Pseudomonas brassicacearum (DSM 13227, CFBP 11706, CCUG 51508)

Name: Pseudomonas brassicacearum (DSM 13227, CFBP 11706, CCUG 51508)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13068

Type strain

Strain Designation DBK11, DBK 11

Culture col. no. DSM 13227 CFBP 11706 CCUG 51508 DBK11 CIP 107059 3 more

NCBI tax ID(s) 930166 86264

Special Collections DSMZ CCUG JCM CIP

History DSMZ <- CFBP <- W. Achouak JCM <-- DSM 13227 <-- CFBP 11706 <-- W. Achouak DBK 11. CIP <- 2001, CFBP <- W. Achouak: strain DBK 11

Links

Pseudomonas brassicacearum DBK11 is an obligate aerobe, Gram-negative, motile bacterium that was isolated from rhizoplane of Brassica napus.

Gram-negative motile rod-shaped obligate aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 49439

DSM 13227,CFBP 11706,LMG 21623,CIP 107059,CFBP 5593,JCM 11938,CCUG 51508,NCPPB 4262

@ref 20215

Last LPSN update 2026-05-29 08:27:57

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Pseudomonadales

Family Pseudomonadaceae

Genus Pseudomonas

Species Pseudomonas brassicacearum

Full scientific name Pseudomonas brassicacearum Achouak et al. 2000

BacDive ID	Other strains from **Pseudomonas brassicacearum** (3)	Type strain
13067	P. brassicacearum MP5, DSM 11387
13069	P. brassicacearum G68, DSM 25827
176791	P. brassicacearum Pb1, 37.15, DSM 117834

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
116996	negative	rod-shaped
125438			93.739
125438	negative		99
125439	negative		97.56

Pigmentation

@ref	Production	Name
116996		Pyocyanin

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
4970	REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)	Medium recipe at MediaDive	Name: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
39647	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
116996	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
4970	positive	growth	30
39647	positive	growth	30
67770	positive	growth	28
116996	positive	growth	5-37
116996	negative	growth	41

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
116996	obligate aerobe
125438	aerobe	93.5
125439	obligate aerobe	90.433

Spore formation

@ref	Spore formation	Confidence
125439		99.73

Halophily

@ref	Salt	Growth	Tested relation	Concentration
116996	NaCl	positive	growth	0-6 %
116996	NaCl		growth	8 %
116996	NaCl		growth	10 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68369	17128 ChEBI	adipate	-	assimilation	from API 20NE
68369	29016 ChEBI	arginine	+	hydrolysis	from API 20NE
116996	16947 ChEBI	citrate	+	carbon source
68369	17634 ChEBI	D-glucose	+	assimilation	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
68369	16899 ChEBI	D-mannitol	+	assimilation	from API 20NE
68369	16024 ChEBI	D-mannose	+	assimilation	from API 20NE
68369	27689 ChEBI	decanoate	+	assimilation	from API 20NE
116996	4853 ChEBI	esculin	-	hydrolysis
68369	4853 ChEBI	esculin	-	hydrolysis	from API 20NE
68369	5291 ChEBI	gelatin	+	hydrolysis	from API 20NE
68369	24265 ChEBI	gluconate	+	assimilation	from API 20NE
68369	30849 ChEBI	L-arabinose	+	assimilation	from API 20NE
68369	25115 ChEBI	malate	+	assimilation	from API 20NE
68369	17306 ChEBI	maltose	-	assimilation	from API 20NE
68369	59640 ChEBI	N-acetylglucosamine	+	assimilation	from API 20NE
116996	17632 ChEBI	nitrate	+	reduction
116996	17632 ChEBI	nitrate	+	respiration
116996	16301 ChEBI	nitrite	+	reduction
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE

