Name: Novosphingobium soli CC-TPE-1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 14166

Type strain:

Species: Novosphingobium soli

Strain Designation: CC-TPE-1

Culture col. no.: DSM 22821, CCM 7706, CCUG 58493, CIP 110292

Strain history: CIP <- 2011, P. Kämpfer, J. Liebig Giessen Univ., Giessen, Germany <- A.B. Arun, Yenepoya Univ., Mangalore, Karnataka State, India: strain CC-TPE-1

NCBI tax ID(s): 574956 (species)

SI-ID 376130

CCM 7706, CCUG 58493, DSM 22821, CIP 110292

Section

Novosphingobium soli CC-TPE-1 is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from oil-contaminated soil near an oil refinery.

Gram-negative
motile
rod-shaped
facultative anaerobe
mesophilic
16S sequence
Bacteria

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	*Alphaproteobacteria*
	Order	*Sphingomonadales*
	Family	*Erythrobacteraceae*
	Genus	*Novosphingobium*
	Species	**Novosphingobium soli**
	Full Scientific Name (LPSN)	Novosphingobium soli Kämpfer et al. 2011

Information on morphological and physiological properties Morphology

[Ref.: #29836]	Gram stain	negative
[Ref.: #122661]	Gram stain	negative

[Ref.: #29836]	Cell length	1.6 µm

[Ref.: #29836]	Cell width	0.8 µm

[Ref.: #29836]	Cell shape	rod-shaped
[Ref.: #122661]	Cell shape	rod-shaped

[Ref.: #29836]	Motility	yes
[Ref.: #122661]	Motility	yes

Multimedia content

[Ref.: #16534]

Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

[Ref.: #16534]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #16534]

Culture medium growth

[Ref.: #16534]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16534]

Culture medium composition

expand / minimize

[Ref.: #40336]

Culture medium

MEDIUM 72- for trypto casein soja agar

[Ref.: #40336]

Culture medium growth

[Ref.: #40336]

Culture medium composition

expand / minimize

[Ref.: #122661]

Culture medium

CIP Medium 566

[Ref.: #122661]

Culture medium growth

[Ref.: #122661]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #122661]

Culture medium

CIP Medium 72

[Ref.: #122661]

Culture medium growth

[Ref.: #122661]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #16534]	growth	28 °C
[Ref.: #29836]	growth	04-32 °C
[Ref.: #29836]	optimum	18 °C
[Ref.: #40336]	growth	30 °C

[Ref.: #16534]	Temperature range	mesophilic
[Ref.: #29836]	Temperature range	psychrophilic
[Ref.: #40336]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #29836]			optimum	5.75
[Ref.: #29836]			growth	4.5-7

Information on physiology and metabolism Physiology and metabolism

[Ref.: #122661]

Oxygen tolerance

facultative anaerobe

[Ref.: #29836]

Ability of spore formation

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29836]	3-hydroxybutyrate ChEBI	+	carbon source
[Ref.: #29836]	acetate ChEBI	+	carbon source
[Ref.: #29836]	alanine ChEBI	+	carbon source
[Ref.: #29836]	arabinose ChEBI	+	carbon source
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	D-mannose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	esculin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #29836]	fructose ChEBI	+	carbon source
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #29836]	glucose ChEBI	+	carbon source
[Ref.: #68369]	L-arabinose ChEBI	+	assimilation	* from API 20NE
[Ref.: #29836]	leucine ChEBI	+	carbon source
[Ref.: #68369]	malate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #122661]	nitrate ChEBI	-	reduction
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #122661]	nitrite ChEBI	-	reduction
[Ref.: #29836]	proline ChEBI	+	carbon source
[Ref.: #29836]	pyruvate ChEBI	+	carbon source
[Ref.: #29836]	trehalose ChEBI	+	carbon source
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #29836]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #122661]		indole ChEBI	no
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	-	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	-	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68369]	beta-glucosidase	+	3.2.1.21	* from API 20NE
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #122661]	catalase	-	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #29836]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	-		* from API zym
[Ref.: #122661]	oxidase	+
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #122661]	urease	-	3.5.1.5
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® 20NE:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #16534]	24296	-	-	-	-	-	+	-	+	+	+	-	-	-	-	-	-	-	-	-	-	+
[Ref.: #16534]	23264	-	-	-	-	-	+	-	-	+	+	-	-	-	-	+	+	+	-	+	-	+

