Cupriavidus pampae (DSM 26888, CCM-A-29:1289, CCUG 55948)

Name: Cupriavidus pampae (DSM 26888, CCM-A-29:1289, CCUG 55948)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 22944

Type strain

Strain Designation CCM-A-29:1289, CPDB6

Culture col. no. DSM 26888 CCM-A-29:1289 CCUG 55948 CPDB6 CIP 110847 1 more

NCBI tax ID(s) 659251

Special Collections DSMZ CCUG Literature strains CIP

History <- CCUG <- V. Cuadrado, Cátedra de Microbiología Industrial y Biotecnología, Facultad de Farmacia y Bioquímica, Universidad de Buenos Aires CIP <- 2014, CCUG <- 2008 V. Cuadrado, Buenos Aires Univ., Buenos Aires, Argentina: strain CPDB6

Links

Cupriavidus pampae CCM-A-29:1289 is an aerobe, mesophilic, Gram-negative prokaryote that was isolated from agricultural soil subject to a long-period application of chlorinated phenoxy herbicides.

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

Name and taxonomic classification

SI-ID 353992

LMG 32289,CCUG 55948,DSM 26888

@ref 20215

Last LPSN update 2025-12-16 09:52:32

Domain Pseudomonadati

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Burkholderiaceae

Genus Cupriavidus

Species Cupriavidus pampae

Full scientific name Cupriavidus pampae Cuadrado et al. 2010

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility
29668	negative	rod-shaped
121523	negative	rod-shaped

Colony morphology

60802

Incubation period<1 day

Pigmentation

29668

Productionyes

Multimedia

@ref:	19108
multimedia content:	DSM_26888.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_26888.jpg
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
19108	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
19108	MINERAL MEDIUM WITH VITAMINS (DSMZ Medium 462)	Medium recipe at MediaDive	Name: MINERAL MEDIUM WITH VITAMINS (DSMZ Medium 462) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Casein peptone 15.0 g/l Peptone 5.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Meat extract 3.0 g/l Na2HPO4 2.44 g/l KH2PO4 1.52 g/l (NH4)2SO4 0.5 g/l MgSO4 x 7 H2O 0.2 g/l CaCl2 x 2 H2O 0.05 g/l EDTA 0.005 g/l FeSO4 x 7 H2O 0.002 g/l H3BO3 0.0003 g/l CoCl2 x 6 H2O 0.0002 g/l Pyridoxamine 0.000125 g/l ZnSO4 x 7 H2O 0.0001 g/l Nicotinic acid 5e-05 g/l Vitamin B12 5e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l MnCl2 x 4 H2O 3e-05 g/l p-Aminobenzoate 2.5e-05 g/l Thiamine-HCl x 2 H2O 2.5e-05 g/l NiCl2 x 6 H2O 2e-05 g/l Calcium pantothenate 1.25e-05 g/l CuCl2 x 2 H2O 1e-05 g/l Biotin 5e-06 g/l Distilled water
41611	MEDIUM 45 - for Columbia agar with sheep blood		Distilled water make up to (1000.000 ml);Columbia agar (39.000 g);Sheepblood (100.000 ml)
121523	CIP Medium 45	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
19108	positive	growth	28	mesophilic
29668	positive	growth	10-30
29668	positive	optimum	30	mesophilic
41611	positive	growth	30	mesophilic
60802	positive	growth	30	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
29668	aerobe
60802	aerobe

Spore formation

29668

Spore formationno

Observation

29668

Observationaggregates in chains

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
29668	17128 ChEBI	adipate	+	carbon source
68369	17128 ChEBI	adipate	+	assimilation	from API 20NE
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
29668	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
29668	27689 ChEBI	decanoate	+	carbon source
68369	27689 ChEBI	decanoate	+	assimilation	from API 20NE
68369	4853 ChEBI	esculin	-	hydrolysis	from API 20NE
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
29668	24265 ChEBI	gluconate	+	carbon source
68369	24265 ChEBI	gluconate	+	assimilation	from API 20NE
29668	17234 ChEBI	glucose	+	carbon source
68369	30849 ChEBI	L-arabinose	-	assimilation	from API 20NE
29668	24996 ChEBI	lactate	+	carbon source
29668	25115 ChEBI	malate	+	carbon source
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	beta-glucosidase	-	3.2.1.21	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
19108	-	-	-	-	+	-	-	-	-	-	-	-	-	-	+	+	+	+	-	-	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Agriculture	-
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
19108	agricultural soil subject to a long-period application of chlorinated phenoxy herbicides	Humid Pampa	Argentina	ARG	Middle and South America
60802	Soil,CPDB,history of phenoxy herbicides use		Argentina	ARG	Middle and South America
121523	Environment, Soil	Humid Pampa	Argentina	ARG	Middle and South America

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
19108	1	Risk group (German classification) According to TRBA 466
121523	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	NCBI tax ID	Score
124043	ASM4265381v1 assembly for Cupriavidus pampae CCUG 55948	scaffold	GCA_042653815	659251	55.83

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
19108	Cupriavidus pampae partial 16S rRNA gene, strain CPDB6	FN430567	1504		659251

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Cupriavidus pampae sp. nov., a novel herbicide-degrading bacterium isolated from agricultural soil.	Cuadrado V, Gomila M, Merini L, Giulietti AM, Moore ERB	Int J Syst Evol Microbiol	10.1099/ijs.0.018341-0	2009

References

#19108	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 26888
#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 )
#26055	IJSEM 2606 2010 ( DOI 10.1099/ijs.0.018341-0 , PubMed 20023053 )
#29668	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #26055
#41611	; Curators of the CIP;
#60802	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 55948
#68369	Automatically annotated from API 20NE .
#121523	Collection of Institut Pasteur ; Curators of the CIP; CIP 110847
#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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Cupriavidus pampae (DSM 26888, CCM-A-29:1289, CCUG 55948)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Pigmentation

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API 20NE

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_042653815

16S sequences

Genome-based predictions

Literature

Literature

References

BacDive

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