Nocardioides lianchengensis (DSM 24663, CGMCC 4.6858, D94-1)

Name: Nocardioides lianchengensis (DSM 24663, CGMCC 4.6858, D94-1)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 11157

Type strain

Strain Designation D94-1

Culture col. no. DSM 24663 CGMCC 4.6858 D94-1 JCM 19667

NCBI tax ID(s) 1045774

Special Collections DSMZ JCM Literature strains

Links

Nocardioides lianchengensis D94-1 is an aerobe, mesophilic, Gram-positive prokaryote that was isolated from soil.

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

Name and taxonomic classification

SI-ID 401141

DSM 24663

@ref 20215

Last LPSN update 2025-12-16 09:49:31

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Propionibacteriales

Family Nocardioidaceae

Genus Nocardioides

Species Nocardioides lianchengensis

Full scientific name Nocardioides lianchengensis Zhang et al. 2012

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility	Confidence
30466	positive	1.8 µm	0.4 µm	rod-shaped
125439	positive					99.5

Pigmentation

30466

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
17725	TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)		Medium recipe at MediaDive	Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
17725	positive	growth	28	mesophilic
30466	positive	growth	10-40
30466	positive	optimum	30	mesophilic
67770	positive	growth	28	mesophilic

Culture pH

@ref	Ability	Type	PH	PH range
30466	positive	optimum	7
30466	positive	growth	06-09	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
30466	aerobe
125439	obligate aerobe	99.1

Spore formation

30466

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30466	NaCl	positive	growth	0-4 %
30466	NaCl	positive	optimum	1 %

Observation

67770

Observationquinones: MK-8(H₄)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
30466	28644 ChEBI	2-oxopentanoate	+	carbon source
30466	30089 ChEBI	acetate	+	carbon source
30466	23652 ChEBI	dextrin	+	carbon source
30466	4853 ChEBI	esculin	+	hydrolysis
30466	28757 ChEBI	fructose	+	carbon source
30466	28260 ChEBI	galactose	+	carbon source
30466	24265 ChEBI	gluconate	+	carbon source
30466	17234 ChEBI	glucose	+	carbon source
30466	17754 ChEBI	glycerol	+	carbon source
30466	17596 ChEBI	inosine	+	carbon source
30466	24996 ChEBI	lactate	+	carbon source
30466	29864 ChEBI	mannitol	+	carbon source
30466	37684 ChEBI	mannose	+	carbon source
30466	51850 ChEBI	methyl pyruvate	+	carbon source
30466	17272 ChEBI	propionate	+	carbon source
30466	15361 ChEBI	pyruvate	+	carbon source
30466	26546 ChEBI	rhamnose	+	carbon source
30466	33942 ChEBI	ribose	+	carbon source
30466	17814 ChEBI	salicin	+	carbon source
30466	30911 ChEBI	sorbitol	+	carbon source
30466	17992 ChEBI	sucrose	+	carbon source
30466	17748 ChEBI	thymidine	+	carbon source
30466	27082 ChEBI	trehalose	+	carbon source
30466	53423 ChEBI	tween 40	+	carbon source
30466	53426 ChEBI	tween 80	+	carbon source
30466	16704 ChEBI	uridine	+	carbon source

Enzymes

@ref	Value	Activity	Ec
30466	acid phosphatase	+	3.1.3.2
30466	alkaline phosphatase	+	3.1.3.1
30466	catalase	+	1.11.1.6
30466	gelatinase	+
30466	urease	+	3.5.1.5

