Name: Allorhizobium vitis K309
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 139548

Type strain:

Species: Allorhizobium vitis

Strain Designation: K309

Culture col. no.: CIP 105853, NCPPB 3554, ATCC 49767, ICMP 10752, HAMBI 1817, LMG 8750

Strain history: CIP <- 1999, C. Marshall, CSL, York, UK <- K. Ophel <- 1988, A. Kerr: strain K309

NCBI tax ID(s): 1265506 (strain), 373 (species)

SI-ID 687

LMG 8750, NCPPB 3554, ATCC 49767, ICMP 10752, CIP 105853, IFO 15140, NBIMCC 3513, IAM 14140, CECT 4799, NBRC 15140, HAMBI 1817, KACC 10777, JCM 21033, CFBP 5523

Other strains from Allorhizobium vitis

A. vitis Ag 63, Ag63, DSM 6583, NCPPB 2562, ...
A. vitis AA34, CIP 105854, NCPPB 3271
A. vitis IMI 350519

Section

Allorhizobium vitis K309 is a mesophilic, Gram-negative, rod-shaped bacterium of the family Rhizobiaceae.

Gram-negative
rod-shaped
mesophilic
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	*Allorhizobium*
	Species	**Allorhizobium vitis**
	Full Scientific Name (LPSN)	Allorhizobium vitis (Ophel and Kerr 1990) Mousavi et al. 2016

	Synonym	Rhizobium vitis
	Synonym	"Allorhizobium* vitis"*
	Synonym	Agrobacterium vitis

Information on morphological and physiological properties Morphology

[Ref.: #41916]	Gram stain	negative

[Ref.: #41916]	Cell shape	rod-shaped

[Ref.: #41916]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #41916]

Culture medium

MEDIUM 72- for trypto casein soja agar

[Ref.: #41916]

Culture medium growth

[Ref.: #41916]

Culture medium composition

expand / minimize

[Ref.: #41916]

Culture medium

CIP Medium 72

[Ref.: #41916]

Culture medium growth

[Ref.: #41916]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #41916]		growth	30 °C
[Ref.: #41916]		growth	15-30 °C
[Ref.: #41916]	no	growth	5 °C
[Ref.: #41916]	no	growth	37 °C
[Ref.: #41916]	no	growth	41 °C
[Ref.: #41916]	no	growth	45 °C

[Ref.: #41916]	Temperature range	mesophilic
[Ref.: #41916]	Temperature range	psychrophilic
[Ref.: #41916]	Temperature range	mesophilic
[Ref.: #41916]	Temperature range	thermophilic

Information on physiology and metabolism Physiology and metabolism

	Salt	Tested relation		Salt conc.
[Ref.: #41916]	NaCl		growth	0-2	%
[Ref.: #41916]	NaCl	no	growth	4	%
[Ref.: #41916]	NaCl	no	growth	6	%
[Ref.: #41916]	NaCl	no	growth	8	%
[Ref.: #41916]	NaCl	no	growth	10	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #41916]	citrate ChEBI	+	carbon source
[Ref.: #41916]	esculin ChEBI	+	hydrolysis
[Ref.: #41916]	hippurate ChEBI	+	hydrolysis
[Ref.: #41916]	malonate ChEBI	+	assimilation
[Ref.: #41916]	nitrate ChEBI	-	builds gas from
[Ref.: #41916]	nitrate ChEBI	-	reduction
[Ref.: #41916]	nitrate ChEBI	-	respiration
[Ref.: #41916]	nitrite ChEBI	-	builds gas from
[Ref.: #41916]	nitrite ChEBI	-	reduction

	Antibiotica	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #41916]		0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)	no	yes

	Metabolite production	Metabolite	Production
[Ref.: #41916]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #41916]		acetoin ChEBI	-
[Ref.: #41916]		glucose ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #41916]	alcohol dehydrogenase	-	1.1.1.1
[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.: #41916]	amylase	-
[Ref.: #41916]	beta-galactosidase	+	3.2.1.23
[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.: #41916]	caseinase	-	3.4.21.50
[Ref.: #41916]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #41916]	DNase	-
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #41916]	gamma-glutamyltransferase	+	2.3.2.2
[Ref.: #41916]	gelatinase	-
[Ref.: #41916]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #41916]	lipase	-
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #41916]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #41916]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #41916]	oxidase	+
[Ref.: #41916]	phenylalanine ammonia-lyase	+	4.3.1.24
[Ref.: #41916]	protease	-
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #41916]	tryptophan deaminase	-
[Ref.: #41916]	tween esterase	-
[Ref.: #41916]	urease	+	3.5.1.5
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® Biotype100:

