Name: Sphingomonas alpina S8-3
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 14269

Type strain:

Species: Sphingomonas alpina

Strain Designation: S8-3

Culture col. no.: DSM 22537, LMG 26055

Strain history: <- R. Margesin, Inst. Microbiology, Univ. Innsbruck, Austria; S8-3

NCBI tax ID(s): 653931 (species)

SI-ID 370924

LMG 26055, DSM 22537

Section

Sphingomonas alpina S8-3 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from alpine soil.

Gram-negative
motile
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	*Sphingomonadaceae*
	Genus	*Sphingomonas*
	Species	**Sphingomonas alpina**
	Full Scientific Name (LPSN)	Sphingomonas alpina Margesin et al. 2012

Information on morphological and physiological properties Morphology

[Ref.: #30431]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.892

[Ref.: #30431]	Cell length	1.2 µm

[Ref.: #30431]	Cell width	0.7 µm

[Ref.: #30431]	Cell shape	rod-shaped

[Ref.: #30431]	Motility	yes

[Ref.: #30431]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #16384]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #16384]

Culture medium growth

[Ref.: #16384]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16384]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #16384]	growth	25 °C
[Ref.: #16384]	growth	28 °C
[Ref.: #30431]	growth	1-25 °C

[Ref.: #16384]

Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #30431]			optimum	7.5
[Ref.: #30431]			growth	06-10

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30431]

Oxygen tolerance

aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.669

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30431]		NaCl		growth	0-1	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30431]	arabinose ChEBI	+	carbon source
[Ref.: #30431]	esculin ChEBI	+	hydrolysis
[Ref.: #30431]	glucose ChEBI	+	carbon source
[Ref.: #30431]	malate ChEBI	+	carbon source
[Ref.: #30431]	maltose ChEBI	+	carbon source
[Ref.: #30431]	mannose ChEBI	+	carbon source

	Enzyme	Enzyme activity	EC number
[Ref.: #30431]	acid phosphatase	+	3.1.3.2
[Ref.: #30431]	alkaline phosphatase	+	3.1.3.1
[Ref.: #30431]	catalase	+	1.11.1.6
[Ref.: #30431]	cytochrome oxidase	+	1.9.3.1
[Ref.: #30431]	gelatinase	+

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

[Ref.: #16384]	Sample type/isolated from	alpine soil
[Ref.: #16384]	Geographic location (country and/or sea, region)	Grossglockner, Hohe Tauern
[Ref.: #16384]	Country	Austria
[Ref.: #16384]	Country ISO 3 Code	AUT
[Ref.: #16384]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Soil
#Climate	#Cold	#Alpine

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence GQ161989 (>99% sequence identity) for Sphingomonas alpina subclade from Microbeatlas

Aquatic Samples	86
Soil Samples	156
Animal Samples	163
Plant Samples	225
Total Samples	630

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

[Ref.: #16384]

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.: #16384]	Sphingomonas alpina strain S8-3 16S ribosomal RNA gene, partial sequence	GQ161989	1481	ENA	653931 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Sphingomonas alpina DSM 22537	GCA_014490665	complete	GenBank	653931 tax ID	*
[Ref.: #66792]	Sphingomonas alpina strain S8-3T strain DSM 22537	653931.5	complete	PATRIC	653931 tax ID	*
[Ref.: #66792]	Sphingomonas alpina DSM 22537	GCA_025370095	contig	GenBank	653931 tax ID	*

[Ref.: #16384]	GC-content	64.1 mol%	high performance liquid chromatography (HPLC)
[Ref.: #30431]	GC-content	64.1 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 alpina DSM 22537 NCBI: GCA_014490665.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Sphingomonas alpina DSM 22537 NCBI: GCA_014490665.1
[Ref.: #69480]	flagellated	no	87.025	no
[Ref.: #69480]	gram-positive	no	96.675	yes
[Ref.: #69480]	anaerobic	no	99.662	yes
[Ref.: #69480]	aerobic	yes	91.387	no
[Ref.: #69480]	halophile	no	93.68	yes
[Ref.: #69480]	spore-forming	no	92.745	no
[Ref.: #69480]	thermophile	no	98.983	yes
[Ref.: #69480]	glucose-util	yes	90.317	yes
[Ref.: #69480]	motile	yes	79.067	yes
[Ref.: #69480]	glucose-ferment	no	90.901	no

Availability in culture collections External links

[Ref.: #16384]

Culture collection no.

DSM 22537, LMG 26055

[Ref.: #83426]

SI-ID 370924

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Sphingomonas aliaeris sp. nov., a new species isolated from pork steak packed under modified atmosphere.	Heidler von Heilborn D, Reinmuller J, Holzl G, Meier-Kolthoff JP, Woehle C, Marek M, Huttel B, Lipski A	Int J Syst Evol Microbiol	10.1099/ijsem.0.004973	2021	*
Phylogeny	Sphingomonas qilianensis sp. nov., Isolated from Surface Soil in the Permafrost Region of Qilian Mountains, China.	Piao AL, Feng XM, Nogi Y, Han L, Li Y, Lv J	Curr Microbiol	10.1007/s00284-015-0957-9	2015	*
Phylogeny	Sphingomonas fonticola sp. nov., isolated from spring water.	Sheu SY, Chen YL, Chen WM	Int J Syst Evol Microbiol	10.1099/ijsem.0.000602	2015	*
Phylogeny	Sphingomonas alpina sp. nov., a psychrophilic bacterium isolated from alpine soil.	Margesin R, Zhang DC, Busse HJ	Int J Syst Evol Microbiol	10.1099/ijs.0.035964-0	2011	*

References

#16384

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22537

#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 )

#30431

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 #26767 (see below)

#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) .

#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 )

#83426

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-ID370924.1 )

#26767

IJSEM 1558 2012 ( DOI 10.1099/ijs.0.035964-0 , PubMed 21856979 )

* These data were automatically processed and therefore are not curated

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Sphingomonas alpina DSM 22537

Sphingomonas alpina DSM 22537

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