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #122661]	12495	-	-	+	+	-	+	-	-	-	-	-	-	-	-	-	+	-	-	-	-

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

[Ref.: #16534]	Sample type/isolated from	oil-contaminated soil near an oil refinery
[Ref.: #16534]	Geographic location (country and/or sea, region)	Kaohsiung County
[Ref.: #16534]	Country	Taiwan
[Ref.: #16534]	Country ISO 3 Code	TWN
[Ref.: #16534]	Continent	Asia

[Ref.: #61700]	Sample type/isolated from	Soil
[Ref.: #61700]	Sampling date	2008
[Ref.: #61700]	Country	Taiwan
[Ref.: #61700]	Country ISO 3 Code	TWN
[Ref.: #61700]	Continent	Asia

[Ref.: #122661]	Sample type/isolated from	Environment, Soil, oil-contaminated
[Ref.: #122661]	Geographic location (country and/or sea, region)	Kaohsiung county
[Ref.: #122661]	Country	Taiwan
[Ref.: #122661]	Country ISO 3 Code	TWN
[Ref.: #122661]	Continent	Asia
[Ref.: #122661]	Isolation date	2008
* marker position based on {}

Isolation sources categories

#Engineered	#Contamination	#Oil (Fuel)
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #16534]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #122661]	Biosafety level	1	Risk group (French classification)

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.: #16534]	Novosphingobium soli strain CC-TPE-1 16S ribosomal RNA gene, partial sequence	FJ425737	1461	ENA	574956 tax ID

Availability in culture collections External links

[Ref.: #16534]

Culture collection no.

DSM 22821, CCM 7706, CCUG 58493, CIP 110292

[Ref.: #83329]

SI-ID 376130

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Novosphingobium arvoryzae sp. nov., isolated from a flooded rice field.	Sheu SY, Huang CW, Chen JC, Chen ZH, Chen WM	Int J Syst Evol Microbiol	10.1099/ijsem.0.002756	2018	*
Phylogeny	Novosphingobium chloroacetimidivorans sp. nov., a chloroacetamide herbicide-degrading bacterium isolated from activated sludge.	Chen Q, Zhang J, Wang CH, Jiang J, Kwon SW, Sun LN, Shen WB, He J	Int J Syst Evol Microbiol	10.1099/ijs.0.062950-0	2014	*
Phylogeny	Novosphingobium arabidopsis sp. nov., a DDT-resistant bacterium isolated from the rhizosphere of Arabidopsis thaliana.	Lin SY, Hameed A, Liu YC, Hsu YH, Lai WA, Huang HI, Young CC	Int J Syst Evol Microbiol	10.1099/ijs.0.054460-0	2013	*
Phylogeny	Novosphingobium lindaniclasticum sp. nov., a hexachlorocyclohexane (HCH)-degrading bacterium isolated from an HCH dumpsite.	Saxena A, Anand S, Dua A, Sangwan N, Khan F, Lal R	Int J Syst Evol Microbiol	10.1099/ijs.0.045443-0	2012	*
Phylogeny	Novosphingobium soli sp. nov., isolated from soil.	Kampfer P, Young CC, Busse HJ, Lin SY, Rekha PD, Arun AB, Chen WM, Shen FT, Wu YH	Int J Syst Evol Microbiol	10.1099/ijs.0.022178-0	2010	*

References

#16534

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22821

#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 )

#29836

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 #26212 (see below)

#40336 ; Curators of the CIP;
#61700 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 58493

#68369

Automatically annotated from API 20NE .

#68382

Automatically annotated from API zym .

#83329

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID376130.1 )

#122661 Collection of Institut Pasteur ; Curators of the CIP; CIP 110292

#26212

IJSEM 259 2011 ( DOI 10.1099/ijs.0.022178-0 , PubMed 20207802 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Novosphingobium soli in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF