Name: Novosphingobium clariflavum 164
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 141008

Type strain:

Species: Novosphingobium clariflavum

Strain Designation: 164

Culture col. no.: CICC 11035s, DSM 103351

Strain history: <- Y. Ge, Chinese Center for Industrial Culture Collection, Beijing (CICC), China; CICC 11035s <- Z. Lei; 164

NCBI tax ID(s): 2029884 (species)

SI-ID 397516

DSM 103351

Section

Novosphingobium clariflavum 164 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from used sponge for equipment cleaning at a household product plant, China.

colony-forming
Gram-negative
rod-shaped
aerobe
mesophilic
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	*Alphaproteobacteria*
	Order	*Sphingomonadales*
	Family	*Erythrobacteraceae*
	Genus	*Novosphingobium*
	Species	**Novosphingobium clariflavum**
	Full Scientific Name (LPSN)	Novosphingobium clariflavum Zhang et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #43903]	Gram stain	negative

[Ref.: #43903]	Cell length	0.8-1.5 µm

[Ref.: #43903]	Cell width	0.5-0.6 µm

[Ref.: #43903]	Cell shape	rod-shaped

[Ref.: #43903]	Colony color	bright-yellow
[Ref.: #43903]	Colony shape	circular
[Ref.: #43903]	Incubation period	2 days
[Ref.: #43903]	Cultivation medium used	Trypticase soy agar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #69014]

Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

[Ref.: #69014]

Culture medium growth

[Ref.: #69014]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #43903]

Culture medium

Trypticase soy agar

[Ref.: #43903]

Culture medium growth

		Temperature
[Ref.: #43903]	optimum	28 °C
[Ref.: #43903]	growth	15-35 °C
[Ref.: #69014]	growth	28 °C

[Ref.: #43903]	Temperature range	mesophilic
[Ref.: #69014]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #43903]			optimum	7
[Ref.: #43903]			growth	4.0-8.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43903]

Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43903]		NaCl		optimum	0	%(w/v)
[Ref.: #43903]		NaCl		growth	0-2	%(w/v)

[Ref.: #43903]

