Name: Cupriavidus nantongensis X1
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 140833

Type strain:

Species: Cupriavidus nantongensis

Strain Designation: X1

Culture col. no.: KCTC 42909, LMG 29218

NCBI tax ID(s): 1796606 (species)

Section

Cupriavidus nantongensis X1 is an aerobe, Gram-negative, motile bacterium that forms circular colonies and was isolated from sludge collected from the vicinity of a pesticide manufacturer.

coccus-shaped
colony-forming
Gram-negative
motile
aerobe
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	*Betaproteobacteria*
	Order	*Burkholderiales*
	Family	*Burkholderiaceae*
	Genus	*Cupriavidus*
	Species	**Cupriavidus nantongensis**
	Full Scientific Name (LPSN)	Cupriavidus nantongensis Sun et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #43635]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %98.287

[Ref.: #43635]	Cell length	1.3-2.4 µm

[Ref.: #43635]	Cell width	1.3-1.5 µm

[Ref.: #43635]	Cell shape	coccus-shaped

[Ref.: #43635]	Motility	yes

[Ref.: #43635]	Flagellum arrangement	gliding

[Ref.: #43635]	Colony size	0.5-1 mm
[Ref.: #43635]	Colony color	Pale
[Ref.: #43635]	Colony shape	circular
[Ref.: #43635]	Incubation period	2 days
[Ref.: #43635]	Cultivation medium used	Luria Bertani agar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #43635]

Culture medium

LB (Luria-Bertani) MEDIUM

[Ref.: #43635]

Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #43635]			growth	20-42 °C
[Ref.: #43635]			optimum	30-37 °C

	pH	Kind of pH		pH
[Ref.: #43635]			optimum	7
[Ref.: #43635]			growth	6-9

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43635]

Oxygen tolerance

aerobe

[Ref.: #69480]	Ability of spore formation	no Confidence in %93.928
[Ref.: #69481]	Ability of spore formation	no Confidence in %99

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43635]		NaCl		growth	0-2	%(w/v)

[Ref.: #43635]	Name of tolerated compound	Cobalt
[Ref.: #43635]	Tolerated concentration	0.05
[Ref.: #43635]	Name of tolerated compound	Cobalt
[Ref.: #43635]	Tolerated concentration	0.1
[Ref.: #43635]	Name of tolerated compound	Zinc
[Ref.: #43635]	Tolerated concentration	0.5

