Nocardioides szechwanensis (DSM 27403, CGMCC 1.11147, NBRC 108562)

Name: Nocardioides szechwanensis (DSM 27403, CGMCC 1.11147, NBRC 108562)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 24250

Type strain

Strain Designation RHLT1-17

Culture col. no. DSM 27403 CGMCC 1.11147 NBRC 108562 RHLT1-17 JCM 19669

NCBI tax ID(s) 1005944

Special Collections DSMZ JCM Literature strains

History <- NBRC; NBRC 108562 CGMCC 1.11147 <-- Q. Liu et al. RHLT₁-17.

Links

Nocardioides szechwanensis RHLT1-17 is an aerobe, psychrophilic, Gram-positive prokaryote that was isolated from soil collected at Hailuogou glacier.

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

Name and taxonomic classification

SI-ID 398597

NBRC 108562,DSM 27403

@ref 20215

Last LPSN update 2026-02-09 11:23:56

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Propionibacteriales

Family Nocardioidaceae

Genus Nocardioides

Species Nocardioides szechwanensis

Full scientific name Nocardioides szechwanensis Liu et al. 2013

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
30526	positive	1.31 µm	0.8 µm	rod-shaped
125438					92.1
125438	positive				91.394
125439	positive				98.3

Colony morphology

20683

Incubation period3-7 days

Pigmentation

30526

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
20683	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

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
20683	positive	growth	20	psychrophilic
30526	positive	growth	0-35
30526	positive	optimum	17.5	psychrophilic
67770	positive	growth	20	psychrophilic

Culture pH

@ref	Ability	Type	PH	PH range
30526	positive	optimum	8.75
30526	positive	growth	6.5-11	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
30526	aerobe
125438	aerobe	90.571
125439	obligate aerobe	98.1

Spore formation

30526

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30526	NaCl	positive	growth	0-1 %
30526	NaCl	positive	optimum	0.5 %

Observation

67770

Observationquinones: MK-8(H₄)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
30526	17057 ChEBI	cellobiose	+	carbon source
30526	28757 ChEBI	fructose	+	carbon source
30526	17234 ChEBI	glucose	+	carbon source
30526	29864 ChEBI	mannitol	+	carbon source
30526	37684 ChEBI	mannose	+	carbon source
30526	17632 ChEBI	nitrate	+	reduction
30526	26546 ChEBI	rhamnose	+	carbon source
30526	17992 ChEBI	sucrose	+	carbon source
30526	27082 ChEBI	trehalose	+	carbon source
30526	18222 ChEBI	xylose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
30526	alkaline phosphatase	+	3.1.3.1
30526	gelatinase	+