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	octane oxidation	100	3 of 3
66794	palmitate biosynthesis	100	22 of 22
66794	ppGpp biosynthesis	100	4 of 4
66794	methylglyoxal degradation	100	5 of 5
66794	valine metabolism	100	9 of 9
66794	lipoate biosynthesis	100	5 of 5
66794	acetate fermentation	100	4 of 4
66794	starch degradation	100	10 of 10
66794	propanol degradation	100	7 of 7
66794	molybdenum cofactor biosynthesis	100	9 of 9
66794	threonine metabolism	100	10 of 10
66794	Entner Doudoroff pathway	100	10 of 10
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	aerobactin biosynthesis	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	teichoic acid biosynthesis	100	1 of 1
66794	coenzyme A metabolism	100	4 of 4
66794	formaldehyde oxidation	100	3 of 3
66794	vitamin K metabolism	100	5 of 5
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	kanosamine biosynthesis II	100	2 of 2
66794	glycogen metabolism	100	5 of 5
66794	cellulose degradation	100	5 of 5
66794	adipate degradation	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	photosynthesis	92.86	13 of 14
66794	4-hydroxymandelate degradation	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	gluconeogenesis	87.5	7 of 8
66794	flavin biosynthesis	86.67	13 of 15
66794	glutamate and glutamine metabolism	85.71	24 of 28
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	citric acid cycle	85.71	12 of 14
66794	phenylalanine metabolism	84.62	11 of 13
66794	glycolate and glyoxylate degradation	83.33	5 of 6
66794	NAD metabolism	83.33	15 of 18
66794	pentose phosphate pathway	81.82	9 of 11
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	phenol degradation	80	16 of 20
66794	metabolism of amino sugars and derivatives	80	4 of 5
66794	4-hydroxyphenylacetate degradation	80	8 of 10
66794	3-chlorocatechol degradation	80	4 of 5
66794	peptidoglycan biosynthesis	80	12 of 15
66794	factor 420 biosynthesis	80	4 of 5
66794	propionate fermentation	80	8 of 10
66794	vitamin B12 metabolism	79.41	27 of 34
66794	alanine metabolism	79.31	23 of 29
66794	heme metabolism	78.57	11 of 14
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	d-mannose degradation	77.78	7 of 9
66794	allantoin degradation	77.78	7 of 9
66794	leucine metabolism	76.92	10 of 13
66794	urea cycle	76.92	10 of 13
66794	glycolysis	76.47	13 of 17
66794	glycogen biosynthesis	75	3 of 4
66794	butanoate fermentation	75	3 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	sulfopterin metabolism	75	3 of 4
66794	cyclohexanol degradation	75	3 of 4
66794	ketogluconate metabolism	75	6 of 8
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	isoleucine metabolism	75	6 of 8
66794	purine metabolism	74.47	70 of 94
66794	tryptophan metabolism	73.68	28 of 38
66794	pyrimidine metabolism	73.33	33 of 45
66794	metabolism of disaccharids	72.73	8 of 11
66794	glutathione metabolism	71.43	10 of 14
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	ubiquinone biosynthesis	71.43	5 of 7
66794	oxidative phosphorylation	69.23	63 of 91
66794	degradation of sugar alcohols	68.75	11 of 16
66794	androgen and estrogen metabolism	68.75	11 of 16
66794	degradation of pentoses	67.86	19 of 28
66794	lipid metabolism	67.74	21 of 31
66794	acetoin degradation	66.67	2 of 3
66794	cyanate degradation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	enterobactin biosynthesis	66.67	2 of 3
66794	cysteine metabolism	66.67	12 of 18
66794	non-pathway related	65.79	25 of 38
66794	tyrosine metabolism	64.29	9 of 14
66794	tetrahydrofolate metabolism	64.29	9 of 14
66794	degradation of sugar acids	64	16 of 25
66794	proline metabolism	63.64	7 of 11
66794	d-xylose degradation	63.64	7 of 11
66794	arginine metabolism	62.5	15 of 24
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	histidine metabolism	62.07	18 of 29
66794	gallate degradation	60	3 of 5
66794	ascorbate metabolism	59.09	13 of 22
66794	bile acid biosynthesis, neutral pathway	58.82	10 of 17
66794	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
66794	methionine metabolism	57.69	15 of 26
66794	isoprenoid biosynthesis	57.69	15 of 26
66794	aclacinomycin biosynthesis	57.14	4 of 7
66794	lysine metabolism	57.14	24 of 42
66794	polyamine pathway	56.52	13 of 23
66794	aspartate and asparagine metabolism	55.56	5 of 9
66794	degradation of hexoses	55.56	10 of 18
66794	cholesterol biosynthesis	54.55	6 of 11
66794	sulfate reduction	53.85	7 of 13
66794	phosphatidylethanolamine bioynthesis	53.85	7 of 13
66794	3-phenylpropionate degradation	53.33	8 of 15
66794	pantothenate biosynthesis	50	3 of 6
66794	toluene degradation	50	2 of 4
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	lactate fermentation	50	2 of 4
66794	carnitine metabolism	50	4 of 8
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	selenocysteine biosynthesis	50	3 of 6
66794	quinate degradation	50	1 of 2
66794	phenylmercury acetate degradation	50	1 of 2
66794	resorcinol degradation	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	myo-inositol biosynthesis	50	5 of 10
66794	ethanol fermentation	50	1 of 2
66794	vitamin B6 metabolism	45.45	5 of 11
66794	lipid A biosynthesis	44.44	4 of 9
66794	nitrate assimilation	44.44	4 of 9
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	glycine betaine biosynthesis	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	coenzyme M biosynthesis	40	4 of 10
66794	D-cycloserine biosynthesis	40	2 of 5
66794	vitamin B1 metabolism	38.46	5 of 13
66794	IAA biosynthesis	33.33	1 of 3
66794	sulfoquinovose degradation	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	arachidonic acid metabolism	33.33	6 of 18
66794	sphingosine metabolism	33.33	2 of 6
66794	carotenoid biosynthesis	31.82	7 of 22
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	mevalonate metabolism	28.57	2 of 7
66794	chlorophyll metabolism	27.78	5 of 18
66794	biotin biosynthesis	25	1 of 4
66794	CMP-KDO biosynthesis	25	1 of 4
66794	alginate biosynthesis	25	1 of 4