Observation

quinone Q-10

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43903]	2-dehydro-D-gluconate ChEBI	-	builds acid from
[Ref.: #43903]	5-dehydro-D-gluconate ChEBI	-	builds acid from
[Ref.: #43903]	amygdalin ChEBI	+	carbon source
[Ref.: #68372]	amygdalin ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	arabinose ChEBI	+	assimilation
[Ref.: #43903]	arbutin ChEBI	+/-	carbon source
[Ref.: #68372]	arbutin ChEBI	+	assimilation	* from API 50CH assim
[Ref.: #43903]	cellobiose ChEBI	+	builds acid from
[Ref.: #43903]	cellobiose ChEBI	+	carbon source
[Ref.: #68372]	cellobiose ChEBI	+	assimilation	* from API 50CH assim
[Ref.: #43903]	D-arabinose ChEBI	-	builds acid from
[Ref.: #68372]	D-arabinose ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	D-arabitol ChEBI	-	builds acid from
[Ref.: #68372]	D-arabitol ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	D-fructose ChEBI	+	carbon source
[Ref.: #68372]	D-fructose ChEBI	+	assimilation	* from API 50CH assim
[Ref.: #43903]	D-fucose ChEBI	+	carbon source
[Ref.: #68372]	D-fucose ChEBI	+	assimilation	* from API 50CH assim
[Ref.: #43903]	D-galactose ChEBI	+	carbon source
[Ref.: #68372]	D-galactose ChEBI	+	assimilation	* from API 50CH assim
[Ref.: #43903]	D-glucose ChEBI	+	carbon source
[Ref.: #68372]	D-glucose ChEBI	+	assimilation	* from API 50CH assim
[Ref.: #43903]	D-lyxose ChEBI	-	carbon source
[Ref.: #68372]	D-lyxose ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #68372]	D-mannitol ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	D-mannose ChEBI	+	assimilation
[Ref.: #43903]	D-mannose ChEBI	+	carbon source
[Ref.: #68372]	D-mannose ChEBI	+	assimilation	* from API 50CH assim
[Ref.: #43903]	D-ribose ChEBI	-	builds acid from
[Ref.: #68372]	D-ribose ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	D-tagatose ChEBI	-	builds acid from
[Ref.: #68372]	D-tagatose ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #68372]	D-xylose ChEBI	+	assimilation	* from API 50CH assim
[Ref.: #68372]	erythritol ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	esculin ChEBI	+	carbon source
[Ref.: #43903]	esculin ChEBI	+	hydrolysis
[Ref.: #68372]	esculin ChEBI	+	assimilation	* from API 50CH assim
[Ref.: #43903]	fructose ChEBI	+	builds acid from
[Ref.: #43903]	fucose ChEBI	+	builds acid from
[Ref.: #43903]	galactitol ChEBI	-	builds acid from
[Ref.: #68372]	galactitol ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	galactose ChEBI	+	builds acid from
[Ref.: #43903]	gelatin ChEBI	-	builds acid from
[Ref.: #43903]	gentiobiose ChEBI	-	carbon source
[Ref.: #68372]	gentiobiose ChEBI	+	assimilation	* from API 50CH assim
[Ref.: #68372]	gluconate ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	glucose ChEBI	+	builds acid from
[Ref.: #43903]	glucose ChEBI	+	carbon source
[Ref.: #43903]	glycerol ChEBI	-	builds acid from
[Ref.: #68372]	glycerol ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	glycerol 3-phosphate ChEBI	-	carbon source
[Ref.: #43903]	glycogen ChEBI	-	builds acid from
[Ref.: #68372]	glycogen ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	inulin ChEBI	-	builds acid from
[Ref.: #68372]	inulin ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	L-arabinose ChEBI	-	builds acid from
[Ref.: #43903]	L-arabinose ChEBI	+	carbon source
[Ref.: #68372]	L-arabinose ChEBI	+	assimilation	* from API 50CH assim
[Ref.: #43903]	L-arabitol ChEBI	-	builds acid from
[Ref.: #68372]	L-arabitol ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	L-fucose ChEBI	-	carbon source
[Ref.: #68372]	L-fucose ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	L-rhamnose ChEBI	+	carbon source
[Ref.: #68372]	L-rhamnose ChEBI	+	assimilation	* from API 50CH assim
[Ref.: #68372]	L-sorbose ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #68372]	L-xylose ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	lactose ChEBI	+	builds acid from
[Ref.: #43903]	lactose ChEBI	+	carbon source
[Ref.: #68372]	lactose ChEBI	+	assimilation	* from API 50CH assim
[Ref.: #43903]	lyxose ChEBI	-	builds acid from
[Ref.: #43903]	malate ChEBI	+	assimilation
[Ref.: #43903]	maltose ChEBI	+	assimilation
[Ref.: #43903]	maltose ChEBI	+	carbon source
[Ref.: #68372]	maltose ChEBI	+	assimilation	* from API 50CH assim
[Ref.: #43903]	maltose hydrate	+	builds acid from
[Ref.: #43903]	mannitol ChEBI	-	builds acid from
[Ref.: #43903]	melezitose ChEBI	-	builds acid from
[Ref.: #43903]	melezitose ChEBI	-	carbon source
[Ref.: #68372]	melezitose ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	melibiose ChEBI	+/-	carbon source
[Ref.: #68372]	melibiose ChEBI	+	assimilation	* from API 50CH assim
[Ref.: #43903]	methyl alpha-D-glucopyranoside ChEBI	+/-	carbon source
[Ref.: #68372]	methyl alpha-D-glucopyranoside ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #68372]	methyl alpha-D-mannoside ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	methyl beta-D-xylopyranoside ChEBI	-	builds acid from
[Ref.: #68372]	methyl beta-D-xylopyranoside ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #68372]	myo-inositol ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	N-acetylglucosamine ChEBI	-	assimilation
[Ref.: #43903]	N-acetylglucosamine ChEBI	-	builds acid from
[Ref.: #68372]	N-acetylglucosamine ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	nitrate ChEBI	-	assimilation
[Ref.: #68372]	Potassium 2-ketogluconate ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #68372]	Potassium 5-ketogluconate ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	raffinose ChEBI	-	carbon source
[Ref.: #68372]	raffinose ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	rhamnose ChEBI	+	builds acid from
[Ref.: #43903]	ribitol ChEBI	-	builds acid from
[Ref.: #68372]	ribitol ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	salicin ChEBI	+/-	carbon source
[Ref.: #68372]	salicin ChEBI	+	assimilation	* from API 50CH assim
[Ref.: #43903]	sorbitol ChEBI	-	builds acid from
[Ref.: #68372]	sorbitol ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	starch ChEBI	-	builds acid from
[Ref.: #43903]	starch ChEBI	-	carbon source
[Ref.: #43903]	starch ChEBI	-	hydrolysis
[Ref.: #68372]	starch ChEBI	+	assimilation	* from API 50CH assim
[Ref.: #43903]	sucrose ChEBI	+/-	carbon source
[Ref.: #68372]	sucrose ChEBI	+	assimilation	* from API 50CH assim
[Ref.: #43903]	trehalose ChEBI	+	carbon source
[Ref.: #68372]	trehalose ChEBI	+	assimilation	* from API 50CH assim
[Ref.: #43903]	turanose ChEBI	+/-	carbon source
[Ref.: #68372]	turanose ChEBI	+	assimilation	* from API 50CH assim
[Ref.: #43903]	tween 20 ChEBI	+	hydrolysis
[Ref.: #43903]	tween 80 ChEBI	-	hydrolysis
[Ref.: #43903]	tyrosine ChEBI	-	hydrolysis
[Ref.: #43903]	xylitol ChEBI	-	builds acid from
[Ref.: #68372]	xylitol ChEBI	-	assimilation	* from API 50CH assim
[Ref.: #43903]	xylose ChEBI	-	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #43903]		acetoin ChEBI	yes

