Name: Sphingomonas ginsenosidimutans CIP 110393
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 134422

Type strain:

Species: Sphingomonas ginsenosidimutans

Culture col. no.: CIP 110393, JCM 17074, KACC 14949, LMG 25799, Gsoil 1429

Strain history: CIP <- 2012, JCM <- 2010, W.T. Im: strain Gsoil 1429

NCBI tax ID(s): 862134 (species)

SI-ID 369866

LMG 25799, JCM 17074, KACC 14949, CIP 110393, DSM 26617

Other strains from Sphingomonas ginsenosidimutans

S. ginsenosidimutans CCUG 60876

Section

Sphingomonas ginsenosidimutans CIP 110393 is a mesophilic, Gram-negative bacterium of the family Sphingomonadaceae.

Gram-negative
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 ginsenosidimutans**
	Full Scientific Name (LPSN)	Sphingomonas ginsenosidimutans Choi et al. 2011

Information on morphological and physiological properties Morphology

[Ref.: #32732]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.979

[Ref.: #32732]	Cell shape	rod-shaped

[Ref.: #32732]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #32732]

Culture medium

MEDIUM 464 - for Citricoccus muralis

[Ref.: #32732]

Culture medium growth

[Ref.: #32732]

Culture medium composition

expand / minimize

[Ref.: #32732]

Culture medium

CIP Medium 464

[Ref.: #32732]

Culture medium growth

[Ref.: #32732]

Culture medium link

Medium recipe provided by DSMZ

	Temperatures	Kind of temperature		Temperature
[Ref.: #32732]			growth	30 °C
[Ref.: #67770]			growth	30 °C

[Ref.: #32732]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]

Ability of spore formation

no Confidence in %99.999

[Ref.: #67770]

Observation

quinones: Q-10

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

[Ref.: #67770]	Sample type/isolated from	Soil of a ginseng cultivating field of Pocheon Province
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia

[Ref.: #32732]	Sample type/isolated from	Environment, Soil of a ginseng cultivating field
[Ref.: #32732]	Geographic location (country and/or sea, region)	Pocheon
[Ref.: #32732]	Country	Republic of Korea
[Ref.: #32732]	Country ISO 3 Code	KOR
[Ref.: #32732]	Continent	Asia

[Ref.: #32732]	Geographic location (country and/or sea, region)	Pocheon province
[Ref.: #32732]	Country	Republic of Korea
[Ref.: #32732]	Country ISO 3 Code	KOR
[Ref.: #32732]	Continent	Asia
* marker position based on {}

[Ref.: #69479]

Global distribution of 16S sequence HM204925 (>99% sequence identity) for Sphingomonas from Microbeatlas

Aquatic Samples	67
Soil Samples	19
Animal Samples	216
Plant Samples	39
Total Samples	341

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

[Ref.: #32732]

Biosafety level

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.: #67770]	Sphingomonas ginsenosidimutans strain Gsoil 1429 16S ribosomal RNA gene, partial sequence	HM204925	1439	ENA	862134 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Sphingomonas ginsenosidimutans KACC 14949	GCA_002374835	contig	GenBank	862134 tax ID
[Ref.: #66792]	Sphingomonas ginsenosidimutans strain KACC 14949	862134.4	wgs	PATRIC	862134 tax ID	*
[Ref.: #66792]	Sphingomonas ginsenosidimutans KACC 14949	2903810532	draft	JGI IMG/M	862134 tax ID	*

[Ref.: #67770]

GC-content

65.6 mol%

high performance liquid chromatography (HPLC)

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 ginsenosidimutans strain KACC 14949 PATRIC: 862134.7
[Ref.: #69481]	spore-forming	no	83	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Sphingomonas ginsenosidimutans strain KACC 14949 PATRIC: 862134.4
[Ref.: #69480]	motile	yes	71.993	no
[Ref.: #69480]	flagellated	no	86.762	no
[Ref.: #69480]	gram-positive	no	96.402	no
[Ref.: #69480]	anaerobic	no	99.053	no
[Ref.: #69480]	halophile	no	91.567	no
[Ref.: #69480]	spore-forming	no	94.12	no
[Ref.: #69480]	glucose-util	yes	88.403	no
[Ref.: #69480]	aerobic	yes	93.506	no
[Ref.: #69480]	thermophile	no	97.963	yes
[Ref.: #69480]	glucose-ferment	no	91.45	no

Availability in culture collections External links

[Ref.: #32732]

Culture collection no.

CIP 110393, JCM 17074, KACC 14949, LMG 25799, Gsoil 1429

[Ref.: #91948]

SI-ID 369866

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Sphingomonas gilva sp. nov., isolated from mountain soil.	Zhu D, Niu Y, Liu D, Wang G, Zheng S	Int J Syst Evol Microbiol	10.1099/ijsem.0.003645	2019	*
Phylogeny	Sphingomonas aracearum sp. nov., isolated from rhizospheric soil of Araceae plants.	Wang Z, Zeng Q, Fang Z, Zhu D, Xu D, Wang G, Zheng S	Int J Syst Evol Microbiol	10.1099/ijsem.0.003477	2019	*
Phylogeny	Sphingomonas ginsenosidimutans sp. nov., with ginsenoside converting activity.	Choi TE, Liu QM, Yang JE, Sun S, Kim SY, Yi TH, Im WT	J Microbiol	10.1007/s12275-010-0469-z	2011	*

References

#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 )

#32732 Collection of Institut Pasteur ; Curators of the CIP; CIP 110393

#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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 )

#91948

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-ID369866.1 )

* These data were automatically processed and therefore are not curated

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Sphingomonas ginsenosidimutans strain KACC 14949

Sphingomonas ginsenosidimutans strain KACC 14949

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