Name: Sphingomonas cynarae ITEM-13494
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 23280

Type strain:

Species: Sphingomonas cynarae

Strain Designation: ITEM-13494, SPC-1

Culture col. no.: DSM 25525, JCM 17498, ITEM 13494

Strain history: G. Mita SPC-1.

NCBI tax ID(s): 930197 (species)

SI-ID 401047

DSM 25525

Special Collections

Section

Sphingomonas cynarae ITEM-13494 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from phyllosphere of Cynara cardunculus var. sylvestris Fiori .

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

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Sphingomonadales*
	Family	*Sphingomonadaceae*
	Genus	*Sphingomonas*
	Species	**Sphingomonas cynarae**
	Full Scientific Name (LPSN)	Sphingomonas cynarae Talà et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30267]	Gram stain	negative

[Ref.: #30267]	Cell length	2.25 µm

[Ref.: #30267]	Cell width	0.45 µm

[Ref.: #30267]	Cell shape	rod-shaped

[Ref.: #30267]	Motility	no

[Ref.: #30267]

Pigment production

yes

Multimedia content

[Ref.: #19193]

Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

[Ref.: #19193]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #19193]

Culture medium growth

[Ref.: #19193]

Culture medium link

Medium recipe at MediaDive

[Ref.: #19193]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #19193]	growth	28 °C
[Ref.: #30267]	growth	05-36 °C
[Ref.: #30267]	optimum	28 °C
[Ref.: #67770]	growth	28 °C

	pH	Kind of pH		pH
[Ref.: #30267]			optimum	6.25
[Ref.: #30267]			growth	6-6.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30267]

Oxygen tolerance

aerobe

[Ref.: #30267]

Ability of spore formation

[Ref.: #19193]

Name of produced compound

sphingan

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30267]		NaCl		optimum	0.25	%

[Ref.: #67770]

Observation

quinones: Q-10

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30267]	2-dehydro-D-gluconate ChEBI	+	carbon source
[Ref.: #30267]	5-dehydro-D-gluconate ChEBI	+	carbon source
[Ref.: #30267]	arabinose ChEBI	+	carbon source
[Ref.: #30267]	cellobiose ChEBI	+	carbon source
[Ref.: #30267]	esculin ChEBI	+	hydrolysis
[Ref.: #30267]	fructose ChEBI	+	carbon source
[Ref.: #30267]	galactose ChEBI	+	carbon source
[Ref.: #30267]	glucose ChEBI	+	carbon source
[Ref.: #30267]	lactose ChEBI	+	carbon source
[Ref.: #30267]	maltose ChEBI	+	carbon source
[Ref.: #30267]	mannose ChEBI	+	carbon source
[Ref.: #30267]	melibiose ChEBI	+	carbon source
[Ref.: #30267]	rhamnose ChEBI	+	carbon source
[Ref.: #30267]	salicin ChEBI	+	carbon source
[Ref.: #30267]	sucrose ChEBI	+	carbon source
[Ref.: #30267]	trehalose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #30267]		catalase	+	1.11.1.6
[Ref.: #30267]		gelatinase	+

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

[Ref.: #19193]	Sample type/isolated from	phyllosphere of Cynara cardunculus var. sylvestris (Lamk) Fiori (wild cardoon)
[Ref.: #19193]	Host species	Cynara cardunculus var. sylvestris
[Ref.: #19193]	Geographic location (country and/or sea, region)	Puglia region, Lecce
[Ref.: #19193]	Country	Italy
[Ref.: #19193]	Country ISO 3 Code	ITA
[Ref.: #19193]	Continent	Europe

[Ref.: #67770]	Sample type/isolated from	Phyllosphere of Cynara cardunculus L. var. sylvestris (Lamk) Fiori (wild carbon), a Mediterranea native plant that is considered to be the wild ancestor of the globe artichoke and cultivated carbon
[Ref.: #67770]	Host species	Cynara cardunculus L. var. sylvestris
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Leaf (Phyllosphere)

What are isolation sources categories?

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

[Ref.: #19193]

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.: #19193]	Sphingomonas cynarae strain SPC-1 16S ribosomal RNA gene, partial sequence	HQ439186	1426	GenBank ENA	930197 tax ID

[Ref.: #19193]	GC-content	66.1 mol%	high performance liquid chromatography (HPLC)
[Ref.: #30267]	GC-content	66.1 mol%

Availability in culture collections External links

[Ref.: #19193]

Culture collection no.

DSM 25525, JCM 17498, ITEM 13494

[Ref.: #87502]

SI-ID 401047

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Sphingomonas panacis sp. nov., isolated from rhizosphere of rusty ginseng.	Singh P, Kim YJ, Hoang VA, Farh Mel-A, Yang DC	Antonie Van Leeuwenhoek	10.1007/s10482-015-0527-y	2015	*
Phylogeny	Sphingomonas cynarae sp. nov., a proteobacterium that produces an unusual type of sphingan.	Tala A, Lenucci M, Gaballo A, Durante M, Tredici SM, Debowles DA, Pizzolante G, Marcuccio C, Carata E, Piro G, Carpita NC, Mita G, Alifano P	Int J Syst Evol Microbiol	10.1099/ijs.0.032060-0	2012	*

References

#19193

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25525

#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 )

#30267

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 #26608 (see below)

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#87502

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-ID401047.1 )

#26608

IJSEM 72 2013 ( DOI 10.1099/ijs.0.032060-0 , PubMed 22328613 )

* These data were automatically processed and therefore are not curated

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