	Physiological tests	Metabolite	Voges-Proskauer-test
[Ref.: #43903]		acetoin ChEBI	+

	Enzyme	Enzyme activity	EC number
[Ref.: #43903]	catalase	+	1.11.1.6
[Ref.: #43903]	cytochrome oxidase	+/-	1.9.3.1
[Ref.: #43903]	urease	-	3.5.1.5

API® 50CH assim:

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

	API ID	ControlQ	Assimilation of glycerolGLY	Assimilation of erythritolERY	Assimilation of D-arabinoseDARA	Assimilation of L-arabinoseLARA	Assimilation of D-riboseRIB	Assimilation of D-xyloseDXYL	Assimilation of L-xyloseLXYL	Assimilation of D-adonitolADO	Assimilation of methyl beta-D-xylopyranosideMDX	Assimilation of D-galactoseGAL	Assimilation of D-glucoseGLU	Assimilation of D-fructoseFRU	Assimilation of D-mannoseMNE	Assimilation of L-sorboseSBE	Assimilation of L-rhamnoseRHA	Assimilation of dulcitolDUL	Assimilation of inositolINO	Assimilation of D-mannitolMAN	Assimilation of sorbitolSOR	Assimilation of methyl alpha-D-mannopyranosideMDM	Assimilation of methyl alpha-D-glucopyranosideMDG	Assimilation of N-acetyl-glucosamineNAG	Assimilation of amygdalinAMY	Assimilation of arbutinARB	Assimilation of esculinESC	Assimilation of salicinSAL	Assimilation of cellobioseCEL	Assimilation of maltoseMAL	Assimilation of lactoseLAC	Assimilation of melibioseMEL	Assimilation of sucroseSAC	Assimilation of trehaloseTRE	Assimilation of inulinINU	Assimilation of melezitoseMLZ	Assimilation of raffinoseRAF	Assimilation of starchAMD	Assimilation of glycogenGLYG	Assimilation of xylitolXLT	Assimilation of gentiobioseGEN	Assimilation of turanoseTUR	Assimilation of D-lyxoseLYX	Assimilation of D-tagatoseTAG	Assimilation of D-fucoseDFUC	Assimilation of L-fucoseLFUC	Assimilation of D-arabitolDARL	Assimilation of L-arabitolLARL	Assimilation of gluconateGNT	Assimilation of 2-Ketogluconate2KG	Assimilation of 5-Ketogluconate5KG
[Ref.: #43903]	96	-	-	-	-	+	-	+	-	-	-	+	+	+	+	-	+	-	-	-	-	-	-	-	-	+	+	+	+	+	+	+	+	+	-	-	-	+	-	-	+	+	-	-	+	-	-	-	-	-	-

