Cupriavidus basilensis (DSM 11853, CCUG 49340, LMG 19474)

Name: Cupriavidus basilensis (DSM 11853, CCUG 49340, LMG 19474)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 1997

Type strain

Strain Designation RK1

Culture col. no. DSM 11853 CCUG 49340 LMG 19474 LMG 18990 ATCC BAA-699 2 more

NCBI tax ID(s) 68895

Special Collections DSMZ CCUG CIP

Links

Cupriavidus basilensis RK1 is an aerobe, mesophilic, Gram-negative prokaryote that was isolated from laboratory fixed-bed reactor.

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

Name and taxonomic classification

SI-ID 12956

LMG 18990,DSM 11853,LMG 19474,CIP 106792,ATCC BAA-699,CCUG 49340

@ref 20215

Last LPSN update 2025-12-16 09:47:14

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
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
158018	C. basilensis 4G11, DSM 106286

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
116737	negative	rod-shaped
125439	negative		94.6
125438	negative		97.5

Multimedia

@ref:	4512
multimedia content:	DSM_11853.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_11853.jpg
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

@ref:	4512
multimedia content:	DSM_11853-1.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_11853-1.jpg
caption:	Iridescence (metallic) of DSM 11853 on medium 1 at 28 °C
intellectual property rights:	Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
4512	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
4512	MINERAL MEDIUM (NAGEL AND ANDREESEN) (DSMZ Medium 461)	Medium recipe at MediaDive	Name: MINERAL MEDIUM (NAGEL AND ANDREESEN) (DSMZ Medium 461) Composition: Na2HPO4 x 2 H2O 1.44135 g/l MgSO4 x 7 H2O 0.497018 g/l NH4Cl 0.298211 g/l KH2PO4 0.248509 g/l NaCl 0.0497018 g/l MnSO4 0.00994036 g/l CaCl2 0.00994036 g/l HCl 0.00248509 g/l FeCl2 x 4 H2O 0.00149105 g/l Thiamine-HCl x 2 H2O 0.000248509 g/l p-Aminobenzoic acid 0.000248509 g/l Vitamin B12 0.000248509 g/l Pantothenic acid 0.000248509 g/l Riboflavin 0.000248509 g/l alpha-lipoic acid 0.000248509 g/l CoCl2 x 6 H2O 0.000188867 g/l Nicotine amide 0.000124254 g/l Nicotinic acid 0.000124254 g/l Folic acid 9.94036e-05 g/l Biotin 9.94036e-05 g/l MnCl2 x 4 H2O 9.94036e-05 g/l ZnCl2 6.95825e-05 g/l Pyridoxamine hydrochloride 4.97018e-05 g/l Na2MoO4 x 2 H2O 3.57853e-05 g/l NiCl2 x 6 H2O 2.38569e-05 g/l H3BO3 5.96421e-06 g/l CuCl2 x 2 H2O 1.98807e-06 g/l Distilled water
40599	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
116737	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
4512	positive	growth	30	mesophilic
40599	positive	growth	25	mesophilic
58517	positive	growth	28	mesophilic
116737	positive	growth	5-37
116737	negative	growth	41

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
58517	aerobe
116737	obligate aerobe
125439	aerobe	94

Spore formation

@ref	Spore formation	Confidence
125439		95.9

Halophily

@ref	Salt	Growth	Tested relation	Concentration
116737	NaCl	positive	growth	0-6 %
116737	NaCl		growth	8 %
116737	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
116737	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
116737	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
116737	17632 ChEBI	nitrate	-	reduction
116737	17632 ChEBI	nitrate	-	respiration
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
116737	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 antibiotic	Is sensitive	Is resistant
116737	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68369	35581 ChEBI	indole		from API 20NE
116737	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
116737	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
116737	amylase	-
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68382	beta-galactosidase	-	3.2.1.23	from API zym
116737	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
116737	caseinase	-	3.4.21.50
116737	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
116737	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
116737	gelatinase	-
68369	gelatinase	-		from API 20NE
116737	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
116737	lipase	-
68382	lipase (C 14)	-		from API zym
116737	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
116737	ornithine decarboxylase	-	4.1.1.17
116737	oxidase	+
116737	protease	-
68382	trypsin	-	3.4.21.4	from API zym
116737	tryptophan deaminase	-
116737	tween esterase	+
116737	urease	+	3.5.1.5
68369	urease	-	3.5.1.5	from API 20NE
68382	valine arylamidase	-		from API zym

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

Fatty acid profile

Metadata FA analysis

@ref

58517

Fatty acid	Percentage	ECL
C16:1 ω7c	30.9	15.819
C16:0	26.3	16
C18:1 ω7c /12t/9t	18.3	17.824
C14:0 3OH/C16:1 ISO I	6.5	15.485
C17:0 CYCLO	5	16.888
C14:0	4.4	14
C18:1 2OH	2.5	19.088
C16:1 2OH	2.3	17.047
C16:0 2OH	0.8	17.233
C14:0 2OH	0.8	15.205
C18:0	0.5	18
Unidentified	0.5	18.132
C17:0	0.4	17
C15:0	0.4	15
C19:0 CYCLO ω8c	0.4	18.9

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
116737	-	+	+	+	-	+	-	-	-	-	+	+	-	-	-	-	-	-	-	-

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
4512	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	+	+	+	+	+

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
116737	not determinedn.d.	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	+	+	-	+	+	-	+	+	+	-	+	-	+	+	-	-	-	+	+	+	+	+	+	+	+	-	+	-	-	-	+	-	+	+	+	-	+	+	+	+	-	-	-	-	+	+	+	+	+	-	+	-	+	-	+	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2
#Engineered	#Bioreactor
#Engineered	#Laboratory

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
4512	laboratory fixed-bed reactor	Schweizerhalle	Switzerland	CHE	Europe
58517	Sediment of a freshwater pond enriched in ...	Amponville	France	FRA	Europe
116737	Environment, Sediment of a fresh water pond	Amponville	France	FRA	Europe	1996

Taxonmaps

69479

Global distribution of 16S sequence AF312022 (>99% sequence identity) for Cupriavidus from Microbeatlas

Aquatic Samples	1798
Soil Samples	2258
Animal Samples	1650
Plant Samples	374
Total Samples	6080

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
4512	1	Risk group (German classification) According to TRBA 466
116737	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	ASM880192v2 assembly for Cupriavidus basilensis DSM 11853	complete	GCA_008801925	68895.35	8115621944	68895	93.37
66792	Cupriavidus basilensis strain CCUG 49340	contig		68895.15		68895	47.03

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Ralstonia basilensis strain DSM 11853 16S ribosomal RNA gene, partial sequence	AF312022	1484	68895
4512	Ralstonia basilensis 16S rRNA gene	AJ002302	1457	68895
124043	Wautersia basilensis 16S rRNA gene, 23S rRNA gene and ITS1, specimen voucher LMG18990	AJ783973	949	68895
124043	Wautersia basilensis 16S rRNA gene, 23S rRNA gene and ITS1, specimen voucher LMG18990	AJ783974	745	68895
124043	Cupriavidus basilensis partial 16S rRNA gene, type strain CCUG 49340T	FN597608	1387	68895
124043	Cupriavidus basilensis strain CIP 106792 16S ribosomal RNA gene, partial sequence.	EU024159	1315	68895

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Cupriavidus basilensis DSM 11853
NCBI: GCA_008801925

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	95.90	no
125439	motility	BacteriaNetⓘ	yes	76.70	no
125439	gram_stain	BacteriaNetⓘ	negative	94.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	94.00	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Cupriavidus basilensis DSM 11853
NCBI: GCA_008801925.2