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
17725	soil	Fujian province, Liancheng county	China	CHN	Asia
67770	Soil from Liancheng County	Fujian Province	China	CHN	Asia

Taxonmaps

69479

Global distribution of 16S sequence HQ657322 (>99% sequence identity) for Nocardioides lianchengensis subclade from Microbeatlas

Aquatic Samples	144
Soil Samples	80
Animal Samples	81
Plant Samples	411
Total Samples	716

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
17725	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM1340922v1 assembly for Nocardioides lianchengensis CGMCC 4.6858	contig	GCA_013409225	1045774.5	2844625742	1045774	78.01
67770	IMG-taxon 2675903056 annotated assembly for Nocardioides lianchengensis CGMCC 4.6858	scaffold	GCA_900101465	1045774.4	2675903056	1045774	70.85

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
17725	Nocardioides lianchengensis strain D94-1 16S ribosomal RNA gene, partial sequence	HQ657322	1487		1045774

GC content

@ref	GC-content (mol%)	Method
17725	71.8	thermal denaturation, midpoint method (Tm)
30466	71.8

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Nocardioides lianchengensis CGMCC 4.6858
NCBI: GCA_900101465

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.10	no
125439	gram_stain	BacteriaNetⓘ	positive	99.50	no
125439	motility	BacteriaNetⓘ	no	71.20	no
125439	spore_formation	BacteriaNetⓘ	yes	63.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Nocardioides lianchengensis strain CGMCC 4.6858
PATRIC: 1045774.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	84.68	yes
125438	anaerobic	anaerobicⓘ	no	97.38	no
125438	spore-forming	spore-formingⓘ	yes	56.70	no
125438	aerobic	aerobicⓘ	yes	87.57	no
125438	thermophilic	thermophileⓘ	no	96.99	no
125438	flagellated	motile2+ⓘ	no	61.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Nocardioides antarcticus sp. nov., isolated from marine sediment.	Deng S, Chang X, Zhang Y, Ren L, Jiang F, Qu Z, Peng F	Int J Syst Evol Microbiol	10.1099/ijs.0.000309	2015
Phylogeny	Nocardioides lianchengensis sp. nov., an actinomycete isolated from soil.	Zhang J, Ma Y, Yu H	Int J Syst Evol Microbiol	10.1099/ijs.0.036723-0	2012

References

#17725	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 24663
#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 )
#30466	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 #26801 (see below)
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#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 .
#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 )

Rate our new design

Content

About us

Nocardioides lianchengensis (DSM 24663, CGMCC 4.6858, D94-1)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Enzymes

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_013409225

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

Social Media