Name: Dickeya chrysanthemi EC17
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 4346

Type strain:

Species: Dickeya chrysanthemi

Strain Designation: EC17

Culture col. no.: CCUG 38766, LMG 2804, DSM 4610, ATCC 11663, CIP 82.99, DAR 35625, NCPPB 402, PDDCC 5703

Strain history: <- CIP <- NCPPB <- W. Burkholder, EC17

NCBI tax ID(s): 1223569 (strain), 556 (species)

SI-ID 13658

LMG 2804, ATCC 11663, ICMP 5703, NCPPB 402, PDDCC 5703, CCUG 38766, NBIMCC 2332, DSM 4610, CIP 82.99, KCTC 2569, CFBP 2048, NCAIM B.01392, BCRC 12849, CCRC 12849, KACC 10062

Other strains from Dickeya chrysanthemi

D. chrysanthemi EC 16, DSM 30177, ATCC 11662

Section

Dickeya chrysanthemi EC17 is an aerobe, mesophilic, motile plant pathogen that was isolated from Chrysanthemum morifolium.

motile
aerobe
mesophilic
plant pathogen
16S sequence
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	*Gammaproteobacteria*
	Order	*Enterobacterales*
	Family	*Pectobacteriaceae*
	Genus	*Dickeya*
	Species	**Dickeya chrysanthemi**
	Full Scientific Name (LPSN)	Dickeya chrysanthemi (Burkholder et al. 1953) Samson et al. 2005

	Synonym	Pectobacterium chrysanthemi
	Synonym	Erwinia chrysanthemi

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %99.985

[Ref.: #69480]	Motility	yes Confidence in %98.238

Multimedia content

[Ref.: #1800]

Caption:

DSM 4610 on medium 1 at 28 °C

[Ref.: #1800]

Intellectual property rights:

Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH

Information on culture and growth conditions Culture and growth conditions

[Ref.: #1800]

Culture medium

REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)

[Ref.: #1800]

Culture medium growth

[Ref.: #1800]

Culture medium link

Medium recipe at MediaDive

[Ref.: #1800]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #1800]			growth	30 °C
[Ref.: #54451]			growth	30 °C

[Ref.: #1800]	Temperature range	mesophilic
[Ref.: #54451]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #54451]

Oxygen tolerance

aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %95
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.918

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68368]	amygdalin ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	arginine ChEBI	+	hydrolysis	* from API 20E
[Ref.: #68368]	citrate ChEBI	+	assimilation	* from API 20E
[Ref.: #68368]	D-glucose ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	D-mannitol ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	gelatin ChEBI	-	hydrolysis	* from API 20E
[Ref.: #68368]	L-arabinose ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	L-rhamnose ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	lysine ChEBI	-	degradation	* from API 20E
[Ref.: #68368]	melibiose ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	myo-inositol ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	ornithine ChEBI	-	degradation	* from API 20E
[Ref.: #68368]	sorbitol ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	sucrose ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	tryptophan ChEBI	+	energy source	* from API 20E
[Ref.: #68368]	urea ChEBI	-	hydrolysis	* from API 20E
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #68368]	acetoin ChEBI	no	* from API 20E
[Ref.: #68368]	hydrogen sulfide ChEBI	no	* from API 20E
[Ref.: #68368]	indole ChEBI	yes	* from API 20E

	Physiological tests	Metabolite	Voges-Proskauer-test	Indole test
[Ref.: #68368]		acetoin ChEBI	-		* from API 20E
[Ref.: #68368]		indole ChEBI		+	* from API 20E

	Enzyme	Enzyme activity	EC number
[Ref.: #68368]	arginine dihydrolase	+	3.5.3.6	* from API 20E
[Ref.: #68368]	beta-galactosidase	+	3.2.1.23	* from API 20E
[Ref.: #68368]	cytochrome oxidase	-	1.9.3.1	* from API 20E
[Ref.: #68368]	gelatinase	-		* from API 20E
[Ref.: #68368]	lysine decarboxylase	-	4.1.1.18	* from API 20E
[Ref.: #68368]	ornithine decarboxylase	-	4.1.1.17	* from API 20E
[Ref.: #68368]	tryptophan deaminase	-	4.1.99.1	* from API 20E
[Ref.: #68368]	urease	-	3.5.1.5	* from API 20E

API® 20E:

