Name: Agrobacterium rosae B 2326
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 13537

Type strain:

Species: Agrobacterium rosae

Strain Designation: B 2326, KGR

Culture col. no.: DSM 30203, DSM 60566, NCPPB 1650, JCM 20915, CFBP 4470, IAM 13558, LMG 230

Strain history: IAM 13558 <-- NCPPB 1650 (Agrobacterium tumefaciens) <-- A. C. Hayward B2326 <-- B. H. Boelema strain KGR.

NCBI tax ID(s): 361 (species)

SI-ID 589

LMG 230, DSM 30203, DSM 60566, NCPPB 1650, IAM 13558, CFBP 4470, CFBP 6551, JCM 20915

Section

Agrobacterium rosae B 2326 is a mesophilic, Gram-negative bacterium that was isolated from Rosa sp..

Gram-negative
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	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Hyphomicrobiales*
	Family	*Rhizobiaceae*
	Genus	*Agrobacterium*
	Species	**Agrobacterium rosae**
	Full Scientific Name (LPSN)	Agrobacterium rosae Kuzmanovi? et al. 2019

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %99.985

Information on culture and growth conditions Culture and growth conditions

[Ref.: #9200]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #9200]

Culture medium growth

[Ref.: #9200]

Culture medium link

Medium recipe at MediaDive

[Ref.: #9200]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #9200]			growth	26 °C
[Ref.: #67770]			growth	25 °C

[Ref.: #9200]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.986

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68368]	amygdalin ChEBI	-	fermentation	* from API 20E
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE, API 20E
[Ref.: #68368]	citrate ChEBI	-	assimilation	* from API 20E
[Ref.: #68368]	D-glucose ChEBI	+	fermentation	* from API 20E
[Ref.: #68369]	D-glucose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	-	assimilation	* from API 20NE
[Ref.: #68368]	D-mannitol ChEBI	-	fermentation	* from API 20E
[Ref.: #68369]	D-mannose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	esculin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE, API 20E
[Ref.: #68369]	gluconate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	L-arabinose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68368]	L-rhamnose ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	lysine ChEBI	-	degradation	* from API 20E
[Ref.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68368]	myo-inositol ChEBI	-	fermentation	* from API 20E
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #68368]	ornithine ChEBI	-	degradation	* from API 20E
[Ref.: #68368]	sorbitol ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	sucrose ChEBI	-	fermentation	* from API 20E
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE, API 20E
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE, API 20E
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #68368]	acetoin ChEBI	yes	* from API 20E
[Ref.: #68368]	dinitrogen ChEBI	yes	* from API 20E
[Ref.: #68368]	hydrogen sulfide ChEBI	no	* from API 20E
[Ref.: #68369]	indole ChEBI	no	* from API 20NE, API 20E

	Physiological tests	Metabolite	Voges-Proskauer-test	Indole test
[Ref.: #68368]		acetoin ChEBI	+		* from API 20E
[Ref.: #68369]		indole ChEBI		-	* from API 20NE, API 20E

	Enzyme	Enzyme activity	EC number
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE, API 20E
[Ref.: #68368]	beta-galactosidase	+	3.2.1.23	* from API 20E
[Ref.: #68369]	beta-glucosidase	+	3.2.1.21	* from API 20NE
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE
[Ref.: #68368]	cytochrome oxidase	-	1.9.3.1	* from API 20E
[Ref.: #68369]	gelatinase	-		* from API 20NE, API 20E
[Ref.: #68368]	lysine decarboxylase	-	4.1.1.18	* from API 20E
[Ref.: #68368]	ornithine decarboxylase	-	4.1.1.17	* from API 20E
[Ref.: #68368]	tryptophan deaminase	-	4.1.99.1	* from API 20E
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE, API 20E

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.: #9200]	17614	+	-	-	-	-	-	-	-	-	+	-	+	-	-	-	-	-	+/-	-	+/-	-	not determinedn.d.	+	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

API® 20NE:

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

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #9200]	24427	-	-	-	-	-	+	-	+	-	-	-	-	-	+	+	-	-	+	-	-	+

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

[Ref.: #9200]	Sample type/isolated from	Rosa sp.
[Ref.: #9200]	Host species	Rosa
[Ref.: #9200]	Country	South Africa
[Ref.: #9200]	Country ISO 3 Code	ZAF
[Ref.: #9200]	Continent	Africa