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	cellulose degradation	100	5 of 5
66794	palmitate biosynthesis	100	22 of 22
66794	formaldehyde oxidation	100	3 of 3
66794	coenzyme A metabolism	100	4 of 4
66794	vitamin E metabolism	100	4 of 4
66794	methylglyoxal degradation	100	5 of 5
66794	cyanate degradation	100	3 of 3
66794	vitamin K metabolism	100	5 of 5
66794	starch degradation	100	10 of 10
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	biotin biosynthesis	100	4 of 4
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	adipate degradation	100	2 of 2
66794	octane oxidation	100	3 of 3
66794	teichoic acid biosynthesis	100	1 of 1
66794	acetoin degradation	100	3 of 3
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	valine metabolism	100	9 of 9
66794	folate polyglutamylation	100	1 of 1
66794	aerobactin biosynthesis	100	1 of 1
66794	ppGpp biosynthesis	100	4 of 4
66794	ceramide biosynthesis	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	denitrification	100	2 of 2
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	pentose phosphate pathway	90.91	10 of 11
66794	chorismate metabolism	88.89	8 of 9
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	isoleucine metabolism	87.5	7 of 8
66794	propanol degradation	85.71	6 of 7
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	citric acid cycle	85.71	12 of 14
66794	urea cycle	84.62	11 of 13
66794	phenylalanine metabolism	84.62	11 of 13
66794	glycolate and glyoxylate degradation	83.33	5 of 6
66794	glycolysis	82.35	14 of 17
66794	glutamate and glutamine metabolism	82.14	23 of 28
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	threonine metabolism	80	8 of 10
66794	flavin biosynthesis	80	12 of 15
66794	factor 420 biosynthesis	80	4 of 5
66794	propionate fermentation	80	8 of 10
66794	peptidoglycan biosynthesis	80	12 of 15
66794	glycogen metabolism	80	4 of 5
66794	alanine metabolism	79.31	23 of 29
66794	photosynthesis	78.57	11 of 14
66794	heme metabolism	78.57	11 of 14
66794	d-mannose degradation	77.78	7 of 9
66794	NAD metabolism	77.78	14 of 18
66794	serine metabolism	77.78	7 of 9
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	leucine metabolism	76.92	10 of 13
66794	purine metabolism	76.6	72 of 94
66794	butanoate fermentation	75	3 of 4
66794	acetate fermentation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	sulfopterin metabolism	75	3 of 4
66794	tryptophan metabolism	73.68	28 of 38
66794	metabolism of disaccharids	72.73	8 of 11
66794	tetrahydrofolate metabolism	71.43	10 of 14
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	Entner Doudoroff pathway	70	7 of 10
66794	phenol degradation	70	14 of 20
66794	pyrimidine metabolism	68.89	31 of 45
66794	androgen and estrogen metabolism	68.75	11 of 16
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	histidine metabolism	65.52	19 of 29
66794	lipid metabolism	64.52	20 of 31
66794	glutathione metabolism	64.29	9 of 14
66794	lysine metabolism	64.29	27 of 42
66794	proline metabolism	63.64	7 of 11
66794	d-xylose degradation	63.64	7 of 11
66794	non-pathway related	63.16	24 of 38
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	gluconeogenesis	62.5	5 of 8
66794	degradation of sugar alcohols	62.5	10 of 16
66794	ketogluconate metabolism	62.5	5 of 8
66794	vitamin B1 metabolism	61.54	8 of 13
66794	oxidative phosphorylation	61.54	56 of 91
66794	cysteine metabolism	61.11	11 of 18
66794	myo-inositol biosynthesis	60	6 of 10
66794	arachidonate biosynthesis	60	3 of 5
66794	3-chlorocatechol degradation	60	3 of 5
66794	lipoate biosynthesis	60	3 of 5
66794	bile acid biosynthesis, neutral pathway	58.82	10 of 17
66794	isoprenoid biosynthesis	57.69	15 of 26
66794	tyrosine metabolism	57.14	8 of 14
66794	ubiquinone biosynthesis	57.14	4 of 7
66794	aspartate and asparagine metabolism	55.56	5 of 9
66794	arginine metabolism	54.17	13 of 24
66794	methionine metabolism	53.85	14 of 26
66794	ribulose monophosphate pathway	50	1 of 2
66794	sphingosine metabolism	50	3 of 6
66794	kanosamine biosynthesis II	50	1 of 2
66794	pantothenate biosynthesis	50	3 of 6
66794	ethanol fermentation	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	cyclohexanol degradation	50	2 of 4
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	phenylmercury acetate degradation	50	1 of 2
66794	toluene degradation	50	2 of 4
66794	3-phenylpropionate degradation	46.67	7 of 15
66794	degradation of pentoses	46.43	13 of 28
66794	cholesterol biosynthesis	45.45	5 of 11
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	4-hydroxymandelate degradation	44.44	4 of 9
66794	degradation of hexoses	44.44	8 of 18
66794	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
66794	elloramycin biosynthesis	40	2 of 5
66794	coenzyme M biosynthesis	40	4 of 10
66794	4-hydroxyphenylacetate degradation	40	4 of 10
66794	glycine betaine biosynthesis	40	2 of 5
66794	D-cycloserine biosynthesis	40	2 of 5
66794	dTDPLrhamnose biosynthesis	37.5	3 of 8
66794	carnitine metabolism	37.5	3 of 8
66794	ascorbate metabolism	36.36	8 of 22
66794	allantoin degradation	33.33	3 of 9
66794	IAA biosynthesis	33.33	1 of 3
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	chlorophyll metabolism	33.33	6 of 18
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	methane metabolism	33.33	1 of 3
66794	sulfoquinovose degradation	33.33	1 of 3
66794	enterobactin biosynthesis	33.33	1 of 3
66794	phosphatidylethanolamine bioynthesis	30.77	4 of 13
66794	sulfate reduction	30.77	4 of 13
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	degradation of sugar acids	28	7 of 25
66794	arachidonic acid metabolism	27.78	5 of 18
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	polyamine pathway	26.09	6 of 23
66794	methanogenesis from CO2	25	3 of 12
66794	lactate fermentation	25	1 of 4
66794	CMP-KDO biosynthesis	25	1 of 4
66794	alginate biosynthesis	25	1 of 4
66794	vitamin B12 metabolism	23.53	8 of 34

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Glacier
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
20683	soil collected at Hailuogou glacier	Szechwan Prov	China	CHN	Asia
67770	Soil at Hailuogou glacier	Szechwan Province, south-western of China	China	CHN	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
20683	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	IMG-taxon 2671180088 annotated assembly for Nocardioides szechwanensis CGMCC 1.11147	scaffold	GCA_900103935	1005944.4	2671180088	1005944	74.09
67770	ASM799239v1 assembly for Nocardioides szechwanensis NBRC 108562	contig	GCA_007992395	1005944.5	8112464549	1005944	70.42

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20683	Nocardioides szechwanensis strain CGMCC 1.11147 16S ribosomal RNA gene, partial sequence	JF750424	1403		1005944

GC content

@ref	GC-content (mol%)	Method
20683	67.9
67770	67.9	thermal denaturation, midpoint method (Tm)
67770	71	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Nocardioides szechwanensis CGMCC 1.11147
NCBI: GCA_900103935

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.10	no
125439	gram_stain	BacteriaNetⓘ	positive	98.30	no
125439	motility	BacteriaNetⓘ	no	61.20	no
125439	spore_formation	BacteriaNetⓘ	no	61.40	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Nocardioides szechwanensis strain CGMCC 1.11147
PATRIC: 1005944.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	91.39	no
125438	anaerobic	anaerobicⓘ	no	97.35	yes
125438	spore-forming	spore-formingⓘ	no	64.89	yes
125438	aerobic	aerobicⓘ	yes	90.57	yes
125438	thermophilic	thermophileⓘ	no	93.60	yes
125438	flagellated	motile2+ⓘ	no	92.10	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Nocardioides szechwanensis sp. nov. and Nocardioides psychrotolerans sp. nov., isolated from a glacier.	Liu Q, Xin YH, Liu HC, Zhou YG, Wen Y	Int J Syst Evol Microbiol	10.1099/ijs.0.038091-0	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 )
#20683	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 27403
#26858	IJSEM 129 2013 ( DOI 10.1099/ijs.0.038091-0 , PubMed 22345140 )
#30526	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 #26858
#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;
#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 )

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Nocardioides szechwanensis (DSM 27403, CGMCC 1.11147, NBRC 108562)

Name and taxonomic classification

Morphology

Cell morphology

Colony 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

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900103935

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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