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43635]	adipate ChEBI	+/-	assimilation
[Ref.: #43635]	amygdalin ChEBI	-	builds acid from
[Ref.: #43635]	arbutin ChEBI	-	builds acid from
[Ref.: #43635]	cellobiose ChEBI	-	builds acid from
[Ref.: #43635]	citrate ChEBI	+/-	assimilation
[Ref.: #43635]	D-arabinose ChEBI	-	builds acid from
[Ref.: #43635]	D-arabitol ChEBI	-	builds acid from
[Ref.: #43635]	D-fructose ChEBI	-	builds acid from
[Ref.: #43635]	D-fucose ChEBI	-	builds acid from
[Ref.: #43635]	D-galactose ChEBI	-	builds acid from
[Ref.: #43635]	D-glucose ChEBI	-	assimilation
[Ref.: #43635]	D-glucose ChEBI	-	builds acid from
[Ref.: #43635]	D-lyxose ChEBI	-	builds acid from
[Ref.: #43635]	D-mannitol ChEBI	-	assimilation
[Ref.: #43635]	D-mannitol ChEBI	-	builds acid from
[Ref.: #43635]	D-mannose ChEBI	-	assimilation
[Ref.: #43635]	D-mannose ChEBI	-	builds acid from
[Ref.: #43635]	D-ribose ChEBI	-	builds acid from
[Ref.: #43635]	D-sorbitol ChEBI	-	builds acid from
[Ref.: #43635]	D-tagatose ChEBI	-	builds acid from
[Ref.: #43635]	D-trehalose ChEBI	-	builds acid from
[Ref.: #43635]	D-xylose ChEBI	-	builds acid from
[Ref.: #43635]	decanoate ChEBI	+	assimilation
[Ref.: #43635]	erythritol ChEBI	-	builds acid from
[Ref.: #43635]	esculin ChEBI	-	hydrolysis
[Ref.: #43635]	esculin ferric citrate	-	builds acid from
[Ref.: #43635]	galactitol ChEBI	-	builds acid from
[Ref.: #43635]	gelatin ChEBI	-	hydrolysis
[Ref.: #43635]	gentiobiose ChEBI	-	builds acid from
[Ref.: #43635]	glucose ChEBI	-	fermentation
[Ref.: #43635]	glycerol ChEBI	+	builds acid from
[Ref.: #43635]	glycogen ChEBI	-	builds acid from
[Ref.: #43635]	inulin ChEBI	-	builds acid from
[Ref.: #43635]	L-arabinose ChEBI	-	assimilation
[Ref.: #43635]	L-arabinose ChEBI	-	builds acid from
[Ref.: #43635]	L-arabitol ChEBI	-	builds acid from
[Ref.: #43635]	L-fucose ChEBI	-	builds acid from
[Ref.: #43635]	L-rhamnose ChEBI	-	builds acid from
[Ref.: #43635]	L-sorbose ChEBI	-	builds acid from
[Ref.: #43635]	lactose ChEBI	-	builds acid from
[Ref.: #43635]	malate ChEBI	+	assimilation
[Ref.: #43635]	maltose ChEBI	-	assimilation
[Ref.: #43635]	maltose ChEBI	-	builds acid from
[Ref.: #43635]	melezitose ChEBI	-	builds acid from
[Ref.: #43635]	melibiose ChEBI	-	builds acid from
[Ref.: #43635]	methyl alpha-D-glucopyranoside ChEBI	-	builds acid from
[Ref.: #43635]	methyl alpha-D-mannoside ChEBI	-	builds acid from
[Ref.: #43635]	methyl beta-D-xylopyranoside ChEBI	-	builds acid from
[Ref.: #43635]	myo-inositol ChEBI	-	builds acid from
[Ref.: #43635]	N-acetylglucosamine ChEBI	-	assimilation
[Ref.: #43635]	N-acetylglucosamine ChEBI	-	builds acid from
[Ref.: #43635]	nitrate ChEBI	+	reduction
[Ref.: #43635]	nitrite ChEBI	-	reduction
[Ref.: #43635]	phenylacetate ChEBI	-	assimilation
[Ref.: #43635]	potassium 2-dehydro-D-gluconate	-	builds acid from
[Ref.: #43635]	potassium 5-dehydro-D-gluconate	-	builds acid from
[Ref.: #43635]	potassium gluconate ChEBI	-	builds acid from
[Ref.: #43635]	potassium gluconate ChEBI	+	assimilation
[Ref.: #43635]	raffinose ChEBI	-	builds acid from
[Ref.: #43635]	ribitol ChEBI	-	builds acid from
[Ref.: #43635]	salicin ChEBI	-	builds acid from
[Ref.: #43635]	starch ChEBI	-	builds acid from
[Ref.: #43635]	starch ChEBI	-	hydrolysis
[Ref.: #43635]	sucrose ChEBI	-	builds acid from
[Ref.: #43635]	turanose ChEBI	-	builds acid from
[Ref.: #43635]	tween 20 ChEBI	+	hydrolysis
[Ref.: #43635]	tween 80 ChEBI	+	hydrolysis
[Ref.: #43635]	xylitol ChEBI	-	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Concentration		Antibiotic resistance	Concentration
[Ref.: #43635]	amoxicillin ChEBI				yes	20	µg (disc)
[Ref.: #43635]	cephalexin ChEBI	yes	30	µg (disc)
[Ref.: #43635]	penicillin g ChEBI				yes	10	µg (disc)
[Ref.: #43635]	streptomycin ChEBI				yes	10	µg (disc)

	Metabolite	Production
[Ref.: #43635]	acetoin ChEBI	no
[Ref.: #43635]	hydrogen sulfide ChEBI	no
[Ref.: #43635]	indole ChEBI	yes