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

	API ID	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
[Ref.: #41916]	1395	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.: #41916]	9041	-	+	+	+	-	+	-	-	-	-	+	+	+	+	-	+	+	+	-	-

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

[Ref.: #41916]	Sample type/isolated from	Grapevine, vitis vinifera
[Ref.: #41916]	Country	Australia
[Ref.: #41916]	Country ISO 3 Code	AUS
[Ref.: #41916]	Continent	Australia and Oceania
[Ref.: #41916]	Isolation date	1977

[Ref.: #41916]	Country	Australia
[Ref.: #41916]	Country ISO 3 Code	AUS
[Ref.: #41916]	Continent	Australia and Oceania
* marker position based on {}

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

[Ref.: #41916]

Biosafety level

Risk group (French classification)

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

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Agrobacterium vitis NCPPB 3554	GCA_001541345	scaffold	GenBank	373 tax ID	*
[Ref.: #66792]	Agrobacterium vitis strain NCPPB 3554	373.9	wgs	PATRIC	373 tax ID	*
[Ref.: #66792]	Agrobacterium vitis NCPPB 3554	2728368991	draft	JGI IMG/M	373 tax ID	*

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Agrobacterium vitis NCPPB 3554 NCBI: GCA_001541345.1
[Ref.: #69480]	flagellated	no	68.842	no
[Ref.: #69480]	gram-positive	no	98.318	no
[Ref.: #69480]	anaerobic	no	98.597	no
[Ref.: #69480]	aerobic	yes	92.472	no
[Ref.: #69480]	halophile	no	92.774	no
[Ref.: #69480]	spore-forming	no	94.559	no
[Ref.: #69480]	glucose-util	yes	93.199	no
[Ref.: #69480]	motile	yes	84.121	no
[Ref.: #69480]	thermophile	no	98.898	yes
[Ref.: #69480]	glucose-ferment	no	88.535	no
[Ref.: #69480]	flagellated	no	68.842	no
[Ref.: #69480]	gram-positive	no	98.318	no
[Ref.: #69480]	anaerobic	no	98.597	no
[Ref.: #69480]	aerobic	yes	92.472	no
[Ref.: #69480]	halophile	no	92.774	no
[Ref.: #69480]	spore-forming	no	94.559	no
[Ref.: #69480]	glucose-util	yes	93.199	no
[Ref.: #69480]	motile	yes	84.121	no
[Ref.: #69480]	thermophile	no	98.898	yes
[Ref.: #69480]	glucose-ferment	no	88.535	no

Availability in culture collections External links

[Ref.: #41916]

Culture collection no.

CIP 105853, NCPPB 3554, ATCC 49767, ICMP 10752, HAMBI 1817, LMG 8750

[Ref.: #96028]

SI-ID 687

Literature:

Topic	Title	Authors	Journal	DOI	Year
Genetics	High-Quality Draft Genome Sequence of the Type Strain of Allorhizobium vitis, the Primary Causal Agent of Grapevine Crown Gall.	Gan HM, Lee MVJ, Savka MA	Microbiol Resour Announc	10.1128/MRA.01045-18	2018	*
Phylogeny	Rhizobium oryziradicis sp. nov., isolated from rice roots.	Zhao JJ, Zhang J, Sun L, Zhang RJ, Zhang CW, Yin HQ, Zhang XX	Int J Syst Evol Microbiol	10.1099/ijsem.0.001724	2017	*
Genetics	Major differences between the rrnA operons of two strains of Agrobacterium vitis.	Otten L, De Ruffray P	Arch Microbiol	10.1007/s002030050357	1996	*
Genetics	Variability of the 5'-end of the large subunit rDNA and presence of a new short class of rRNA in Rhizobiaceae.	Evguenieva-Hackenberg E, Selenska-Pobell S	Lett Appl Microbiol	10.1111/j.1472-765x.1995.tb01092.x	1995	*

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 )

#41916 Collection of Institut Pasteur ; Curators of the CIP; CIP 105853

#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) .

#68382

Automatically annotated from API zym .

#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) .

#96028

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-ID687.1 )

* These data were automatically processed and therefore are not curated

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Agrobacterium vitis NCPPB 3554

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