Antibiotic resistance

@ref	Metabolite	Is sensitive	Is resistant
116996	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
116996	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
116996	alcohol dehydrogenase	+	1.1.1.1
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	-	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
116996	amylase	-
68369	arginine dihydrolase	+	3.5.3.6	from API 20NE
68382	beta-galactosidase	-	3.2.1.23	from API zym
116996	beta-galactosidase	-	3.2.1.23
68382	beta-glucosidase	-	3.2.1.21	from API zym
68369	beta-glucosidase	-	3.2.1.21	from API 20NE
68382	beta-glucuronidase	-	3.2.1.31	from API zym
116996	caseinase	-	3.4.21.50
116996	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68369	cytochrome oxidase	+	1.9.3.1	from API 20NE
116996	DNase	+
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
116996	gelatinase	+/-
68369	gelatinase	+		from API 20NE
116996	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
116996	lipase	-
68382	lipase (C 14)	-		from API zym
116996	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
116996	ornithine decarboxylase	-	4.1.1.17
116996	oxidase	+
116996	protease	-
68382	trypsin	+	3.4.21.4	from API zym
116996	tryptophan deaminase	-
116996	tween esterase	+
116996	urease	-	3.5.1.5
68369	urease	-	3.5.1.5	from API 20NE
68382	valine arylamidase	-		from API zym

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
116996	-	+	+	+	-	+	-	-	+	-	+	+	-	-	-	-	-	+	-	-

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
4970	+	+	-	+	-	-	+	-	+	+	+	+	+	-	+	+	-	+	+	-	+
4970	-	-	-	+	-	-	+	-	+	+	+	+	+	-	+	+	-	+	+	-	+

API biotype100

@ref	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
116996	not determinedn.d.	+	+	+	+	+	-	-	+	-	-	-	-	-	-	-	-	-	-	-	+	+	+	-	-	-	-	+	-	-	-	-	+	+	+	-	-	+	-	-	+	-	-	-	+	+	-	+	-	+	+	+	+	-	+	+	+	+	-	-	+	+	-	+	+	+	-	-	+	-	-	+	+	+	+	-	+	+	+	-	+	+	+	+	+	+	-	+	-	+	+	+	+	+	+	+	+	+	+	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Rhizoplane

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
4970	rhizoplane of Brassica napus	Brassica napus	Dieulouard	France	FRA	Europe
59219	Rhizoplane of Brassica napus		Dieulouard	France	FRA	Europe
67770	Rhizoplane of Brassica napus	Brassica napus		France	FRA	Europe
116996	Rhizoplane of Brassica napus		Dieulard	France	FRA	Europe

Taxonmaps

69479

Global distribution of 16S sequence AF100321 (>99% sequence identity) for Pseudomonas from Microbeatlas

Aquatic Samples	8731
Soil Samples	16904
Animal Samples	11521
Plant Samples	5158
Total Samples	42314

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
4970	1	Risk group (German classification) According to TRBA 466
116996	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM880160v1 assembly for Pseudomonas brassicacearum subsp. brassicacearum CCUG 51508	contig	GCA_008801605	86264.4	8109162048	86264	63.7
124043	ASM4242942v1 assembly for Pseudomonas brassicacearum JCM 11938	scaffold	GCA_042429425			930166	61.4
67770	ASM1203434v1 assembly for Pseudomonas brassicacearum JCM 11938	scaffold	GCA_012034345	930166.118	8118286764	930166	57.46
124043	ASM4266004v1 assembly for Pseudomonas brassicacearum JCM 11938	contig	GCA_042660045			930166	32.09

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Pseudomonas brassicacearum partial 16S rRNA gene, strain CFBP 11706	AJ293858	650		930166
4970	Pseudomonas brassicacearum strain DBK11 16S ribosomal RNA gene, partial sequence	AF100321	1473		930166

