Name: Agrobacterium radiobacter DSM 30147
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 13580

Type strain:

Species: Agrobacterium radiobacter

Culture col. no.: DSM 30147, ATCC 19358, IFO 13532, NBRC 13532, NCIB 9042, CCUG 3354, IAM 12048, EX 3.24.2 (L 624), JCM 20371, BCRC 10372, CECT 4112, CIP 104325, HAMBI 1814, ICMP 5785, KACC 10798, KCTC 22091, LMG 140, NCCB 27005, NCIMB 9042, NCPPB 3001

Strain history: IAM 12048 <-- ATCC 19358 <-- NCIB 9042 <-- Lab. Micorbiol., Delft; EX3.24.2.

NCBI tax ID(s): 1336745 (strain), 358 (species)

Other strains from Agrobacterium radiobacter

Section

Agrobacterium radiobacter DSM 30147 is an aerobe, mesophilic human pathogen that was isolated from Ditch water.

aerobe
human pathogen
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	25-08-2022 (DD-MM-YYYY)
	Domain	Bacteria
	Phylum	Pseudomonadota
	Class	Alphaproteobacteria
	Order	Hyphomicrobiales
	Family	Rhizobiaceae
	Genus	Agrobacterium
	Species	Agrobacterium radiobacter
	Full Scientific Name (PNU)	Agrobacterium radiobacter (Beijerinck and van Delden 1902) Conn 1942 (Approved Lists 1980)

	Synonym	Bacterium tumefaciens
	Synonym	Rhizobium radiobacter
	Synonym	Agrobacterium tumefaciens
	Synonym	Bacillus radiobacter
	Synonym	Beijerinckia fluminensis

Information on morphological and physiological properties Morphology

[Ref.: #9167]

Incubation period

2-3 days

Information on culture and growth conditions Culture and growth conditions

[Ref.: #37042]

Culture medium

MEDIUM 3 - Columbia agar

[Ref.: #37042]

Culture medium growth

[Ref.: #37042]

Culture medium composition

expand / minimize

[Ref.: #9167]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #9167]

Culture medium growth

[Ref.: #9167]

Culture medium link

Medium recipe at MediaDive

[Ref.: #9167]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #9167]	growth	30 °C
[Ref.: #37042]	growth	30 °C
[Ref.: #44648]	growth	37 °C
[Ref.: #67770]	growth	25 °C

[Ref.: #9167]	Temperature range	mesophilic
[Ref.: #37042]	Temperature range	mesophilic
[Ref.: #44648]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #44648]

Oxygen tolerance

aerobe

	Metabolite	Utilization activity	Kind of utilization tested
[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]	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
[Ref.: #68369]		indole ChEBI	* from API 20NE

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

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	-	3.1.3.2	* 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.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68369]	beta-glucosidase	+	3.2.1.21	* from API 20NE
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #9167]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE
[Ref.: #9167]	cytochrome-c oxidase	+	1.9.3.1
[Ref.: #68382]	esterase (C 4)	-		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	-		* from API zym
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	-		* from API zym
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #68369]	urease	+	3.5.1.5	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

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.: #9167]	16934	-	-	-	-	+	+	-	+	+	+	+	+	+	+	+	-	-	+	-	-	+
[Ref.: #9167]	16528	+	-	-	-	+	+	-	+	+	+	+	+	+	+	+	-	-	+	-	-	+
[Ref.: #9167]	16527	-	-	-	-	+	+	-	+	+	+	+	+	+	+	+	-	+/-	+	-	-	+
[Ref.: #9167]	17617	+/-	-	-	-	+	+	-	+	+	+	+	+	+	+	+	-	+/-	+	-	-	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.: #9167]	5532	-	+/-	-	-	-	+	+/-	-	+	-	-	-	-	-	-	+	+/-	+	-	-

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

[Ref.: #44648]

Sample type/isolated from

Ditch water

Isolation sources categories

#Environmental	#Aquatic	#Freshwater
#Engineered	#Built environment	-

What are isolation sources categories?

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

[Ref.: #9167]	Pathogenicity (human)	yes, in single cases
[Ref.: #9167]	Pathogenicity (plant)	yes
[Ref.: #9167]	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.: #20218]	Agrobacterium radiobacter 16S rRNA gene, strain ATCC19358	AJ389904	1437	ENA	358 tax ID	*
[Ref.: #20218]	Agrobacterium tumefaciens strain LMG 140 16S ribosomal RNA gene, partial sequence; internal transcribed spacer, complete sequence and 23S ribosomal RNA gene, partial sequence	AF541973	1086	ENA	358 tax ID	*
[Ref.: #20218]	Agrobacterium radiobacter partial 16S rRNA gene, strain LMG 140	AM181758	1426	ENA	358 tax ID	*
[Ref.: #20218]	Agrobacterium tumefaciens gene for 16S rRNA, partial sequence, strain: NBRC 13532	AB680423	1410	ENA	358 tax ID	*
[Ref.: #9167]	Agrobacterium tumefaciens genes for 16S rRNA, tRNA-Ile, tRNA-Ala, 23S rRNA 150-b fragment, IVS, 23S rRNA 1.3-kb fragment A, partial and complete sequence, strain: IAM 12048	AB247615	2738	ENA	358 tax ID

Genome sequence information:

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

	Sequence accession description	Seq. accession number	Assembly level (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Agrobacterium sp. NCIB 9042 NCIB 9042	GCA_011684005	contig	GenBank	2756240 tax ID	*
[Ref.: #66792]	Agrobacterium tumefaciens CCUG 3354	GCA_008801385	contig	GenBank	358 tax ID	*
[Ref.: #66792]	Agrobacterium tumefaciens NCPPB 3001	GCA_001541305	contig	GenBank	358 tax ID	*
[Ref.: #66792]	Agrobacterium tumefaciens LMG 140	GCA_002008215	contig	GenBank	358 tax ID	*
[Ref.: #66792]	Agrobacterium radiobacter DSM 30147 DSM 30147	GCA_000421945	contig	GenBank	1336745 tax ID	*
[Ref.: #66792]	Agrobacterium radiobacter DSM 30147	1336745.4	wgs	PATRIC	1336745 tax ID	*

Availability in culture collections External links

[Ref.: #9167]

Culture collection no.

DSM 30147, ATCC 19358, IFO 13532, NBRC 13532, NCIB 9042, CCUG 3354, IAM 12048, EX 3.24.2 (L 624), JCM 20371, BCRC 10372, CECT 4112, CIP 104325, HAMBI 1814, ICMP 5785, KACC 10798, KCTC 22091, LMG 140, NCCB 27005, NCIMB 9042, NCPPB 3001

[Ref.: #20218]

Associated Passport(s) in StrainInfo

2057, 2053, 2061, 486704, 2063

Literature:

Only first 10 entries are displayed. Click here to see all.

