Sphingomonas glacialis (DSM 22294, CGMCC 1.8957, CIP 11013)

Name: Sphingomonas glacialis (DSM 22294, CGMCC 1.8957, CIP 11013)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 14263

Type strain

Strain Designation C16y

Culture col. no. DSM 22294 CGMCC 1.8957 CIP 11013 C16y CIP 110131

NCBI tax ID(s) 658225

Special Collections DSMZ CIP Literature strains

Links

Sphingomonas glacialis C16y is an aerobe, psychrophilic, Gram-negative prokaryote that was isolated from alpine glacier cryoconite.

Gram-negative rod-shaped aerobe psychrophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 376157

CGMCC 1.8957,CIP 11013,DSM 22294,CIP 110131

@ref 20215

Last LPSN update 2025-12-16 09:50:18

Domain Pseudomonadati

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Sphingomonadales

Family Sphingomonadaceae

Genus Sphingomonas

Species Sphingomonas glacialis

Full scientific name Sphingomonas glacialis Zhang et al. 2011

Synonyms (1)

Parasphingomonas glacialis

BacDive ID	Other strains from **Sphingomonas glacialis** (1)	Type strain
175312	S. glacialis DSM 111157, CCUG 74776, AAP 5

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape
29865	negative	0.8 µm	0.5 µm	rod-shaped
119632	negative
125439	negative
125438	negative

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
16250	NUTRIENT AGAR (DSMZ Medium 1)	Medium recipe at MediaDive	Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
37922	MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromati		Distilled water make up to (1000.000 ml);R2A agar (18.200 g)
119632	CIP Medium 566	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
16250	positive	growth	22	psychrophilic
29865	positive	growth	01-25
37922	positive	growth	25	mesophilic

Culture pH

@ref	Ability	Type	PH
29865	positive	growth	07-08

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
29865	aerobe
125439	obligate aerobe

Spore formation

@ref	Spore formation
29865
125439

Halophily

@ref	Salt	Growth	Tested relation	Concentration
29865	NaCl	positive	growth	0-1 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68369	17128 ChEBI	adipate	+	assimilation	from API 20NE
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
68369	17634 ChEBI	D-glucose	+	assimilation	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
68369	16899 ChEBI	D-mannitol	-	assimilation	from API 20NE
68369	16024 ChEBI	D-mannose	+	assimilation	from API 20NE
68369	27689 ChEBI	decanoate	-	assimilation	from API 20NE
29865	4853 ChEBI	esculin	+	hydrolysis
68369	4853 ChEBI	esculin	-	hydrolysis	from API 20NE
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
29865	24265 ChEBI	gluconate	+	carbon source
68369	24265 ChEBI	gluconate	-	assimilation	from API 20NE
29865	17234 ChEBI	glucose	+	carbon source
68369	30849 ChEBI	L-arabinose	+	assimilation	from API 20NE
68369	25115 ChEBI	malate	-	assimilation	from API 20NE
29865	15792 ChEBI	malonate	+	carbon source
29865	17306 ChEBI	maltose	+	carbon source
68369	17306 ChEBI	maltose	+	assimilation	from API 20NE
68369	59640 ChEBI	N-acetylglucosamine	+	assimilation	from API 20NE
119632	17632 ChEBI	nitrate	-	reduction
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
119632	16301 ChEBI	nitrite	-	reduction
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68369	35581 ChEBI	indole		from API 20NE
119632	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68369	35581 ChEBI	indole	-	from API 20NE

Enzymes

@ref	Value	Activity	Ec
29865	acid phosphatase	+	3.1.3.2
68382	acid phosphatase	+	3.1.3.2	from API zym
29865	alkaline phosphatase	+	3.1.3.1
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68382	beta-galactosidase	-	3.2.1.23	from API zym
68382	beta-glucosidase	+	3.2.1.21	from API zym
68369	beta-glucosidase	-	3.2.1.21	from API 20NE
68382	beta-glucuronidase	+	3.2.1.31	from API zym
29865	catalase	+	1.11.1.6
119632	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
29865	cytochrome oxidase	+	1.9.3.1
68369	cytochrome oxidase	+	1.9.3.1	from API 20NE
68382	esterase (C 4)	-		from API zym
68382	esterase lipase (C 8)	+		from API zym
29865	gelatinase	+
68369	gelatinase	-		from API 20NE
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
119632	oxidase	-
68382	trypsin	-	3.4.21.4	from API zym
119632	urease	-	3.5.1.5
68369	urease	-	3.5.1.5	from API 20NE
68382	valine arylamidase	+		from API zym

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
119632	-	+	-	+	-	+	+	-	-	-	+	+	-	-	+	+	+	-	-	-

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
16250	-	-	-	-	-	-	-	-	+	+	+	-	+	+	-	-	+	-	-	-	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Glacier
#Condition	#Psychrophilic (<10°C)	-
#Climate	#Cold	#Alpine
#Environmental	#Terrestrial	#Geologic

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
16250	alpine glacier cryoconite	Tyrol, Stubai Glacier near Innsbruck at an altitude of 2900 m	Austria	AUT	Europe
119632	Alpine glacier cryoconite	Stubai Glacier near Innsbruck , Tyrol	Austria	AUT	Europe

Taxonmaps

69479

Global distribution of 16S sequence GQ253122 (>99% sequence identity) for Sphingomonas glacialis from Microbeatlas

Aquatic Samples	78
Soil Samples	42
Animal Samples	509
Plant Samples	10
Total Samples	639

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
16250	1	Risk group (German classification) According to TRBA 466
119632	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM1465357v1 assembly for Sphingomonas glacialis CGMCC 1.8957	scaffold	GCA_014653575	658225.5	8109885692	658225	64.44

Genome browser: GCA_014653575

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
16250	Sphingomonas glacialis strain C16y 16S ribosomal RNA gene, partial sequence	GQ253122	1477		658225

GC content

@ref	GC-content (mol%)	Method
16250	67.9	thermal denaturation, midpoint method (Tm)
29865	67.9

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Sphingomonas glacialis CGMCC 1.8957
NCBI: GCA_014653575

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	95.80	no
125439	motility	BacteriaNetⓘ	yes	59.60	no
125439	gram_stain	BacteriaNetⓘ	negative	98.00	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.30	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Sphingomonas glacialis CGMCC 1.8957
NCBI: GCA_014653575.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	93.21	no
125438	anaerobic	anaerobicⓘ	no	94.09	no
125438	aerobic	aerobicⓘ	yes	89.37	yes
125438	spore-forming	spore-formingⓘ	no	87.04	yes
125438	thermophilic	thermophileⓘ	no	97.84	yes
125438	flagellated	motile2+ⓘ	yes	70.12	no

Literature

Topic	Title	Authors	Journal	DOI	Year
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 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 glacialis sp. nov., a psychrophilic bacterium isolated from alpine glacier cryoconite.	Zhang DC, Busse HJ, Liu HC, Zhou YG, Schinner F, Margesin R	Int J Syst Evol Microbiol	10.1099/ijs.0.023135-0	2010

References

#16250	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22294
#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 )
#29865	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 #26239 (see below)
#37922	; Curators of the CIP;
#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 .
#119632	Collection of Institut Pasteur ; Curators of the CIP; CIP 110131
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Sphingomonas glacialis (DSM 22294, CGMCC 1.8957, CIP 11013)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API zym

API 20NE

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_014653575

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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