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

[Ref.: #43903]	Sample type/isolated from	used sponge for equipment cleaning at a household product plant, China
[Ref.: #43903]	Country	China
[Ref.: #43903]	Country ISO 3 Code	CHN
[Ref.: #43903]	Continent	Asia
[Ref.: #43903]	Enrichment culture	Trypticase soy agar
[Ref.: #43903]	Enrichment culture temperature	28 ̊C

[Ref.: #69014]	Sample type/isolated from	air environment of a cosmetic factory
[Ref.: #69014]	Geographic location (country and/or sea, region)	Beijing
[Ref.: #69014]	Country	China
[Ref.: #69014]	Country ISO 3 Code	CHN
[Ref.: #69014]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Industrial	#Engineered product
#Environmental	#Microbial community	-

What are isolation sources categories?

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

[Ref.: #69014]

Biosafety level

Risk group (German classification)
According to TRBA 466

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.: #43903]	16S rRNA gene sequence	KU530129		GenBank

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Novosphingobium clariflavum 164	GCA_026420865	contig	GenBank	2029884 tax ID	*

[Ref.: #69014]

GC-content

65.9 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 Diaspora project based on: Novosphingobium clariflavum 164 NCBI: GCA_026420865.1
[Ref.: #69480]	motile	yes	60.998	no
[Ref.: #69480]	flagellated	no	83.333	no
[Ref.: #69480]	gram-positive	no	97.12	no
[Ref.: #69480]	anaerobic	no	98.802	no
[Ref.: #69480]	aerobic	yes	90.852	yes
[Ref.: #69480]	halophile	no	96.477	yes
[Ref.: #69480]	spore-forming	no	93.461	no
[Ref.: #69480]	glucose-ferment	no	92.772	no
[Ref.: #69480]	thermophile	no	96.517	yes
[Ref.: #69480]	glucose-util	yes	91.821	yes

Availability in culture collections External links

[Ref.: #43903]

Culture collection no.

CICC 11035s, DSM 103351

[Ref.: #96827]

SI-ID 397516

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Novosphingobium clariflavum sp. nov., isolated from a household product plant.	Zhang X, Liu Y, Lin Y, Wang L, Yao S, Cao Y, Zhai L, Tang X, Zhang L, Zhang T, Ge Y, Ling K, Liu J, Cheng C	Int J Syst Evol Microbiol	10.1099/ijsem.0.001803	2017	*

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 )

#43903

Xin Zhang, Yang Liu, Yafang Lin, Lijiang Wang, Su Yao, Yanhua Cao, Lei Zhai, Xiaoli Tang, Lu Zhang, Tianci Zhang, Yuanyuan Ge, Kong Ling, Jiquan Liu, Chi Cheng: Novosphingobium clariflavum sp. nov., isolated from a household product plant. IJSEM 67: 3150 - 3155 2017 ( DOI 10.1099/ijsem.0.001803 , PubMed 28840813 )

#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) .

#68372

Automatically annotated from API 50CH assim .

#69014

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 103351

#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) .

#96827

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-ID397516.1 )

* These data were automatically processed and therefore are not curated

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