Title	Authors	Journal	DOI	Year	Mesh	Topic	Topic2
Purification and characterization of 2,6-dihydroxybenzoate decarboxylase reversibly catalyzing nonoxidative decarboxylation.	Yoshida T, Hayakawa Y, Matsui T, Nagasawa T	Arch Microbiol	10.1007/s00203-004-0668-2	2004	Agrobacterium tumefaciens/enzymology, Bicarbonates/metabolism, Carboxy-Lyases/chemistry/isolation & purification/metabolism, Coenzymes, Decarboxylation, Enzyme Stability, Hydrogen-Ion Concentration, Hydroxybenzoates/metabolism, Kinetics, Molecular Weight, Potassium Compounds/metabolism, Protein Subunits/chemistry, Resorcinols/metabolism, Stereoisomerism, Substrate Specificity	Enzymology	Metabolism	*
Phylogenetic assignment and mechanism of action of a crop growth promoting Rhizobium radiobacter strain used as a biofertiliser on graminaceous crops in Russia.	Humphry DR, Andrews M, Santos SR, James EK, Vinogradova LV, Perin L, Reis VM, Cummings SP	Antonie Van Leeuwenhoek	10.1007/s10482-006-9100-z	2007	Agrobacterium tumefaciens/classification/genetics/physiology, Bacterial Proteins/genetics, Bacterial Typing Techniques, Crops, Agricultural/growth & development/*microbiology, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, DNA-Directed RNA Polymerases/genetics, Genes, rRNA, Gibberellins/biosynthesis, Hordeum/growth & development/microbiology, Indoleacetic Acids/metabolism, Molecular Sequence Data, Nitrogen Fixation/genetics, Nucleic Acid Hybridization, Oxidoreductases/genetics, Peptide Elongation Factor G/genetics, Phylogeny, Plant Diseases/microbiology, Plant Shoots/growth & development, Polymerase Chain Reaction, RNA, Ribosomal, 16S/genetics, Russia, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Solanum tuberosum/microbiology	Phylogeny	Genetics	*
Modeling growth and succinoglucan production by Agrobacterium radiobacter NCIB 9042 in batch cultures.	Dussap CG, De Vita D, Pons A	Biotechnol Bioeng	10.1002/bit.260380109	1991		Biotechnology		*
Rhizobium borbori sp. nov., aniline-degrading bacteria isolated from activated sludge.	Zhang GX, Ren SZ, Xu MY, Zeng GQ, Luo HD, Chen JL, Tan ZY, Sun GP	Int J Syst Evol Microbiol	10.1099/ijs.0.022228-0	2010	Aniline Compounds/metabolism, Bacterial Typing Techniques, Cluster Analysis, DNA Fingerprinting, DNA Transposable Elements, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, DNA, Ribosomal Spacer/chemistry/genetics, Fatty Acids/analysis, Genotype, Glutamate-Ammonia Ligase, Molecular Sequence Data, Molecular Typing, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Rec A Recombinases, Rhizobium/classification/genetics/isolation & purification/metabolism, Sequence Analysis, DNA, Sewage/microbiology	Phylogeny	Genetics	*
Rhizobium rosettiformans sp. nov., isolated from a hexachlorocyclohexane dump site, and reclassification of Blastobacter aggregatus Hirsch and Muller 1986 as Rhizobium aggregatum comb. nov.	Kaur J, Verma M, Lal R	Int J Syst Evol Microbiol	10.1099/ijs.0.017491-0	2010	Bradyrhizobiaceae/classification/genetics/isolation & purification/metabolism, DNA, Bacterial/genetics, Fatty Acids/metabolism, Hexachlorocyclohexane/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhizobium/classification/genetics/isolation & purification/metabolism, Water Pollutants, Chemical/metabolism	Phylogeny	Metabolism	*
Rhizobium pusense sp. nov., isolated from the rhizosphere of chickpea (Cicer arietinum L.).	Panday D, Schumann P, Das SK	Int J Syst Evol Microbiol	10.1099/ijs.0.028407-0	2010	Base Composition, Cicer/microbiology, DNA, Bacterial/genetics, Fatty Acids/metabolism, India, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhizobium/classification/genetics/isolation & purification/metabolism, Rhizosphere, *Soil Microbiology	Phylogeny	Metabolism	*
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	Bacterial Proteins/genetics, Bacterial Typing Techniques, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Hungary, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Poland, RNA, Ribosomal, 16S/genetics, Rhizobium/classification/genetics/isolation & purification, Root Nodules, Plant/*microbiology, Sequence Analysis, DNA	Phylogeny	Genetics	*
Genomic analysis of Agrobacterium radiobacter DSM 30147(T) and emended description of A. radiobacter (Beijerinck and van Delden 1902) Conn 1942 (Approved Lists 1980) emend. Sawada et al. 1993.	Zhang L, Li X, Zhang F, Wang G	Stand Genomic Sci	10.4056/sigs.4688352	2014				*
Agrobacterium deltaense sp. nov., an endophytic bacteria isolated from nodule of Sesbania cannabina.	Yan J, Li Y, Han XZ, Chen WF, Zou WX, Xie Z, Li M	Arch Microbiol	10.1007/s00203-017-1367-0	2017	Agrobacterium/classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition/genetics, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Genes, Essential/genetics, Genome, Bacterial/genetics, Phylogeny, RNA, Ribosomal, 16S/genetics, Root Nodules, Plant/microbiology, Sequence Analysis, DNA, Sesbania/*microbiology	Phylogeny	Genetics	*
Agrobacterium salinitolerans sp. nov., a saline-alkaline-tolerant bacterium isolated from root nodule of Sesbania cannabina.	Yan J, Li Y, Yan H, Chen WF, Zhang X, Wang ET, Han XZ, Xie ZH	Int J Syst Evol Microbiol	10.1099/ijsem.0.001885	2017	Agrobacterium/classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Phylogeny, RNA, Ribosomal, 16S/genetics, Root Nodules, Plant/microbiology, Sequence Analysis, DNA, Sesbania/microbiology	Phylogeny	Transcriptome	*
Improved genome of Agrobacterium radiobacter type strain provides new taxonomic insight into Agrobacterium genomospecies 4.	Gan HM, Lee MVL, Savka MA	PeerJ	10.7717/peerj.6366	2019				*
Isolation, Identification and Characterization of Endophytic Bacterium Rhizobium oryzihabitans sp. nov., from Rice Root with Biotechnological Potential in Agriculture.	Zhao J, Zhao X, Wang J, Gong Q, Zhang X, Zhang G	Microorganisms	10.3390/microorganisms8040608	2020		Phylogeny		*
Strain ATCC 4720(T) is the authentic type strain of Agrobacterium tumefaciens, which is not a later heterotypic synonym of Agrobacterium radiobacter.	Velazquez E, Flores-Felix JD, Sanchez-Juanes F, Igual JM, Peix A	Int J Syst Evol Microbiol	10.1099/ijsem.0.004443	2020	Agrobacterium tumefaciens/classification, Phylogeny, Terminology as Topic	Phylogeny		*
Characterization and rheological properties analysis of the succinoglycan produced by a high-yield mutant of Rhizobium radiobacter ATCC 19358.	Gao H, Yang L, Tian J, Huang L, Huang D, Zhang W, Xie F, Niu Y, Jin M, Jia C, Zou C, Huang J, Chang Z, Yang X, Jiang D	Int J Biol Macromol	10.1016/j.ijbiomac.2020.10.087	2020	Agrobacterium tumefaciens/genetics/metabolism, Carbohydrate Conformation, Elastic Modulus, Hot Temperature, Mutation, Polysaccharides, Bacterial/biosynthesis/chemistry, Rheology, *Viscosity	Stress	Biotechnology	*

References

#9167

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 30147

#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 )

#37042 ; Curators of the CIP;
#44648 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 3354

#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;

#68369

Automatically annotated from API 20NE .

#68382

Automatically annotated from API zym .

* These data were automatically processed and therefore are not curated

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