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.50	no
125438	anaerobic	anaerobicⓘ	no	97.34	yes
125438	aerobic	aerobicⓘ	yes	89.86	no
125438	spore-forming	spore-formingⓘ	no	88.11	no
125438	thermophilic	thermophileⓘ	no	98.50	yes
125438	flagellated	motile2+ⓘ	yes	82.67	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Isolation and characterization of a bacteria of Cupriavidus genus from Indian Himalayan region and its evaluation for production of Poly-3-hydroxybutyrate	Sinha S, Khonde V, Mirza Y, Nandi S, Dhotre D, Ghosalkar A.	Arch Microbiol.		2025
Genetics	Isolation and characterization of a bacteria of Cupriavidus genus from Indian Himalayan region and its evaluation for production of Poly-3-hydroxybutyrate.	Sinha S, Khonde V, Mirza Y, Nandi S, Dhotre D, Ghosalkar A.	Arch Microbiol	10.1007/s00203-025-04425-w	2025
	Draft Genome Sequence of Cupriavidus basilensis SRS, a Bacterium Isolated from Stream Sediments.	Fu H, Kugler A, Huyck P, Brigmon RL, Ottesen EA.	Microbiol Resour Announc	10.1128/mra.00691-22	2022
	Dual Screen for Metal-Tolerant Metallophore Producers Evaluated with Soil from the Carpenter Snow Creek Site, a Heavy-Metal-Toxified Site in Montana.	Ahmed MMA, Hammers C, Boudreau PD.	ACS Omega	10.1021/acsomega.4c07306	2024
	Draft Genome Sequence of the Bacterium Cupriavidus sp. Strain D39, Inhabiting the Rhizosphere of Pea Plants (Pisum sativum L.).	Guro P, Ulianich P, Shaposhnikov A, Yuzikhin O, Karlov D, Sazanova A, Safronova V, Belimov A.	Microbiol Resour Announc	10.1128/mra.01354-22	2023
	Bioremediation of copper in sediments from a constructed wetland ex situ with the novel bacterium Cupriavidus basilensis SRS.	Kugler A, Brigmon RL, Friedman A, Coutelot FM, Polson SW, Seaman JC, Simpson W.	Sci Rep	10.1038/s41598-022-20930-0	2022
Enzymology	Carbon monoxide-oxidising Pseudomonadota on volcanic deposits.	Dawson RA, Fantom N, Martin-Pozas T, Aguila P, King GM, Hernandez M.	Environ Microbiome	10.1186/s40793-025-00672-y	2025
	Widespread distribution of hmf genes in Proteobacteria reveals key enzymes for 5-hydroxymethylfurfural conversion.	Donoso RA, Gonzalez-Toro F, Perez-Pantoja D.	Comput Struct Biotechnol J	10.1016/j.csbj.2021.04.017	2021
	Complete Genome Sequence of Cupriavidus basilensis 4G11, Isolated from the Oak Ridge Field Research Center Site.	Ray J, Waters RJ, Skerker JM, Kuehl JV, Price MN, Huang J, Chakraborty R, Arkin AP, Deutschbauer A.	Genome Announc	10.1128/genomea.00322-15	2015
	Bioprospection of the bacterial beta-myrcene-biotransforming trait in the rhizosphere.	Soares-Castro P, Soares F, Reis F, Lino-Neto T, Santos PM.	Appl Microbiol Biotechnol	10.1007/s00253-023-12650-w	2023
Pathogenicity	Mycotoxin Biodegradation Ability of the Cupriavidus Genus.	Al-Nussairawi M, Risa A, Garai E, Varga E, Szabo I, Csenki-Bakos Z, Kriszt B, Cserhati M.	Curr Microbiol	10.1007/s00284-020-02063-7	2020
Metabolism	Secondary compound hypothesis revisited: Selected plant secondary metabolites promote bacterial degradation of cis-1,2-dichloroethylene (cDCE).	Fraraccio S, Strejcek M, Dolinova I, Macek T, Uhlik O.	Sci Rep	10.1038/s41598-017-07760-1	2017
Genetics	Complete Multipartite Genome Sequence of the Cupriavidus basilensis Type Strain, a 2,6-Dichlorophenol-Degrading Bacterium.	Salva-Serra F, Donoso RA, Cho KH, Yoo JA, Lee K, Yoon SH, Pineiro-Iglesias B, Moore ERB, Perez-Pantoja D	Microbiol Resour Announc	10.1128/MRA.00134-21	2021
Phylogeny	Taxonomy of the genus Cupriavidus: a tale of lost and found.	Vandamme P, Coenye T	Int J Syst Evol Microbiol	10.1099/ijs.0.63247-0	2004
Phylogeny	Cupriavidus lacunae sp. nov., isolated from pond-side soil.	Feng T, Kim KH, Oh J, Jeon CO	Antonie Van Leeuwenhoek	10.1007/s10482-018-1187-5	2018
Phylogeny	Cupriavidus yeoncheonense sp. nov., isolated from soil of ginseng.	Singh P, Kim YJ, Nguyen NL, Hoang VA, Sukweenadhi J, Farh Mel-A, Yang DC	Antonie Van Leeuwenhoek	10.1007/s10482-014-0369-z	2015
Phylogeny	Chlorinated aliphatic hydrocarbon-induced degradation of trichloroethylene in Wautersia numadzuensis sp. nov.	Kageyama C, Ohta T, Hiraoka K, Suzuki M, Okamoto T, Ohishi K	Arch Microbiol	10.1007/s00203-004-0746-5	2004

References

#4512	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 11853
#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 )
#40599	; Curators of the CIP;
#58517	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 49340
#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 .
#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 .
#116737	Collection of Institut Pasteur ; Curators of the CIP; CIP 106792
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Cupriavidus basilensis (DSM 11853, CCUG 49340, LMG 19474)

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