Cupriavidus basilensis (DSM 106286, 4G11)

Name: Cupriavidus basilensis (DSM 106286, 4G11)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 158018

Type strain

Strain Designation 4G11

Culture col. no. DSM 106286 4G11

NCBI tax ID(s) 68895

Special Collections DSMZ

Links

Cupriavidus basilensis 4G11 is a mesophilic prokaryote that was isolated from ground water.

mesophilic genome sequence

Name and taxonomic classification

SI-ID 405056

DSM 106286

@ref 20215

Last LPSN update 2025-12-16 10:07:55

Domain Pseudomonadati

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Burkholderiaceae

Genus Cupriavidus

Species Cupriavidus basilensis

Full scientific name Cupriavidus basilensis (Steinle et al. 1999) Vandamme and Coenye 2004

Synonyms (2)

Ralstonia basilensis
Wautersia basilensis

BacDive ID	Other strains from **Cupriavidus basilensis** (16)	Type strain
1997	C. basilensis RK1, DSM 11853, CCUG 49340, LMG 19474, LMG ... (type strain)
1995	C. basilensis PS12, DSM 8910
1996	C. basilensis NP-Alk, DSM 9750
2049	C. basilensis PSX, DSM 6708
143046	C. basilensis CCUG 16513
144436	C. basilensis CCUG 24956, LMG 9369
148077	C. basilensis CCUG 34781
154157	C. basilensis CCUG 52586
154218	C. basilensis CCUG 52787, LMG 19286
154219	C. basilensis CCUG 52788, LMG 19287
154220	C. basilensis CCUG 52789, LMG 19288
154221	C. basilensis CCUG 52797
154222	C. basilensis CCUG 52798
154260	C. basilensis CCUG 52908
154418	C. basilensis CCUG 53487
157330	C. basilensis IMI 505632

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	98.2
125438	negative	97.5

Multimedia

@ref:	64591
multimedia content:	DSM_106286.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_106286.jpg
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
64591	R2A MEDIUM (DSMZ Medium 830)		Medium recipe at MediaDive	Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
64591	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	aerobe	91.2

Spore formation

@ref	Spore formation	Confidence
125439		98.1

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	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
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
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

