Pseudomonas protegens (DSM 19095, CCOS 2, CFBP 6595)

Name: Pseudomonas protegens (DSM 19095, CCOS 2, CFBP 6595)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13154

Type strain

Strain Designation CHA0

Culture col. no. DSM 19095 CCOS 2 CFBP 6595 CHA0

NCBI tax ID(s) 380021

Special Collections DSMZ

History DSMZ <- G. Défago, ETH Zuerich; CHA0

Links

Pseudomonas protegens CHA0 is a bacterium that was isolated from soil suppressing black root rot of tobacco .

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 380598

CFBP 6595,DSM 19095,LMG 27888,DSM196095

@ref 20215

Last LPSN update 2026-05-29 08:27:58

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Pseudomonadales

Family Pseudomonadaceae

Genus Pseudomonas

Species Pseudomonas protegens

Full scientific name Pseudomonas protegens Ramette et al. 2012

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	96.621
125438		92.533
125438	negative	97.482

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
7886	LB (Luria-Bertani) MEDIUM (DSMZ Medium 381)	Medium recipe at MediaDive	Name: LB (Luria-Bertani) MEDIUM (DSMZ Medium 381) Composition: Agar 20.0 g/l NaCl 10.0 g/l Tryptone 10.0 g/l Yeast extract 5.0 g/l Distilled water
7886	NUTRIENT AGAR (DSMZ Medium 1)	Medium recipe at MediaDive	Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
7886	TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)	Medium recipe at MediaDive	Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
7886	TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)	Medium recipe at MediaDive	Name: TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545) Composition: Casein peptone 17.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l D(+)-Glucose 2.5 g/l K2HPO4 2.5 g/l Distilled water
7886	PSEUDOMONAS AGAR F (DSMZ Medium 907)	Medium recipe at MediaDive	Name: PSEUDOMONAS AGAR F (DSMZ Medium 907) Composition: Agar 15.0 g/l Glycerol 10.0 g/l Proteose peptone 10.0 g/l Tryptone 10.0 g/l MgSO4 1.5 g/l K2HPO4 1.5 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
7886	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125438	aerobe	93.028
125439	facultative anaerobe	90.836

Spore formation

@ref	Spore formation	Confidence
125439		99.502

Compound production

@ref	Compound
7886	2,4 diacetylphloroglucinol
7886	pyoluteorin

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
68369	17634 ChEBI	D-glucose	+	assimilation	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
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
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68369	35581 ChEBI	indole		from API 20NE

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68369	35581 ChEBI	indole	-	from API 20NE

Enzymes

@ref	Value	Activity	Ec
68369	arginine dihydrolase	+	3.5.3.6	from API 20NE
68369	cytochrome oxidase	+	1.9.3.1	from API 20NE
68369	gelatinase	+		from API 20NE
68369	urease	-	3.5.1.5	from API 20NE

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
7886	-	-	+	+	-	+/-	+	-	+	-	+	+	+	-	+	+	-	+	+	+	+
7886	-	-	-	+	-	-	+	-	+	-	+	+	+	-	+	+	-	+	+	+	+
7886	-	-	-	+	-	-	+	-	+	-	+	+	+	-	+	+	-	+	+	+	+
7886	-	-	+	+	-	-	+	-	+	-	+	+	+	-	+	+	-	+	+	+	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
7886	soil suppressing black root rot of tobacco (Nicotiana glutinosa)	Nicotiana glutinosa	Morens	Switzerland	CHE	Europe

Taxonmaps

69479

Global distribution of 16S sequence AJ278812 (>99% sequence identity) for Pseudomonas from Microbeatlas

Aquatic Samples	6618
Soil Samples	5812
Animal Samples	11260
Plant Samples	5019
Total Samples	28709

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
7886	1	Risk group (German 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	ASM39720v1 assembly for Pseudomonas protegens CHA0	complete	GCA_000397205	1124983.3	2554235341	1124983	99.22
66792	PPRCHA0 assembly for Pseudomonas protegens CHA0	complete	GCA_900560965	1124983.33	2917070673	1124983	97.28

