Ref.: #68368]	urea ChEBI	-	hydrolysis	* from API 20E
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #68368]	acetoin ChEBI	no	* 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.: #68379]	beta-glucuronidase	+	3.2.1.31	* from API Coryne
[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.: #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.: #68379]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API Coryne
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[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
[Ref.: #68368]	urease	-	3.5.1.5	* from 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.: #18752]	233	+	-	-	-	-	-	-	-	-	-	-	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.: #18752]	192	+	+	+	-	+	+	+	+	+	+	+	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.: #18752]	321	not determinedn.d.	+	+	+	-	+	+	+	+	+	+	+	+	+	-	+	+	-	+	+

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

[Ref.: #8895]	Sample type/isolated from	paddy

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

[Ref.: #118297]	Sample type/isolated from	Food, Rice
* 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 X77436 (>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.: #18752]	Biosafety level	1	Hazard group
[Ref.: #8895]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #118297]	Biosafety level	1	Risk group (French 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.: #8895]	C.citreum (DSM 20528) 16S rRNA gene	X77436	1472	GenBank ENA	2036 tax ID
[Ref.: #20218]	Curtobacterium citreum 16S-23S ribosomal RNA intergenic spacer region, partial sequence	AY191507	549	GenBank ENA	2036 tax ID	*
[Ref.: #20218]	Curtobacterium citreum gene for 16S ribosomal RNA, partial sequence, strain: DSM 20528	AB915609	946	GenBank ENA	2036 tax ID	*
[Ref.: #20218]	Curtobacterium citreum partial 16S rRNA gene, type strain DSM 20528	AM410690	1472	GenBank ENA	2036 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Curtobacterium citreum DSM 20528	GCA_006715175	contig	GenBank ENA	2036 tax ID
[Ref.: #66792]	Curtobacterium citreum JCM 1345	GCA_014646735	scaffold	GenBank ENA	2036 tax ID	*
[Ref.: #66792]	Curtobacterium citreum strain DSM 20528	2036.6	wgs	PATRIC	2036 tax ID	*
[Ref.: #66792]	Curtobacterium citreum strain JCM 1345	2036.7	wgs	PATRIC	2036 tax ID	*
[Ref.: #66792]	Curtobacterium citreum DSM 20528	2806311065	draft	JGI IMG/M	2036 tax ID	*

[Ref.: #8895]	GC-content	70.5 mol%
[Ref.: #67770]	GC-content	70.5 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #67770]	GC-content	75.2 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 citreum JCM 1345 NCBI: GCA_014646735.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	yes	75	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Curtobacterium citreum JCM 1345 NCBI: GCA_014646735.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	88.304	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	95.711	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	85.301	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	76.224	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	97	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	77	no

Availability in culture collections External links

[Ref.: #8895]

Culture collection no.

DSM 20528, ATCC 15828, CCM 2297, IAM 1614, NCIB 10702, JCM 1345, BCRC 12126, CCUG 12163, CCUG 28999, CGMCC 1.1904, CIP 81.26, IFO 12677, IMET 10359, KCCM 12166, KCTC 9100, LMG 8786, NBRC 12677, NCIMB 10702, NRIC 1859, VKM Ac-2187, VKM B-1207, CCUG 23579

[Ref.: #76758]

SI-ID 92584

Literature:

Topic	Title	Authors	Journal	DOI	Year
Metabolism	New Caledonian ultramafic conditions structure the features of Curtobacterium citreum strains that play a role in plant adaptation.	Bourles A, Guentas L, Chalkiadakis E, Majorel C, Juillot F, Cavaloc Y, Burtet-Sarramegna V, Medevielle V, Jourand P, Amir H	Can J Microbiol	10.1139/cjm-2019-0283	2019	*
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	*
Phylogeny	Nucleic acid hybridization studies on Microbacterium, Curtobacterium, Agromyces and related taxa.	Dopfer H, Stackebrandt E, Fiedler F	J Gen Microbiol	10.1099/00221287-128-8-1697	1982	*

References

#8895

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 20528

#18752

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 )

#37720 ; 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 )

#76758

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-ID92584.1 )

#118297 Collection of Institut Pasteur ; Curators of the CIP; CIP 81.26
* These data were automatically processed and therefore are not curated

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Search for species Curtobacterium citreum in external resources:
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Curtobacterium citreum JCM 1345

Curtobacterium citreum JCM 1345

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