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #43635]		acetoin ChEBI	-
[Ref.: #43635]		glucose ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #43635]	acid phosphatase	+	3.1.3.2
[Ref.: #43635]	alkaline phosphatase	+	3.1.3.1
[Ref.: #43635]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #43635]	alpha-fucosidase	-	3.2.1.51
[Ref.: #43635]	alpha-galactosidase	-	3.2.1.22
[Ref.: #43635]	alpha-mannosidase	-	3.2.1.24
[Ref.: #43635]	arginine dihydrolase	-	3.5.3.6
[Ref.: #43635]	beta-galactosidase	-	3.2.1.23
[Ref.: #43635]	beta-glucosidase	-	3.2.1.21
[Ref.: #43635]	beta-glucuronidase	-	3.2.1.31
[Ref.: #43635]	catalase	+	1.11.1.6
[Ref.: #43635]	cystine arylamidase	+/-	3.4.11.3
[Ref.: #43635]	cytochrome oxidase	+	1.9.3.1
[Ref.: #43635]	esterase (C 4)	+
[Ref.: #43635]	leucine arylamidase	+	3.4.11.1
[Ref.: #43635]	lipase (C 14)	-
[Ref.: #43635]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #43635]	naphthol-AS-BI-phosphohydrolase	+/-
[Ref.: #43635]	trypsin	-	3.4.21.4
[Ref.: #43635]	urease	-	3.5.1.5
[Ref.: #43635]	valine arylamidase	+/-
	Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #43635]	Sample type/isolated from	sludge collected from the vicinity of a pesticide manufacturer
[Ref.: #43635]	Geographic location (country and/or sea, region)	Nantong, Jiangsu Province
[Ref.: #43635]	Country	China
[Ref.: #43635]	Country ISO 3 Code	CHN
[Ref.: #43635]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Industrial	#Plant (Factory)
#Environmental	#Terrestrial	#Mud (Sludge)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KU168038 (>99% sequence identity) for Cupriavidus from Microbeatlas

Aquatic Samples	297
Soil Samples	1401
Animal Samples	341
Plant Samples	292
Total Samples	2331

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #43635]	Cupriavidus nantongensis strain X1 16S ribosomal RNA gene, partial sequence	KU168038		GenBank ENA

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Cupriavidus nantongensis X1	GCA_001598055	chromosome	GenBank ENA	1796606 tax ID	*
[Ref.: #66792]	Cupriavidus nantongensis strain X1	1796606.3	complete	PATRIC	1796606 tax ID	*
[Ref.: #66792]	Cupriavidus nantongensis strain X1	1796606.6	plasmid	PATRIC	1796606 tax ID	*
[Ref.: #66792]	Cupriavidus nantongensis X1	2687453284	complete	JGI IMG/M	1796606 tax ID	*

[Ref.: #43635]

GC-content

66.6 mol%

high performance liquid chromatography (HPLC)

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: Cupriavidus nantongensis strain X1 PATRIC: 1796606.3
[Ref.: #69481]	spore-forming	no	99	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Cupriavidus nantongensis strain X1 PATRIC: 1796606.3
[Ref.: #69480]	motile	yes	86.194	no
[Ref.: #69480]	gram-positive	no	98.287	yes
[Ref.: #69480]	anaerobic	no	98.996	no
[Ref.: #69480]	aerobic	yes	93.046	no
[Ref.: #69480]	halophile	no	96.471	no
[Ref.: #69480]	spore-forming	no	93.928	no
[Ref.: #69480]	glucose-util	no	70.614	yes
[Ref.: #69480]	flagellated	no	63.903	yes
[Ref.: #69480]	thermophile	no	98.141	yes
[Ref.: #69480]	glucose-ferment	no	91.187	no

Availability in culture collections External links

[Ref.: #43635]

Culture collection no.

KCTC 42909, LMG 29218

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Cupriavidus nantongensis sp. nov., a novel chlorpyrifos-degrading bacterium isolated from sludge.	Sun LN, Wang DS, Yang ED, Fang LC, Chen YF, Tang XY, Hua RM	Int J Syst Evol Microbiol	10.1099/ijsem.0.001034	2016	*

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 )

#43635

Le-Ni Sun, Dao-Sheng Wang, En-Dong Yang, Lian-Cheng Fang, Yi-Fei Chen, Xin-Yun Tang, Ri-Mao Hua: Cupriavidus nantongensis sp. nov., a novel chlorpyrifos-degrading bacterium isolated from sludge. IJSEM 66: 2335 - 2341 2016 ( DOI 10.1099/ijsem.0.001034 , PubMed 27001671 )

#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) .

#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 )

* These data were automatically processed and therefore are not curated

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Cupriavidus nantongensis strain X1

Cupriavidus nantongensis strain X1

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