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
7886	Pseudomonas protegens 16S rRNA gene, type strain CHA0T	AJ278812	1531		380021

GC content

@ref	GC-content (mol%)	Method
7886	60.1	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM39720v1 assembly for Pseudomonas protegens CHA0
BV-BRC: 1124983.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	90.84	no
125439	motility	BacteriaNetⓘ	yes	85.05	no
125439	gram_stain	BacteriaNetⓘ	negative	96.62	no
125439	spore_formation	BacteriaNetⓘ	no	99.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pseudomonas protegens CHA0 CHA0
NCBI: GCA_900560965.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.48	no
125438	anaerobic	anaerobicⓘ	no	97.56	no
125438	aerobic	aerobicⓘ	yes	93.03	no
125438	spore-forming	spore-formingⓘ	no	82.76	no
125438	thermophilic	thermophileⓘ	no	98.00	yes
125438	flagellated	motile2+ⓘ	yes	92.53	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Isolation and identification of Pseudomonas protegens sp. causing soft rot of Chinese cabbage in Shandong Province, China	Meng E, Yan H, Zhang H, Kong X, Shan Z, Gao P, Zhao C, Wei Z.	Crop Prot		2024
	Role of Bacillus spp. Plant Growth Promoting Properties in Mitigating Biotic and Abiotic Stresses in Lowland Rice (Oryza sativa L.).	Weinand T, El-Hasan A, Asch F.	Microorganisms	10.3390/microorganisms11092327	2023
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
Enzymology	Structure and Catalytic Mechanism of a Bacterial Friedel-Crafts Acylase.	Pavkov-Keller T, Schmidt NG, Zadlo-Dobrowolska A, Kroutil W, Gruber K.	Chembiochem	10.1002/cbic.201800462	2019
	Rapid Shifts in Bacterial Community Assembly under Static and Dynamic Hydration Conditions in Porous Media.	Kleyer H, Tecon R, Or D.	Appl Environ Microbiol	10.1128/aem.02057-19	2019
	The Great Five-an artificial bacterial consortium with antagonistic activity towards Pectobacterium spp. and Dickeya spp.: formulation, shelf life, and the ability to prevent soft rot of potato in storage.	Maciag T, Krzyzanowska DM, Jafra S, Siwinska J, Czajkowski R.	Appl Microbiol Biotechnol	10.1007/s00253-020-10550-x	2020
Enzymology	Biocatalytic Friedel-Crafts Acylation and Fries Reaction.	Schmidt NG, Pavkov-Keller T, Richter N, Wiltschi B, Gruber K, Kroutil W.	Angew Chem Int Ed Engl	10.1002/anie.201703270	2017
Enzymology	Growth promotion and protection from drought in Eucalyptus grandis seedlings inoculated with beneficial bacteria embedded in a superabsorbent polymer.	Chain JM, Tubert E, Graciano C, Castagno LN, Recchi M, Pieckenstain FL, Estrella MJ, Gudesblat G, Amodeo G, Baroli I.	Sci Rep	10.1038/s41598-020-75212-4	2020
	Updated Genome Sequence and Annotation for the Full Genome of Pseudomonas protegens CHA0.	Smits THM, Rezzonico F, Frasson D, Vesga P, Vacheron J, Blom J, Pothier JF, Keel C, Maurhofer M, Sievers M.	Microbiol Resour Announc	10.1128/mra.01002-19	2019
Phylogeny	Pseudomonas protegens sp. nov., widespread plant-protecting bacteria producing the biocontrol compounds 2,4-diacetylphloroglucinol and pyoluteorin.	Ramette A, Frapolli M, Fischer-Le Saux M, Gruffaz C, Meyer JM, Defago G, Sutra L, Moenne-Loccoz Y	Syst Appl Microbiol	10.1016/j.syapm.2010.10.005	2011

References

#7886	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19095
#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 )
#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) .
#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 .
#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 protegens (DSM 19095, CCOS 2, CFBP 6595)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Compound production

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API 20NE

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000397205

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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