Sphingopyxis panaciterrulae (DSM 25122, JCM 14844, KCTC 22112)

Name: Sphingopyxis panaciterrulae (DSM 25122, JCM 14844, KCTC 22112)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 14286

Type strain

Culture col. no. DSM 25122 JCM 14844 KCTC 22112 DCY 34

NCBI tax ID(s) 462372

Special Collections DSMZ JCM KCTC Literature strains

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Sphingopyxis panaciterrulae DSM 25122 is an aerobe, mesophilic, Gram-negative prokaryote that was isolated from soil of ginseng field.

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

Name and taxonomic classification

SI-ID 370985

JCM14844,KCTC 22112,DSM 25122

@ref 20215

Last LPSN update 2025-12-16 09:50:19

Domain Pseudomonadati

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Sphingomonadales

Family Sphingomonadaceae

Genus Sphingopyxis

Species Sphingopyxis panaciterrulae

Full scientific name Sphingopyxis panaciterrulae Srinivasan et al. 2010

BacDive ID	Other strains from **Sphingopyxis panaciterrulae** (1)	Type strain
23282	S. panaciterrulae DSM 27163, DCY 34

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility
29718	negative	0.3-0.9 µm	0.2-0.5 µm	rod-shaped
67771	negative

Pigmentation

29718

Productionyes

Multimedia

@ref:	17913
multimedia content:	DSM_25122.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_25122.jpg
caption:	cells of DSM 25122 on medium 535 at 28 °C
intellectual property rights:	Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
17913	TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)	Medium recipe at MediaDive	Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
17913	R2A MEDIUM (DSMZ Medium 830)	Medium recipe at MediaDive	Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
17913	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
17913	TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)	Medium recipe at MediaDive	Name: TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545) Composition: Casein peptone 17.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l D(+)-Glucose 2.5 g/l K2HPO4 2.5 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
17913	positive	growth	28	mesophilic
29718	positive	growth	25-37	mesophilic
29718	positive	optimum	25-30	mesophilic
67771	positive	growth	30	mesophilic

Culture pH

@ref	Ability	Type	PH	PH range
29718	positive	optimum	07-08
29718	positive	growth	05-10	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
29718	aerobe
67771	aerobe

Observation

@ref	Observation
29718	aggregates in chains
67771	quinones: Q-8

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
29718	4853 ChEBI	esculin	+	hydrolysis
29718	17234 ChEBI	glucose	+	carbon source
29718	25115 ChEBI	malate	+	carbon source
29718	17306 ChEBI	maltose	+	carbon source
29718	506227 ChEBI	N-acetylglucosamine	+	carbon source
29718	26546 ChEBI	rhamnose	+	carbon source
29718	17992 ChEBI	sucrose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
29718	acid phosphatase	+	3.1.3.2
29718	alkaline phosphatase	+	3.1.3.1
29718	catalase	+	1.11.1.6
29718	cytochrome oxidase	+	1.9.3.1

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Agriculture	#Field
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
17913	soil of ginseng field	Daejeon	Republic of Korea	KOR	Asia
67771	From soil, ginseng field		Republic of Korea	KOR	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
17913	1	Risk group (German classification) According to TRBA 466

Sequence information

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
17913	Sphingopyxis panaciterrulae strain DCY34 16S ribosomal RNA gene, partial sequence	EU075217	1432		462372

GC content

@ref	GC-content (mol%)	Method
17913	62.3	high performance liquid chromatography (HPLC)
29718	62.3
67771	62.32

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
	Screening for Microbial Metal-Chelating Siderophores for the Removal of Metal Ions from Solutions.	Hofmann M, Heine T, Malik L, Hofmann S, Joffroy K, Senges CHR, Bandow JE, Tischler D.	Microorganisms	10.3390/microorganisms9010111	2021
Phylogeny	Sphingopyxis jiangsuensis sp. nov. Isolated From the Surface Water of the Yellow Sea.	Gao ZY, Xue HP, Wang L, Yao Y, Zhang DF, Huang J, Liu C, Zhang AH	Curr Microbiol	10.1007/s00284-022-02895-5	2022
Phylogeny	Sphingopyxis flava sp. nov., isolated from a hexachlorocyclohexane (HCH)-contaminated soil.	Verma H, Rani P, Kumar Singh A, Kumar R, Dwivedi V, Negi V, Lal R	Int J Syst Evol Microbiol	10.1099/ijsem.0.000482	2015
Phylogeny	Sphingopyxis italica sp. nov., isolated from Roman catacombs.	Alias-Villegas C, Jurado V, Laiz L, Saiz-Jimenez C	Int J Syst Evol Microbiol	10.1099/ijs.0.046573-0	2012
Phylogeny	Sphingopyxis indica sp. nov., isolated from a high dose point hexachlorocyclohexane (HCH)-contaminated dumpsite.	Jindal S, Dua A, Lal R	Int J Syst Evol Microbiol	10.1099/ijs.0.040840-0	2012
Phylogeny	Sphingopyxis panaciterrulae sp. nov., isolated from soil of a ginseng field.	Srinivasan S, Kim MK, Sathiyaraj G, Veena V, Mahalakshmi M, Kalaiselvi S, Kim YJ, Yang DC	Int J Syst Evol Microbiol	10.1099/ijs.0.019414-0	2009
Phylogeny	Sphingopyxis lutea sp. nov., a novel moderately halotolerant bacterium isolated from pebbles.	Chhetri G, Kim I, Seo T	Arch Microbiol	10.1007/s00203-022-03042-1	2022

References

#17913	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25122
#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 )
#29718	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 #26101 (see below)
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#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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Sphingopyxis panaciterrulae (DSM 25122, JCM 14844, KCTC 22112)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Observation

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

16S sequences

GC content

Genome-based predictions

Literature

Literature

References

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