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	threonine metabolism	100	10 of 10
66794	ethanol fermentation	100	2 of 2
66794	4-hydroxymandelate degradation	100	9 of 9
66794	palmitate biosynthesis	100	22 of 22
66794	ppGpp biosynthesis	100	4 of 4
66794	methylglyoxal degradation	100	5 of 5
66794	butanoate fermentation	100	4 of 4
66794	resorcinol degradation	100	2 of 2
66794	valine metabolism	100	9 of 9
66794	ketogluconate metabolism	100	8 of 8
66794	lipoate biosynthesis	100	5 of 5
66794	degradation of aromatic, nitrogen containing compounds	100	12 of 12
66794	3-chlorocatechol degradation	100	5 of 5
66794	biotin biosynthesis	100	4 of 4
66794	cardiolipin biosynthesis	100	7 of 7
66794	Entner Doudoroff pathway	100	10 of 10
66794	aerobactin biosynthesis	100	1 of 1
66794	taurine degradation	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	denitrification	100	2 of 2
66794	teichoic acid biosynthesis	100	1 of 1
66794	sulfopterin metabolism	100	4 of 4
66794	coenzyme A metabolism	100	4 of 4
66794	formaldehyde oxidation	100	3 of 3
66794	cyanate degradation	100	3 of 3
66794	reductive acetyl coenzyme A pathway	100	7 of 7
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	ethylmalonyl-CoA pathway	100	5 of 5
66794	gallate degradation	100	5 of 5
66794	folate polyglutamylation	100	1 of 1
66794	ubiquinone biosynthesis	100	7 of 7
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	adipate degradation	100	2 of 2
66794	NAD metabolism	94.44	17 of 18
66794	citric acid cycle	92.86	13 of 14
66794	glutathione metabolism	92.86	13 of 14
66794	tetrahydrofolate metabolism	92.86	13 of 14
66794	leucine metabolism	92.31	12 of 13
66794	phenylalanine metabolism	92.31	12 of 13
66794	proline metabolism	90.91	10 of 11
66794	pentose phosphate pathway	90.91	10 of 11
66794	propionate fermentation	90	9 of 10
66794	4-hydroxyphenylacetate degradation	90	9 of 10
66794	phenol degradation	90	18 of 20
66794	chorismate metabolism	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	lipid A biosynthesis	88.89	8 of 9
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	isoleucine metabolism	87.5	7 of 8
66794	gluconeogenesis	87.5	7 of 8
66794	3-phenylpropionate degradation	86.67	13 of 15
66794	histidine metabolism	86.21	25 of 29
66794	alanine metabolism	86.21	25 of 29
66794	heme metabolism	85.71	12 of 14
66794	glutamate and glutamine metabolism	85.71	24 of 28
66794	propanol degradation	85.71	6 of 7
66794	photosynthesis	85.71	12 of 14
66794	sulfate reduction	84.62	11 of 13
66794	vitamin B1 metabolism	84.62	11 of 13
66794	tryptophan metabolism	84.21	32 of 38
66794	purine metabolism	84.04	79 of 94
66794	degradation of sugar acids	84	21 of 25
66794	flavin biosynthesis	80	12 of 15
66794	peptidoglycan biosynthesis	80	12 of 15
66794	glycogen metabolism	80	4 of 5
66794	lysine metabolism	78.57	33 of 42
66794	tyrosine metabolism	78.57	11 of 14
66794	d-mannose degradation	77.78	7 of 9
66794	allantoin degradation	77.78	7 of 9
66794	methionine metabolism	76.92	20 of 26
66794	androgen and estrogen metabolism	75	12 of 16
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	CMP-KDO biosynthesis	75	3 of 4
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	acetate fermentation	75	3 of 4
66794	cyclohexanol degradation	75	3 of 4
66794	cysteine metabolism	72.22	13 of 18
66794	oxidative phosphorylation	71.43	65 of 91
66794	pyrimidine metabolism	71.11	32 of 45
66794	non-pathway related	71.05	27 of 38
66794	arginine metabolism	70.83	17 of 24
66794	urea cycle	69.23	9 of 13
66794	degradation of sugar alcohols	68.75	11 of 16
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	sulfoquinovose degradation	66.67	2 of 3
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	enterobactin biosynthesis	66.67	2 of 3
66794	daunorubicin biosynthesis	66.67	6 of 9
66794	IAA biosynthesis	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	isoprenoid biosynthesis	65.38	17 of 26
66794	glycolysis	64.71	11 of 17
66794	lipid metabolism	64.52	20 of 31
66794	vitamin B6 metabolism	63.64	7 of 11
66794	degradation of pentoses	60.71	17 of 28
66794	cellulose degradation	60	3 of 5
66794	hydrogen production	60	3 of 5
66794	creatinine degradation	60	3 of 5
66794	vitamin K metabolism	60	3 of 5
66794	nitrate assimilation	55.56	5 of 9
66794	glycine metabolism	50	5 of 10
66794	arachidonic acid metabolism	50	9 of 18
66794	phenylmercury acetate degradation	50	1 of 2
66794	toluene degradation	50	2 of 4
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	selenocysteine biosynthesis	50	3 of 6
66794	lactate fermentation	50	2 of 4
66794	ribulose monophosphate pathway	50	1 of 2
66794	carnitine metabolism	50	4 of 8
66794	vitamin B12 metabolism	50	17 of 34
66794	pantothenate biosynthesis	50	3 of 6
66794	catecholamine biosynthesis	50	2 of 4
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	glycogen biosynthesis	50	2 of 4
66794	coenzyme M biosynthesis	50	5 of 10
66794	quinate degradation	50	1 of 2
66794	myo-inositol biosynthesis	50	5 of 10
66794	bile acid biosynthesis, neutral pathway	47.06	8 of 17
66794	phosphatidylethanolamine bioynthesis	46.15	6 of 13
66794	cholesterol biosynthesis	45.45	5 of 11
66794	metabolism of disaccharids	45.45	5 of 11
66794	d-xylose degradation	45.45	5 of 11
66794	polyamine pathway	43.48	10 of 23
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	O-antigen biosynthesis	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	factor 420 biosynthesis	40	2 of 5
66794	degradation of hexoses	38.89	7 of 18
66794	phenylpropanoid biosynthesis	38.46	5 of 13
66794	ascorbate metabolism	36.36	8 of 22
66794	sphingosine metabolism	33.33	2 of 6
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	carotenoid biosynthesis	31.82	7 of 22
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	chlorophyll metabolism	27.78	5 of 18
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	vitamin E metabolism	25	1 of 4

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
64591	+	-	-	-	+	-	-	-	-	-	-	-	-	-	+	+	+	+	+	+	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Groundwater

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
64591	ground water	Oak ridge, Tennessee (35° 58' 43.8'' N, 84° 16' 21.1'' W)	USA	USA	North America

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
64591	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM83230v1 assembly for Cupriavidus basilensis 4G11	complete	GCA_000832305	68895.5	2721755587	68895	96.4

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Cupriavidus basilensis 4G11
NCBI: GCA_000832305

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.10	no
125439	motility	BacteriaNetⓘ	yes	78.90	no
125439	gram_stain	BacteriaNetⓘ	negative	98.20	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	91.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Cupriavidus basilensis 4G11
NCBI: GCA_000832305.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.50	no
125438	anaerobic	anaerobicⓘ	no	97.54	no
125438	aerobic	aerobicⓘ	yes	86.70	no
125438	spore-forming	spore-formingⓘ	no	88.10	no
125438	thermophilic	thermophileⓘ	no	99.00	yes
125438	flagellated	motile2+ⓘ	yes	84.30	no

Literature

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 )
#64591	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 106286
#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) .
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#68369	Automatically annotated from API 20NE .
#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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