Name: Nocardioides ginsengisegetis DSM 21349
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 24249

Type strain:

Species: Nocardioides ginsengisegetis

Culture col. no.: DSM 21349, KACC 14269, KCTC 19469, Gsoil 485, JCM 32750

Strain history: KACC 14269 <-- W.-T. Im; Kyung Hee Univ., South Korea; Gsoil 485.

NCBI tax ID(s): 661491 (species)

SI-ID 400280

DSM 21349

Section

Nocardioides ginsengisegetis DSM 21349 is a mesophilic, Gram-positive bacterium that was isolated from soil of a ginseng field.

Gram-positive
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	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Propionibacteriales*
	Family	*Nocardioidaceae*
	Genus	*Nocardioides*
	Species	**Nocardioides ginsengisegetis**
	Full Scientific Name (LPSN)	Nocardioides ginsengisegetis Im et al. 2011

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %100

Information on culture and growth conditions Culture and growth conditions

[Ref.: #20682]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #20682]

Culture medium growth

[Ref.: #20682]

Culture medium link

Medium recipe at MediaDive

[Ref.: #20682]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #20682]			growth	28 °C
[Ref.: #67770]			growth	28 °C

[Ref.: #20682]	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 %99.576

[Ref.: #67770]

Observation

quinones: MK-8(H₄)

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

[Ref.: #20682]	Sample type/isolated from	soil of a ginseng field
[Ref.: #20682]	Geographic location (country and/or sea, region)	Pocheon Province
[Ref.: #20682]	Country	Republic of Korea
[Ref.: #20682]	Country ISO 3 Code	KOR
[Ref.: #20682]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Soil of a ginseng field of Pocheon Province
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

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

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence GQ339901 (>99% sequence identity) for Nocardioides ginsengisegetis subclade from Microbeatlas

Aquatic Samples	520
Soil Samples	4145
Animal Samples	319
Plant Samples	1470
Total Samples	6454

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

[Ref.: #20682]

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.: #20682]	Nocardioides ginsengisegetis strain Gsoil 485 16S ribosomal RNA gene, partial sequence	GQ339901	1426	ENA	661491 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Nocardioides ginsengisegetis DSM 21349	GCA_014138045	contig	GenBank	661491 tax ID	*
[Ref.: #66792]	Nocardioides ginsengisegetis strain DSM 21349	661491.3	wgs	PATRIC	661491 tax ID	*
[Ref.: #66792]	Nocardioides ginsengisegetis DSM 21349	2821005819	draft	JGI IMG/M	661491 tax ID	*

[Ref.: #20682]

GC-content

71.6 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: Nocardioides ginsengisegetis strain DSM 21349 PATRIC: 661491.3
[Ref.: #69481]	spore-forming	no	61	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Nocardioides ginsengisegetis strain DSM 21349 PATRIC: 661491.3
[Ref.: #69480]	gram-positive	yes	90.749	no
[Ref.: #69480]	anaerobic	no	98.725	no
[Ref.: #69480]	halophile	no	96.38	no
[Ref.: #69480]	spore-forming	no	88.28	no
[Ref.: #69480]	glucose-util	yes	87.091	no
[Ref.: #69480]	thermophile	no	97.124	yes
[Ref.: #69480]	flagellated	no	96.155	no
[Ref.: #69480]	motile	no	81.794	no
[Ref.: #69480]	aerobic	yes	93.15	no
[Ref.: #69480]	glucose-ferment	no	89.109	no

Availability in culture collections External links

[Ref.: #20682]

Culture collection no.

DSM 21349, KACC 14269, KCTC 19469, Gsoil 485, JCM 32750

[Ref.: #88191]

SI-ID 400280

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Nocardioides ungokensis sp. nov., isolated from lake sediment.	Zhao Y, Liu Q, Kang MS, Jin F, Yu H, Im WT	Int J Syst Evol Microbiol	10.1099/ijsem.0.000657	2015	*
Phylogeny	Nocardioides ginsengisegetis sp. nov., isolated from soil of a ginseng field.	Im WT, Kim SY, Liu QM, Yang JE, Lee ST, Yi TH	J Microbiol	10.1007/s12275-010-0001-5	2010	*
Phylogeny	Nocardioides perillae sp. nov., isolated from surface-sterilized roots of Perilla frutescens.	Du HJ, Wei YZ, Su J, Liu HY, Ma BP, Guo BL, Zhang YQ, Yu LY	Int J Syst Evol Microbiol	10.1099/ijs.0.044982-0	2012	*

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 )

#20682

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21349

#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 )

#88191

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-ID400280.1 )

* These data were automatically processed and therefore are not curated

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Nocardioides ginsengisegetis strain DSM 21349

Nocardioides ginsengisegetis strain DSM 21349

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