Dickeya aquatica (DSM 105346, NCPPB 4580)

Name: Dickeya aquatica (DSM 105346, NCPPB 4580)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 132926

Type strain

Culture col. no. DSM 105346 NCPPB 4580

NCBI tax ID(s) 1401087

Special Collections DSMZ

History <- NCPPB <- CSL <- J. Bew

Links

Dickeya aquatica DSM 105346 is a bacterium that was isolated from river water.

16S sequence Bacteria

Name and taxonomic classification

SI-ID 382583

LMG 27354,NCPPB 4580,DSM 105346,CFBP 8348

@ref 20215

Last LPSN update 2026-02-09 11:31:50

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Enterobacterales

Family Pectobacteriaceae

Genus Dickeya

Species Dickeya aquatica

Full scientific name Dickeya aquatica Parkinson et al. 2014

Morphology

Multimedia

@ref:	24714
multimedia content:	DSM_105346.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_105346.jpg
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
24714	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

Culture temp

@ref	Growth	Type	Temperature (°C)
24714	positive	growth	28

Physiology and metabolism

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68368	27613 ChEBI	amygdalin	+	fermentation	from API 20E
68368	29016 ChEBI	arginine	-	hydrolysis	from API 20E
68368	16947 ChEBI	citrate	+	assimilation	from API 20E
68368	17634 ChEBI	D-glucose	+	fermentation	from API 20E
68368	16899 ChEBI	D-mannitol	-	fermentation	from API 20E
68368	5291 ChEBI	gelatin	+	hydrolysis	from API 20E
68368	30849 ChEBI	L-arabinose	+	fermentation	from API 20E
68368	62345 ChEBI	L-rhamnose	+	fermentation	from API 20E
68368	25094 ChEBI	lysine	-	degradation	from API 20E
68368	28053 ChEBI	melibiose	+	fermentation	from API 20E
68368	17268 ChEBI	myo-inositol	-	fermentation	from API 20E
68368	18257 ChEBI	ornithine	-	degradation	from API 20E
68368	30911 ChEBI	sorbitol	-	fermentation	from API 20E
68368	17992 ChEBI	sucrose	+	fermentation	from API 20E
68368	27897 ChEBI	tryptophan	+	energy source	from API 20E
68368	16199 ChEBI	urea	-	hydrolysis	from API 20E

Metabolite production

@ref	Chebi-ID	Metabolite
68368	15688 ChEBI	acetoin	from API 20E
68368	16136 ChEBI	hydrogen sulfide	from API 20E
68368	35581 ChEBI	indole	from API 20E

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Indole test
68368	15688 ChEBI	acetoin	+		from API 20E
68368	35581 ChEBI	indole		+	from API 20E

Enzymes

@ref	Value	Activity	Ec
68368	arginine dihydrolase	-	3.5.3.6	from API 20E
68368	beta-galactosidase	+	3.2.1.23	from API 20E
68368	cytochrome oxidase	-	1.9.3.1	from API 20E
68368	gelatinase	+		from API 20E
68368	lysine decarboxylase	-	4.1.1.18	from API 20E
68368	ornithine decarboxylase	-	4.1.1.17	from API 20E
68368	tryptophan deaminase	-	4.1.99.1	from API 20E
68368	urease	-	3.5.1.5	from API 20E

API 20E

@ref	ONPG	ADH (Arg)	LDC (Lys)	ODC	CIT	H2S productionH2S	URE	TDA (Trp)	IND	Acetoin production (Voges Proskauer test)VP	GEL	GLU	MAN	INO	Sor	RHA	SAC	MEL	AMY	ARA	OX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	OF-O	OF-F
24714	+	-	-	-	+	-	-	-	+	+	+	+	-	-	-	+	+	+	+	+	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#River (Creek)

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
24714	river water	United Kingdom	GBR	Europe

Taxonmaps

69479

Global distribution of 16S sequence JX273704 (>99% sequence identity) for Dickeya from Microbeatlas

Aquatic Samples	2
Soil Samples
Animal Samples	10
Plant Samples	1
Total Samples	13

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
24714	1	Risk group (German classification)

Sequence information

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
24714	Dickeya aquatica strain 174/2 16S ribosomal RNA gene, partial sequence	JX273704	1409		1401087
124043	Dickeya aquatica strain NCPPB 4580 16S ribosomal RNA gene, partial sequence.	KY231144	1403		1401087

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Species of Dickeya and Pectobacterium Isolated during an Outbreak of Blackleg and Soft Rot of Potato in Northeastern and North Central United States.	Curland RD, Mainello A, Perry KL, Hao J, Charkowski AO, Bull CT, McNally RR, Johnson SB, Rosenzweig N, Secor GA, Larkin RP, Gugino BK, Ishimaru CA.	Microorganisms	10.3390/microorganisms9081733	2021
Phylogeny	Dickeya aquatica sp. nov., isolated from waterways.	Parkinson N, DeVos P, Pirhonen M, Elphinstone J	Int J Syst Evol Microbiol	10.1099/ijs.0.058693-0	2014

References

#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 )
#24714	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 105346
#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 .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Dickeya aquatica (DSM 105346, NCPPB 4580)

Name and taxonomic classification

Morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API 20E

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

16S sequences

Genome-based predictions

Literature

Literature

References

BacDive

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