Pseudomonas cichorii (DSM 50259, ATCC 10857, CCUG 32776)

Name: Pseudomonas cichorii (DSM 50259, ATCC 10857, CCUG 32776)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 12817

Type strain

Strain Designation PC 1

Culture col. no. DSM 50259 ATCC 10857 CCUG 32776 NCPPB 943 LMG 2162 6 more

NCBI tax ID(s) 36746

Special Collections DSMZ CCUG CIP

Links

Pseudomonas cichorii PC 1 is an aerobe, mesophilic, Gram-negative plant pathogen of the family Pseudomonadaceae.

Gram-negative motile rod-shaped aerobe mesophilic plant pathogen genome sequence 16S sequence

Name and taxonomic classification

SI-ID 3986

LMG 2162,ATCC 10857,ATCC 19303,ATCC 19474,CIP 106704,DSM 50259,ICMP 5707,IMET 11188,NCPPB 943,NRRL B-832,PDDCC 5707,CCUG 32776,LMD 69.31,CECT 4471,CCRC 12848,CFBP 2101,CCM 4968,NCCB 69031,BCRC 12848,KACC 10137

@ref 20215

Last LPSN update 2025-12-16 09:49:56

Domain Pseudomonadati

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Pseudomonadales

Family Pseudomonadaceae

Genus Pseudomonas

Species Pseudomonas cichorii

Full scientific name Pseudomonas cichorii (Swingle 1925) Stapp 1928 (Approved Lists 1980)

Synonyms (1)

"Phytomonas cichorii"

BacDive ID	Other strains from **Pseudomonas cichorii** (7)	Type strain
12818	P. cichorii 67-1/1, DSM 50260
100177	P. cichorii
137448	P. cichorii 53.11, CIP 74.19, CFBP 1374
157420	P. cichorii IMI 347468
157421	P. cichorii IMI 347473
157422	P. cichorii IMI 347477
157423	P. cichorii IMI 377784

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
118278	negative	rod-shaped
125439	negative		98.2
125438			92.208
125438	negative		99

Pigmentation

@ref	Production	Name
118278		Pyocyanin

Multimedia

@ref:	12688
multimedia content:	DSM_50259.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_50259.jpg
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
12688	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
12688	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
12688	GLUCOSE YEAST EXTRACT MEDIUM (DSMZ Medium 54)	Medium recipe at MediaDive	Name: GLUCOSE YEAST EXTRACT MEDIUM (DSMZ Medium 54) Composition: CaCO3 20.0 g/l Glucose 20.0 g/l Agar 17.0 g/l Yeast extract 10.0 g/l Distilled water
39558	MEDIUM 3 - Columbia agar		Columbia agar (39.000 g);distilled water (1000.000 ml)
12688	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
12688	CASO AGAR (MERCK 105458) (DSMZ Medium 220)	Medium recipe at MediaDive	Name: CASO AGAR (MERCK 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
118278	CIP Medium 3	Medium recipe at CIP
118278	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
12688	positive	growth	28	mesophilic
12688	positive	growth	27	mesophilic
39558	positive	growth	25	mesophilic
51176	positive	growth	28	mesophilic
118278	positive	growth	5-30
118278	negative	growth	37
118278	negative	growth	41

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
51176	aerobe
118278	obligate aerobe
125438	aerobe	92.757

Spore formation

@ref	Spore formation	Confidence
125439		95.1

Compound production

@ref	Compound
12688	6 aminopenicillanic acid
12688	poly(ß-hydroxyalkanoic acids)
12688	omega transaminase

Halophily

@ref	Salt	Growth	Tested relation	Concentration
118278	NaCl	positive	growth	0-6 %
118278	NaCl		growth	8 %
118278	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
118278	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
118278	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
118278	17632 ChEBI	nitrate	-	reduction
118278	17632 ChEBI	nitrate	-	respiration
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
118278	16301 ChEBI	nitrite	-	reduction
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE

Antibiotic resistance

@ref	Metabolite	Is sensitive	Is resistant
118278	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68369	35581 ChEBI	indole		from API 20NE
118278	35581 ChEBI	indole

Metabolite tests

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

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
118278	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
118278	amylase	-
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68382	beta-galactosidase	-	3.2.1.23	from API zym
118278	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
118278	caseinase	-	3.4.21.50
118278	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
118278	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
118278	gelatinase	-
68369	gelatinase	-		from API 20NE
118278	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
118278	lipase	-
68382	lipase (C 14)	-		from API zym
118278	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
118278	ornithine decarboxylase	-	4.1.1.17
118278	oxidase	+
118278	protease	-
68382	trypsin	+	3.4.21.4	from API zym
118278	tryptophan deaminase	-
118278	tween esterase	-
118278	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
118278	-	+	+	+	-	+	-	-	+	-	+	+	-	-	-	-	+	-	-	-

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
12688	-	-	-	-	-	-	-	-	+	+	-	+	-	-	+	+	-	+	+	-	+

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
118278	not determinedn.d.	+	+	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	+	+	-	-	-	-	+	-	-	-	-	+	+	+	-	-	-	-	-	-	-	-	-	+	+	+	+	+	+	+	+	+	-	+	+	+	+	-	-	-	+	-	+	+	+	-	-	-	-	-	+	+	+	+	-	+	+	+	-	+	+	+	+	+	+	-	-	-	+	+	+	+	+	+	+	+	+	-	+

