Nocardioides hankookensis (DSM 21479, CCUG 54522, KCTC 19246)

Name: Nocardioides hankookensis (DSM 21479, CCUG 54522, KCTC 19246)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 11133

Type strain

Strain Designation DS-30

Culture col. no. DSM 21479 CCUG 54522 KCTC 19246 DS-30 JCM 15302

NCBI tax ID(s) 443157

Special Collections DSMZ CCUG JCM KCTC Literature strains

History DSMZ <- CCUG <- J. H. Yoon, KRIBB, Taejon, South Korea; DS-30 JCM <-- CCUG 54522 <-- J.-H. Yoon DS-30. KCTC <- JH Yoon, KRIBB

Links

Nocardioides hankookensis DS-30 is an aerobe, Gram-positive, rod-shaped bacterium that was isolated from soil.

Gram-positive rod-shaped aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 323980

CCUG 54522,KCTC 19246,JCM 15302,DSM 21479

@ref 20215

Last LPSN update 2026-05-29 08:27:29

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Propionibacteriales

Family Nocardioidaceae

Genus Nocardioides

Species Nocardioides hankookensis

Full scientific name Nocardioides hankookensis Yoon et al. 2008

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
32290	positive	5.75 µm	0.6 µm	rod-shaped
67771	positive
125439	positive				99.296

Colony morphology

60212

Incubation period27 days

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
15730	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
15730	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

Culture temp

@ref	Growth	Type	Temperature (°C)
15730	positive	growth	28
32290	positive	growth	10-34
60212	positive	growth	30
67770	positive	growth	28
67771	positive	growth	30

Culture pH

@ref	Ability	Type	PH
32290	positive	optimum	6.5
32290	positive	growth	5.5-8

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
32290	aerobe
60212	aerobe
67771	aerobe
125439	obligate aerobe	98.541

Spore formation

32290

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
32290	NaCl	positive	growth	0-2 %
32290	NaCl	positive	optimum	0.25 %

Observation

67770

Observationquinones: MK-8(H₄)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
32290	17128 ChEBI	adipate	+	carbon source
32290	22599 ChEBI	arabinose	+	carbon source
32290	28260 ChEBI	galactose	+	carbon source
32290	24265 ChEBI	gluconate	+	carbon source
32290	25115 ChEBI	malate	+	carbon source
32290	29864 ChEBI	mannitol	+	carbon source
32290	28053 ChEBI	melibiose	+	carbon source
32290	26546 ChEBI	rhamnose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
32290	alkaline phosphatase	+	3.1.3.1
32290	cytochrome oxidase	+	1.9.3.1

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent
15730	soil		Dokdo	Republic of Korea	KOR	Asia
60212	Soil	2004-05-01	Dokdo	Republic of Korea	KOR	Asia
67770	Soil
67771	From soil		Dokdo	Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence EF555584 (>99% sequence identity) for Nocardioides hankookensis from Microbeatlas

Aquatic Samples	164
Soil Samples	1533
Animal Samples	673
Plant Samples	55
Total Samples	2425

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
15730	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	NCBI tax ID	Score
124043	ASM4265888v1 assembly for Nocardioides hankookensis CCUG 54522	contig	GCA_042658885	443157	76.56
124043	ASM3953086v1 assembly for Nocardioides hankookensis JCM 15302	scaffold	GCA_039530865	443157	31.8

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
15730	Nocardioides hankookensis strain DS-30 16S ribosomal RNA gene, partial sequence	EF555584	1447		443157

GC content

@ref	GC-content (mol%)	Method
15730	71.3
67770	71.3	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM4265888v1 assembly for Nocardioides hankookensis CCUG 54522
NCBI: GCA_042658885

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.54	no
125439	gram_stain	BacteriaNetⓘ	positive	99.30	no
125439	motility	BacteriaNetⓘ	no	81.01	no
125439	spore_formation	BacteriaNetⓘ	no	80.06	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Nocardioides intraradicalis sp. nov., isolated from the roots of Psammosilene tunicoides W. C. Wu et C. Y. Wu.	Huang MJ, Huang HQ, Salam N, Xiao M, Duan YQ, Kim CJ, Li QQ, Chen W, Li WJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.001274	2016
Phylogeny	Nocardioides soli sp. nov., a carbendazim-degrading bacterium isolated from soil under the long-term application of carbendazim.	Sun LN, Zhang J, Gong FF, Wang X, Hu G, Li SP, Hong Q	Int J Syst Evol Microbiol	10.1099/ijs.0.057935-0	2014
Phylogeny	Nocardioides endophyticus sp. nov. and Nocardioides conyzicola sp. nov., isolated from herbaceous plant roots.	Han JH, Kim TS, Joung Y, Kim MN, Shin KS, Bae T, Kim SB	Int J Syst Evol Microbiol	10.1099/ijs.0.054619-0	2013
Phylogeny	Nocardioides caricicola sp. nov., an endophytic bacterium isolated from a halophyte, Carex scabrifolia Steud.	Song GC, Yasir M, Bibi F, Chung EJ, Jeon CO, Chung YR	Int J Syst Evol Microbiol	10.1099/ijs.0.019919-0	2010
Phylogeny	Nocardioides hankookensis sp. nov., isolated from soil.	Yoon JH, Kang SJ, Lee MH, Oh TK	Int J Syst Evol Microbiol	10.1099/ijs.0.65267-0	2008

References

#15730	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21479
#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 )
#28530	IJSEM 434 2008 ( DOI 10.1099/ijs.0.65267-0 , PubMed 18218945 )
#32290	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 #28530
#60212	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 54522
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#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 .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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 )

Content

About us

Nocardioides hankookensis (DSM 21479, CCUG 54522, KCTC 19246)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_042658885

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

Social Media