Name: Sphingosinicella xenopeptidilytica 3-2W4
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 14294

Type strain:

Species: Sphingosinicella xenopeptidilytica

Strain Designation: 3-2W4

Culture col. no.: DSM 17130, CCUG 52537, CIP 109497

Strain history: CIP <- 2007, CCUG <- 2006, B. Geueke, Swiss Fed. Inst. Aquatic Sci., Dübendorf, Switzerland: strain 3-2W4

NCBI tax ID(s): 364098 (species)

SI-ID 297322

CCUG 52537, DSM 17130, CIP 109497

Section

Sphingosinicella xenopeptidilytica 3-2W4 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from aeration tank of sewage treatment plant.

Gram-negative
motile
rod-shaped
aerobe
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	*Sphingosinicellaceae*
	Genus	*Sphingosinicella*
	Species	**Sphingosinicella xenopeptidilytica**
	Full Scientific Name (LPSN)	Sphingosinicella xenopeptidilytica Geueke et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #123972]	Gram stain	negative

[Ref.: #123972]	Cell shape	rod-shaped

[Ref.: #123972]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6777]

Culture medium

LB (Luria-Bertani) MEDIUM (DSMZ Medium 381)

[Ref.: #6777]

Culture medium growth

[Ref.: #6777]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6777]

Culture medium composition

expand / minimize

[Ref.: #6777]

Culture medium

CASO AGAR (MERCK 105458) (DSMZ Medium 220)

[Ref.: #6777]

Culture medium growth

[Ref.: #6777]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6777]

Culture medium composition

expand / minimize

[Ref.: #37315]

Culture medium

MEDIUM 328- for nutrient agar

[Ref.: #37315]

Culture medium growth

[Ref.: #37315]

Culture medium composition

expand / minimize

[Ref.: #123972]

Culture medium

CIP Medium 328

[Ref.: #123972]

Culture medium growth

[Ref.: #123972]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #6777]	growth	28 °C
[Ref.: #37315]	growth	25 °C
[Ref.: #59581]	growth	20-30 °C

[Ref.: #6777]	Temperature range	mesophilic
[Ref.: #37315]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #59581]			growth	7.0-7.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #59581]	Oxygen tolerance	aerobe
[Ref.: #123972]	Oxygen tolerance	obligate aerobe

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[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]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	esculin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gelatin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	L-arabinose ChEBI	-	assimilation	* from API 20NE
[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.: #123972]	nitrate ChEBI	+	reduction
[Ref.: #68369]	nitrate ChEBI	+	reduction	* from API 20NE
[Ref.: #123972]	nitrite ChEBI	-	reduction
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #123972]		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, API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #123972]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[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.: #123972]	oxidase	+
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #123972]	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.: #6777]	23387	+	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	+	+	+
[Ref.: #6777]	23340	+	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	+	+	+

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.: #123972]	11909	-	+	+	+	-	+	+	+	+	+	+	+	-	-	-	-	-	+	-	-

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

[Ref.: #6777]	Sample type/isolated from	aeration tank of sewage treatment plant
[Ref.: #6777]	Country	Switzerland
[Ref.: #6777]	Country ISO 3 Code	CHE
[Ref.: #6777]	Continent	Europe

[Ref.: #59581]	Sample type/isolated from	Wastewater treatment plant,aeration tank
[Ref.: #59581]	Geographic location (country and/or sea, region)	Zürich,Leutschenbach
[Ref.: #59581]	Country	Switzerland
[Ref.: #59581]	Country ISO 3 Code	CHE
[Ref.: #59581]	Continent	Europe

[Ref.: #123972]	Sample type/isolated from	Environment, Wastewater treatment plant, aeration tank
[Ref.: #123972]	Geographic location (country and/or sea, region)	Zurich
[Ref.: #123972]	Country	Switzerland
[Ref.: #123972]	Country ISO 3 Code	CHE
[Ref.: #123972]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Engineered	#Built environment	#Container (Reservoir)
#Engineered	#Waste	#Wastewater
#Engineered	#Waste	#Water treatment plant

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AY950663 (>99% sequence identity) for Sphingosinicella from Microbeatlas

Aquatic Samples	7685
Soil Samples	5974
Animal Samples	2606
Plant Samples	1345
Total Samples	17610

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

[Ref.: #6777]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #123972]	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.: #20218]	Sphingosinicella xenopeptidilytica strain 3-2W4 16S ribosomal RNA gene, partial sequence	AY950663	1411	ENA	364098 tax ID	*

Availability in culture collections External links

[Ref.: #6777]

Culture collection no.

DSM 17130, CCUG 52537, CIP 109497

[Ref.: #83447]

SI-ID 297322

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Sphingosinicella cucumeris sp. nov., isolated from soil of a cucumber garden.	Akter S, Du J, Won K, Yin CS, Kook M, Yi TH	Antonie Van Leeuwenhoek	10.1007/s10482-015-0572-6	2015	*
Phylogeny	Sphingosinicella vermicomposti sp. nov., isolated from vermicompost, and emended description of the genus Sphingosinicella.	Yasir M, Aslam Z, Song GC, Jeon CO, Chung YR	Int J Syst Evol Microbiol	10.1099/ijs.0.010777-0	2009	*
Enzymology	Kinetic resolution of aliphatic beta-amino acid amides by beta-aminopeptidases.	Heck T, Seebach D, Osswald S, Ter Wiel MK, Kohler HP, Geueke B	Chembiochem	10.1002/cbic.200900184	2009	*
Enzymology	Enzyme-catalyzed formation of beta-peptides: beta-peptidyl aminopeptidases BapA and DmpA acting as beta-peptide-synthesizing enzymes.	Heck T, Kohler HP, Limbach M, Flogel O, Seebach D, Geueke B	Chem Biodivers	10.1002/cbdv.200790168	2007	*
Phylogeny	Sphingomonas kaistensis sp. nov., a novel alphaproteobacterium containing pufLM genes.	Kim MK, Schubert K, Im WT, Kim KH, Lee ST, Overmann J	Int J Syst Evol Microbiol	10.1099/ijs.0.64579-0	2007	*
Phylogeny	Description of Sphingosinicella xenopeptidilytica sp. nov., a beta-peptide-degrading species, and emended descriptions of the genus Sphingosinicella and the species Sphingosinicella microcystinivorans.	Geueke B, Busse HJ, Fleischmann T, Kampfer P, Kohler HE	Int J Syst Evol Microbiol	10.1099/ijs.0.64509-0	2007	*

References

#6777

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17130

#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 )

#37315 ; Curators of the CIP;
#59581 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 52537

#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 .

#83447

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-ID297322.1 )

#123972 Collection of Institut Pasteur ; Curators of the CIP; CIP 109497
* These data were automatically processed and therefore are not curated

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