Name: Sphingomonas fennica K101
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 14254

Type strain:

Species: Sphingomonas fennica

Strain Designation: K101

Culture col. no.: DSM 13665, CCUG 53462, CIP 109722

Strain history: CIP <- 2007, CCUG <- 2006, W.R. Abraham, Braunschweig, Germany: strain K101

NCBI tax ID(s): 114404 (species)

SI-ID 49504

DSM 13665, LMG 23802, CCUG 53462, CIP 109722

Section

Sphingomonas fennica K101 is an aerobe, psychrophilic, Gram-positive bacterium that was isolated from groundwater samples from aquifer adjacent to a sawmill.

Gram-positive
motile
rod-shaped
aerobe
psychrophilic
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	*Sphingomonadaceae*
	Genus	*Sphingomonas*
	Species	**Sphingomonas fennica**
	Full Scientific Name (LPSN)	Sphingomonas fennica Wittich et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #32029]	Gram stain	positive
[Ref.: #119304]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.989

[Ref.: #32029]	Cell length	1.2 µm

[Ref.: #32029]	Cell width	0.7 µm

[Ref.: #32029]	Cell shape	rod-shaped
[Ref.: #119304]	Cell shape	rod-shaped

[Ref.: #32029]	Motility	yes
[Ref.: #119304]	Motility	no
[Ref.: #69480]	Motility	yes Confidence in %92.825

[Ref.: #59907]

Incubation period

2 days

Information on culture and growth conditions Culture and growth conditions

[Ref.: #4947]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #4947]

Culture medium growth

[Ref.: #4947]

Culture medium link

Medium recipe at MediaDive

[Ref.: #4947]

Culture medium composition

expand / minimize

[Ref.: #37293]

Culture medium

MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromati

[Ref.: #37293]

Culture medium growth

[Ref.: #37293]

Culture medium composition

expand / minimize

[Ref.: #119304]

Culture medium

CIP Medium 566

[Ref.: #119304]

Culture medium growth

[Ref.: #119304]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #4947]	growth	20 °C
[Ref.: #32029]	growth	10-37 °C
[Ref.: #32029]	optimum	25 °C
[Ref.: #37293]	growth	30 °C
[Ref.: #59907]	growth	30 °C

[Ref.: #4947]	Temperature range	psychrophilic
[Ref.: #32029]	Temperature range	mesophilic
[Ref.: #37293]	Temperature range	mesophilic
[Ref.: #59907]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32029]			optimum	7.5
[Ref.: #32029]			growth	5.0-8.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32029]	Oxygen tolerance	aerobe
[Ref.: #59907]	Oxygen tolerance	aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %97
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.938

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32029]	3-hydroxybutyrate ChEBI	+	carbon source
[Ref.: #32029]	acetate ChEBI	+	carbon source
[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.: #32029]	nitrate ChEBI	+	reduction
[Ref.: #119304]	nitrate ChEBI	-	reduction
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #119304]	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.: #119304]		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.: #119304]	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.: #119304]	oxidase	-
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #119304]	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.: #4947]	23205	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+
[Ref.: #4947]	23149	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+

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.: #119304]	12062	-	+	+	+	-	+	-	-	+	-	+	+	-	-	-	-	-	-	-	-

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

[Ref.: #4947]	Sample type/isolated from	groundwater samples from aquifer adjacent to a sawmill
[Ref.: #4947]	Geographic location (country and/or sea, region)	Southern Finland
[Ref.: #4947]	Country	Finland
[Ref.: #4947]	Country ISO 3 Code	FIN
[Ref.: #4947]	Continent	Europe

[Ref.: #59907]	Sample type/isolated from	Water,contaminated boreal groundwater
[Ref.: #59907]	Country	Finland
[Ref.: #59907]	Country ISO 3 Code	FIN
[Ref.: #59907]	Continent	Europe

