Name: Agrobacterium nepotum 39/7
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 130598

Type strain:

Species: Agrobacterium nepotum

Strain Designation: 39/7

Culture col. no.: DSM 29844, CFBP 7436, LMG 26435

Strain history: <- LMG <- A. Willems, Lab. Microbiology, Ghent Univ., Belgium <- J. Pulawska, Inst. of Horticulture Poland <- S. Sule, Plant Protection Inst. of Hungarian Academy of Sciences

NCBI tax ID(s): 1035271 (species)

SI-ID 377577

LMG 26435, CFBP 7436, DSM 29844

Section

Agrobacterium nepotum 39/7 is a mesophilic plant pathogen that was isolated from from gall on Prunus cerasifera Myrobalan.

mesophilic
plant pathogen
16S sequence
Bacteria

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 nepotum**
	Full Scientific Name (LPSN)	Agrobacterium nepotum (Pu?awska et al. 2012) Mousavi et al. 2016

Synonym

Rhizobium nepotum

Information on morphological and physiological properties Morphology

[Ref.: #21930]

Incubation period

1-2 days

Information on culture and growth conditions Culture and growth conditions

[Ref.: #21930]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #21930]

Culture medium growth

[Ref.: #21930]

Culture medium link

Medium recipe at MediaDive

[Ref.: #21930]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #21930]			growth	30 °C

[Ref.: #21930]

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[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.: #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
[Ref.: #68369]	gluconate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	L-arabinose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	N-acetylglucosamine ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	+	hydrolysis	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68369]	beta-glucosidase	+	3.2.1.21	* from API 20NE
[Ref.: #21930]	catalase	+	1.11.1.6
[Ref.: #21930]	cytochrome-c oxidase	+	1.9.3.1
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #68369]	urease	+	3.5.1.5	* from API 20NE

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.: #21930]	24075	-	-	-	-	+	+	-	+	+	+	+	+	+	+	+	-	-	+	-	-	not determinedn.d.

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

[Ref.: #21930]	Sample type/isolated from	from gall on Prunus cerasifera Myrobalan
[Ref.: #21930]	Host species	Prunus cerasifera
[Ref.: #21930]	Country	Hungary
[Ref.: #21930]	Country ISO 3 Code	HUN
[Ref.: #21930]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Shrub (Scrub)
#Host	#Plants	#Tree
#Infection	#Plant infections	#Gall

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence FR870231 (>99% sequence identity) for Agrobacterium from Microbeatlas

Aquatic Samples	6
Soil Samples	7
Animal Samples	33
Plant Samples	42
Total Samples	88

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

[Ref.: #21930]	Pathogenicity (plant)	yes
[Ref.: #21930]	Biosafety level	1	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.: #21930]	Rhizobium nepotum partial 16S rRNA gene, type strain 39/7T	FR870231	1371	ENA	1035271 tax ID

[Ref.: #21930]

GC-content

57.2 mol%

high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #21930]

Culture collection no.

DSM 29844, CFBP 7436, LMG 26435

[Ref.: #89113]

SI-ID 377577

Literature:

Topic	Title	Authors	Journal	DOI	Year
Genetics	Draft Genome Sequences of Agrobacterium nepotum Strain 39/7T and Agrobacterium sp. Strain KFB 330.	Kuzmanovic N, Pulawska J, Prokic A, Ivanovic M, Zlatkovic N, Gasic K, Obradovic A	Genome Announc	10.1128/genomeA.00331-15	2015	*
Phylogeny	Rhizobium nepotum sp. nov. isolated from tumors on different plant species.	Pulawska J, Willems A, De Meyer SE, Sule S	Syst Appl Microbiol	10.1016/j.syapm.2012.03.001	2012	*

References

#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 )

#21930

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 29844

#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 .

#89113

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-ID377577.1 )

* These data were automatically processed and therefore are not curated

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