[Ref.: #67770]	Sample type/isolated from	Crown gall of Rosa sp.
[Ref.: #67770]	Host species	Rosa sp.
[Ref.: #67770]	Country	South Africa
[Ref.: #67770]	Country ISO 3 Code	ZAF
[Ref.: #67770]	Continent	Africa
* marker position based on {}

Isolation sources categories

#Host

#Plants

#Shrub (Scrub)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence MF443188 (>99% sequence identity) for Agrobacterium from Microbeatlas

Aquatic Samples	101
Soil Samples	173
Animal Samples	477
Plant Samples	797
Total Samples	1548

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.: #67770]	Agrobacterium tumefaciens 16S rRNA gene	D13943	1402	ENA	358 tax ID
[Ref.: #67770]	Agrobacterium sp. strain NCPPB 1650 16S ribosomal RNA gene, partial sequence	MF443188	1489	ENA	361 tax ID
[Ref.: #20218]	Agrobacterium sp. NCPPB 1650 gene for 16S ribosomal RNA, complete sequence	D14506	1472	ENA	759702 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Agrobacterium rosae NCPPB 1650	GCA_002915175	scaffold	GenBank	1972867 tax ID
[Ref.: #66792]	Agrobacterium rosae strain NCPPB 1650	1972867.3	wgs	PATRIC	1972867 tax ID	*
[Ref.: #66792]	Agrobacterium rosae NCPPB 1650	2858625304	draft	JGI IMG/M	1972867 tax ID	*

[Ref.: #9200]	GC-content	57.8 mol%
[Ref.: #67770]	GC-content	56.5 mol%	genome sequence analysis
[Ref.: #67770]	GC-content	57.8 mol%	thermal denaturation, midpoint method (Tm)

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: Agrobacterium rosae strain NCPPB 1650 PATRIC: 1972867.6
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Agrobacterium rosae strain NCPPB 1650 PATRIC: 1972867.3
[Ref.: #69480]	motile	yes	84.483	no
[Ref.: #69480]	gram-positive	no	98.117	no
[Ref.: #69480]	anaerobic	no	97.251	no
[Ref.: #69480]	aerobic	yes	85.77	no
[Ref.: #69480]	halophile	no	90.206	no
[Ref.: #69480]	spore-forming	no	95.148	no
[Ref.: #69480]	glucose-util	yes	86.281	yes
[Ref.: #69480]	flagellated	no	82.209	no
[Ref.: #69480]	thermophile	no	99.605	yes
[Ref.: #69480]	glucose-ferment	no	86.858	no

Availability in culture collections External links

[Ref.: #9200]

Culture collection no.

DSM 30203, DSM 60566, NCPPB 1650, JCM 20915, CFBP 4470, IAM 13558, LMG 230

[Ref.: #82728]

SI-ID 589

Literature:

	Title	Authors	Journal	DOI	Year
Phylogeny	Agrobacterium rosae sp. nov., isolated from galls on different agricultural crops.	Kuzmanovic N, Pulawska J, Smalla K, Nesme X	Syst Appl Microbiol	10.1016/j.syapm.2018.01.004	2018	*
Phylogeny	Single acquisition of protelomerase gave rise to speciation of a large and diverse clade within the Agrobacterium/Rhizobium supercluster characterized by the presence of a linear chromid.	Ramirez-Bahena MH, Vial L, Lassalle F, Diel B, Chapulliot D, Daubin V, Nesme X, Muller D	Mol Phylogenet Evol	10.1016/j.ympev.2014.01.005	2014	*
Phylogeny	Rapid and efficient identification of Agrobacterium species by recA allele analysis: Agrobacterium recA diversity.	Costechareyre D, Rhouma A, Lavire C, Portier P, Chapulliot D, Bertolla F, Boubaker A, Dessaux Y, Nesme X	Microb Ecol	10.1007/s00248-010-9685-7	2010	*
	Occurrence of Crown Gall Disease on Japanese Spindle (Euonymus japonicas var. Green Rocket) Caused by Agrobacterium rosae in Iran.	Mafakheri H, Taghavi SM, Zarei S, Kuzmanovic N, Osdaghi E	Plant Dis	10.1094/PDIS-03-21-0580-PDN	2021	*

References

#9200

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 30203

#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 )

#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 .

#68369

Automatically annotated from API 20NE .

#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 )

#82728

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-ID589.1 )

* These data were automatically processed and therefore are not curated

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Agrobacterium rosae strain NCPPB 1650

Agrobacterium rosae strain NCPPB 1650

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