[Ref.: #119304]	Sample type/isolated from	Environment, Water, contaminated boreal groundwater
[Ref.: #119304]	Geographic location (country and/or sea, region)	Braunschweig
[Ref.: #119304]	Country	Germany
[Ref.: #119304]	Country ISO 3 Code	DEU
[Ref.: #119304]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Engineered	#Industrial	-
#Environmental	#Aquatic	#Groundwater

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AJ009706 (>99% sequence identity) for Sphingomonas from Microbeatlas

Aquatic Samples	369
Soil Samples	568
Animal Samples	56
Plant Samples	62
Total Samples	1055

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

[Ref.: #4947]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #119304]	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.: #4947]	Sphingomonas fennica partial 16S rRNA gene, type strain K101T	AJ009706	1463	ENA	114404 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Sphingomonas fennica K101	GCA_003034225	contig	GenBank	114404 tax ID	*
[Ref.: #66792]	Sphingomonas fennica strain K101	114404.3	wgs	PATRIC	114404 tax ID	*

[Ref.: #4947]

GC-content

63.6 mol%

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: Sphingomonas fennica strain K101 PATRIC: 114404.3
[Ref.: #69481]	spore-forming	no	97	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Sphingomonas fennica strain K101 PATRIC: 114404.3
[Ref.: #69480]	motile	yes	86.555	yes
[Ref.: #69480]	flagellated	no	87.024	no
[Ref.: #69480]	gram-positive	no	92.908	yes
[Ref.: #69480]	anaerobic	no	98.93	no
[Ref.: #69480]	aerobic	yes	91.438	yes
[Ref.: #69480]	halophile	no	94.69	no
[Ref.: #69480]	spore-forming	no	92.001	no
[Ref.: #69480]	glucose-util	yes	72.053	yes
[Ref.: #69480]	thermophile	no	97.73	yes
[Ref.: #69480]	glucose-ferment	no	92.431	yes

Availability in culture collections External links

[Ref.: #4947]

Culture collection no.

DSM 13665, CCUG 53462, CIP 109722

[Ref.: #83413]

SI-ID 49504

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Sphingomonas montana sp. nov., isolated from a soil sample from the Tanggula Mountain in the Qinghai Tibetan Plateau.	Manandhar P, Zhang G, Lama A, Liu F, Hu Y	Antonie Van Leeuwenhoek	10.1007/s10482-017-0915-6	2017	*
Phylogeny	Sphingomonas prati sp. nov., isolated from alpine meadow soil.	Manandhar P, Zhang G, Hu Y, Lama A, Gao F, Gu Z	Int J Syst Evol Microbiol	10.1099/ijsem.0.001346	2016	*
Phylogeny	Sphingomonas arantia sp. nov., isolated from Hoh Xil basin, China.	Jia L, Zheng Z, Feng X, Nogi Y, Yang A, Zhang Y, Han L, Lu Z, Lv J	Antonie Van Leeuwenhoek	10.1007/s10482-015-0586-0	2015	*
Phylogeny	Sphingomonas fennica sp. nov. and Sphingomonas haloaromaticamans sp. nov., outliers of the genus Sphingomonas.	Wittich RM, Busse HJ, Kampfer P, Macedo AJ, Tiirola M, Wieser M, Abraham WR	Int J Syst Evol Microbiol	10.1099/ijs.0.64835-0	2007	*

References

#4947

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 13665

#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 )

#32029

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 #28280 (see below)

#37293 ; Curators of the CIP;
#59907 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 53462

#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) .

#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 .

#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 )

#83413

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-ID49504.1 )

#119304 Collection of Institut Pasteur ; Curators of the CIP; CIP 109722

#28280

IJSEM 1740 2007 ( DOI 10.1099/ijs.0.64835-0 , PubMed 17684248 )

* These data were automatically processed and therefore are not curated

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Sphingomonas fennica strain K101

Sphingomonas fennica strain K101

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