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

	API ID	beta-GalactosidaseONPG	Arginine dihydrolaseADH (Arg)	Lysine decarboxylaseLDC (Lys)	Ornithine decarboxylaseODC	Citrate utilizationCIT	H2S productionH2S	Urease/urea hydrolysisURE	Tryptophan deaminaseTDA (Trp)	Indole productionIND	Acetoin production (Voges Proskauer test)VP	Gelatinase/gelatin hydrolysisGEL	Fermentation/oxidation of D-glucoseGLU	Fermentation/oxidation of D-mannitolMAN	Fermentation/oxidation of inositolINO	Fermentation/oxidation of sorbitolSor	Fermentation/oxidation of L-rhamnoseRHA	Fermentation/oxidation of sucroseSAC	Fermentation/oxidation of melibioseMEL	Fermentation/oxidation of amygdalinAMY	Fermentation/oxidation of L-arabinoseARA	Cytochrome oxidaseOX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	Oxidative catabolisation of D-glucoseOF-O	Fermentation of D-glucoseOF-F
[Ref.: #1800]	17913	+	+	-	-	+	-	-	-	+	-	-	+	+	+	-	+	+	+	+	+	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

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

[Ref.: #54451]	Sample type/isolated from	Chrysanthemum morifolium
[Ref.: #54451]	Country	USA
[Ref.: #54451]	Country ISO 3 Code	USA
[Ref.: #54451]	Continent	North America
* marker position based on {}

Isolation sources categories

#Host

#Plants

#Herbaceous plants (Grass,Crops)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence HG515379 (>99% sequence identity) for Dickeya chrysanthemi from Microbeatlas

Aquatic Samples	16
Soil Samples	2
Animal Samples	45
Plant Samples	3
Total Samples	66

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

[Ref.: #1800]	Pathogenicity (plant)	yes
[Ref.: #1800]	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:

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

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #20218]	Pectobacterium chrysanthemi strain ATCC 11663(Type strain) 16S-23S intergenic spacer region and tRNA-Glu gene, complete sequence	AF232681	356	ENA	556 tax ID	*
[Ref.: #20218]	Erwinia chrysanthemi 16S ribosomal RNA gene, partial sequence	U80200	1458	ENA	556 tax ID	*
[Ref.: #20218]	Erwinia chrysanthemi 16S rRNA gene (strain DSM 4610)	AJ233412	1496	ENA	556 tax ID	*
[Ref.: #20218]	Erwinia chrysanthemi partial 16S rRNA gene, type strain DSM 4610T, clone 1	HG515378	1528	ENA	556 tax ID	*
[Ref.: #20218]	Erwinia chrysanthemi partial 16S rRNA gene, type strain DSM 4610T, clone 2	HG515379	1528	ENA	556 tax ID	*
[Ref.: #20218]	Erwinia chrysanthemi LMG 2804 16S ribosomal RNA	Z96093	1497	ENA	556 tax ID	*
[Ref.: #20218]	Erwinia chrysanthemi strain NCPPB 402 16S-23S ribosomal RNA intergenic spacer, partial sequence	KC844732	319	ENA	556 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Dickeya chrysanthemi NCPPB 402	GCA_000406105	chromosome	GenBank	1223569 tax ID	*
[Ref.: #66792]	Dickeya chrysanthemi NCPPB 402	1223569.8	wgs	PATRIC	1223569 tax ID	*
[Ref.: #66792]	Dickeya chrysanthemi NCPPB 402	2558860220	draft	JGI IMG/M	1223569 tax ID	*

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Dickeya chrysanthemi NCPPB 402 NCPPB 402 NCBI: GCA_000406105.1
[Ref.: #69481]	spore-forming	no	95	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Dickeya chrysanthemi NCPPB 402 NCPPB 402 NCBI: GCA_000406105.1
[Ref.: #69480]	motile	yes	91.047	no
[Ref.: #69480]	flagellated	no	54.013	no
[Ref.: #69480]	gram-positive	no	98.408	no
[Ref.: #69480]	anaerobic	no	96.968	yes
[Ref.: #69480]	aerobic	yes	54.024	yes
[Ref.: #69480]	halophile	no	92.914	no
[Ref.: #69480]	spore-forming	no	93.532	no
[Ref.: #69480]	thermophile	no	99.428	yes
[Ref.: #69480]	glucose-util	yes	93.839	no
[Ref.: #69480]	glucose-ferment	yes	91.257	no

Availability in culture collections External links

[Ref.: #1800]

Culture collection no.

CCUG 38766, LMG 2804, DSM 4610, ATCC 11663, CIP 82.99, DAR 35625, NCPPB 402, PDDCC 5703

[Ref.: #73837]

SI-ID 13658

Literature:

	Title	Authors	Journal	DOI	Year
	Bacterial Stem Rot of Poinsettia Caused by a Dickeya sp. (Pectobacterium chrysanthemi) in China.	Rungnapha K, Yu SH, Xie GL	Plant Dis	10.1094/PDIS-92-7-1135B	2008	*

References

#1800

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 4610

#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 )

#54451 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 38766

#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) .

#68368

Automatically annotated from API 20E .

#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 .

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#73837

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-ID13658.1 )

* These data were automatically processed and therefore are not curated

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Dickeya chrysanthemi NCPPB 402 NCPPB 402

Dickeya chrysanthemi NCPPB 402 NCPPB 402

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