GC content

@ref	GC-content (mol%)	Method
67770	60.8	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM880160v1 assembly for Pseudomonas brassicacearum subsp. brassicacearum CCUG 51508
BV-BRC: 86264.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	90.43	no
125439	gram_stain	BacteriaNetⓘ	negative	97.56	no
125439	motility	BacteriaNetⓘ	yes	85.02	no
125439	spore_formation	BacteriaNetⓘ	no	99.73	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pseudomonas brassicacearum strain JCM 11938
PATRIC: 930166.118

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.00	no
125438	anaerobic	anaerobicⓘ	no	97.68	no
125438	aerobic	aerobicⓘ	yes	93.50	yes
125438	spore-forming	spore-formingⓘ	no	81.63	no
125438	thermophilic	thermophileⓘ	no	98.00	yes
125438	flagellated	motile2+ⓘ	yes	93.74	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Enzymology	Molecular cloning, expression, and characterization of acyltransferase from Pseudomonas protegens.	Schmidt NG, Zadlo-Dobrowolska A, Ruppert V, Hoflehner C, Wiltschi B, Kroutil W.	Appl Microbiol Biotechnol	10.1007/s00253-018-9052-z	2018
Metabolism	Genetic Potential of the Biocontrol Agent Pseudomonas brassicacearum (Formerly P. trivialis) 3Re2-7 Unraveled by Genome Sequencing and Mining, Comparative Genomics and Transcriptomics.	Nelkner J, Tejerizo GT, Hassa J, Lin TW, Witte J, Verwaaijen B, Winkler A, Bunk B, Sproer C, Overmann J, Grosch R, Puhler A, Schluter AA.	Genes (Basel)	10.3390/genes10080601	2019
Enzymology	Superiority of molecular techniques for identification of gram-negative, oxidase-positive rods, including morphologically nontypical Pseudomonas aeruginosa, from patients with cystic fibrosis.	Wellinghausen N, Kothe J, Wirths B, Sigge A, Poppert S.	J Clin Microbiol	10.1128/jcm.43.8.4070-4075.2005	2005
	Effect of a Sinorhizobium meliloti strain with a modified putA gene on the rhizosphere microbial community of alfalfa.	van Dillewijn P, Villadas PJ, Toro N.	Appl Environ Microbiol	10.1128/aem.68.9.4201-4208.2002	2002
	Pseudomonas hefeiensis sp. nov., isolated from the rhizosphere of multiple cash crops in China.	Liao K, Li Q, Li JZ, Wei HL.	Int J Syst Evol Microbiol	10.1099/ijsem.0.006303	2024
Phylogeny	Pseudomonas viciae sp. nov., isolated from rhizosphere of broad bean.	Zhao H, Ma Y, Wu X, Zhang L	Int J Syst Evol Microbiol	10.1099/ijsem.0.004373	2020
Phylogeny	Pseudomonas brassicacearum subsp. neoaurantiaca subsp. nov., orange-pigmented bacteria isolated from soil and the rhizosphere of agricultural plants.	Ivanova EP, Christen R, Bizet C, Clermont D, Motreff L, Bouchier C, Zhukova NV, Crawford RJ, Kiprianova EA	Int J Syst Evol Microbiol	10.1099/ijs.0.009654-0	2009
Phylogeny	Pseudomonas brassicacearum sp. nov. and Pseudomonas thivervalensis sp. nov., two root-associated bacteria isolated from Brassica napus and Arabidopsis thaliana.	Achouak W, Sutra L, Heulin T, Meyer JM, Fromin N, Degraeve S, Christen R, Gardan L	Int J Syst Evol Microbiol	10.1099/00207713-50-1-9	2000

References

#4970	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 13227
#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 )
#39647	; Curators of the CIP;
#59219	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 51508
#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 .
#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 .
#116996	Collection of Institut Pasteur ; Curators of the CIP; CIP 107059
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Pseudomonas brassicacearum (DSM 13227, CFBP 11706, CCUG 51508)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Antibiotic resistance

Metabolite production

Enzymes

API zym

API 20NE

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_008801605

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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