Isolation, sampling and environmental information

Isolation source categories

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

Isolation

@ref	Sample type	Sampling date	Country	Country ISO 3 Code	Continent	Isolation date
39558			Germany	DEU	Europe
51176	Cichorium endivia	1929	Germany	DEU	Europe
118278	Cichorium endiva		Germany	DEU	Europe	1929

Taxonmaps

69479

Global distribution of 16S sequence Z76658 (>99% sequence identity) for Pseudomonas from Microbeatlas

Aquatic Samples	1730
Soil Samples	1846
Animal Samples	3377
Plant Samples	1757
Total Samples	8710

Interaction and safety

Risk assessment

@ref	Pathogenicity plant	Biosafety level	Biosafety level comment
12688		1	Risk group (German classification) According to TRBA 466
118278		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	ASM1834377v1 assembly for Pseudomonas cichorii DSM 50259	complete	GCA_018343775	36746.30	8111862275	36746	98.16
66792	IMG-taxon 2667527209 annotated assembly for Pseudomonas cichorii ATCC 10857	scaffold	GCA_900104015	36746.17	2667527209	36746	67.04
66792	ASM1547142v1 assembly for Pseudomonas cichorii LMG 2162	contig	GCA_015471425	36746.26		36746	61.65

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Pseudomonas cichorii gene for 16S rRNA, strain: ATCC 10857	AB021398	1505	36746
20218	Pseudomonas cichorii partial 16S rRNA gene, type strain ICMP 5707T	AJ308302	1371	36746
20218	Pseudomonas cichorii culture-collection CFBP:2101 16S ribosomal RNA gene, partial sequence	HM190228	1444	36746
20218	Pseudomonas cichorii strain BC2595 16S ribosomal RNA gene, partial sequence	JX913784	1408	36746
20218	P.cichorii 16S rRNA gene	Z76658	1494	36746

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Pseudomonas cichorii strain DSM 50259
PATRIC: 36746.30

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	95.10	no
125439	motility	BacteriaNetⓘ	yes	82.80	no
125439	gram_stain	BacteriaNetⓘ	negative	98.20	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	80.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pseudomonas cichorii DSM 50259
NCBI: GCA_018343775.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.00	no
125438	anaerobic	anaerobicⓘ	no	97.91	yes
125438	aerobic	aerobicⓘ	yes	92.76	yes
125438	spore-forming	spore-formingⓘ	no	86.72	no
125438	thermophilic	thermophileⓘ	no	98.00	yes
125438	flagellated	motile2+ⓘ	yes	92.21	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Enzymology	Transaminases for industrial biocatalysis: novel enzyme discovery.	Kelly SA, Mix S, Moody TS, Gilmore BF.	Appl Microbiol Biotechnol	10.1007/s00253-020-10585-0	2020
	Chemical Structure of the Lipid A component of Pseudomonas sp. strain PAMC 28618 from Thawing Permafrost in Relation to Pathogenicity.	Park HG, Sathiyanarayanan G, Hwang CH, Ann DH, Kim JH, Bang G, Jang KS, Ryu HW, Lee YK, Yang YH, Kim YG.	Sci Rep	10.1038/s41598-017-02145-w	2017
Pathogenicity	Housekeeping gene sequencing and multilocus variable-number tandem-repeat analysis to identify subpopulations within Pseudomonas syringae pv. maculicola and Pseudomonas syringae pv. tomato that correlate with host specificity.	Gironde S, Manceau C.	Appl Environ Microbiol	10.1128/aem.06655-11	2012
Metabolism	High-performance liquid chromatography analyses of pyoverdin siderophores differentiate among phytopathogenic fluorescent Pseudomonas Species.	Bultreys A, Gheysen I, Wathelet B, Maraite H, de Hoffmann E.	Appl Environ Microbiol	10.1128/aem.69.2.1143-1153.2003	2003
	Pseudomonads Rule Degradation of Polyaromatic Hydrocarbons in Aerated Sediment.	Wald J, Hroudova M, Jansa J, Vrchotova B, Macek T, Uhlik O.	Front Microbiol	10.3389/fmicb.2015.01268	2015
Metabolism	Different Ancestries of R Tailocins in Rhizospheric Pseudomonas Isolates.	Ghequire MG, Dillen Y, Lambrichts I, Proost P, Wattiez R, De Mot R.	Genome Biol Evol	10.1093/gbe/evv184	2015
Metabolism	Loss of wbpL disrupts O-polysaccharide synthesis and impairs virulence of plant-associated Pseudomonas strains.	Kutschera A, Schombel U, Wrobel M, Gisch N, Ranf S	Mol Plant Pathol	10.1111/mpp.12864	2019
	First Report of Bacterial Leaf Spot Caused by Pseudomonas cichorii on Phlox paniculata in Italy.	Garibaldi A, Bertetti D, Scortichini M, Gullino ML	Plant Dis	10.1094/PD-89-0912C	2005
Phylogeny	Pseudomonas capsici sp. nov., a plant-pathogenic bacterium isolated from pepper leaf in Georgia, USA.	Zhao M, Koirala S, Chen HC, Gitaitis R, Kvitko B, Dutta B	Int J Syst Evol Microbiol	10.1099/ijsem.0.004971	2021

References

#12688	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 50259
#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 )
#39558	; Curators of the CIP;
#51176	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 32776
#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 .
#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 .
#118278	Collection of Institut Pasteur ; Curators of the CIP; CIP 106704
#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 cichorii (DSM 50259, ATCC 10857, CCUG 32776)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Compound production

Halophily

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

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_018343775

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

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