Nonomuraea polychroma (DSM 43925, IFO 14345, IMET 9743)

Name: Nonomuraea polychroma (DSM 43925, IFO 14345, IMET 9743)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 16549

Type strain

Culture col. no. DSM 43925 IFO 14345 IMET 9743 INA 2755 NBRC 14345 8 more

NCBI tax ID(s) 46176

Special Collections DSMZ JCM KCTC CIP Wink compendium

History <- IMET <- T.P. Preobrazhenskaya, INA IFO 14345 <-- INA 2755. CIP <- 2002, JCM <- IFO <- INA

Links

Nonomuraea polychroma DSM 43925 is a Gram-positive, rod-shaped bacterium that was isolated from soil.

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

Name and taxonomic classification

SI-ID 42517

VKM Ac-1084,ATCC 49500,IFO 14345,NRRL B-16243,DSM 43925,IMET 9743,JCM 6834,KCTC 9277,CIP 107354,NBRC 14345,BCRC 16335,CCRC 16335

@ref 20215

Last LPSN update 2026-02-09 11:22:00

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Streptosporangiales

Family Streptosporangiaceae

Genus Nonomuraea

Species Nonomuraea polychroma

Full scientific name Nonomuraea polychroma corrig. (Galatenko et al. 1987) Zhang et al. 1998

Synonyms (3)

Nonomuria polychroma
Microtetraspora polychroma
Actinomadura polychroma

BacDive ID	Other strains from **Nonomuraea polychroma** (1)	Type strain
128591	N. polychroma STH00381(ZIMET), 61033, ST 25096, 570/20, ...

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
125439	positive		99.7
125439			90.5
121926	positive	rod-shaped

Colony morphology

@ref	Colony color	Incubation period	Medium used
19982	Ochre yellow (1024)	10-14 days	ISP 2
19982	Opal green (6026)	10-14 days	ISP 3
19982	Opal green (6026)	10-14 days	ISP 4
19982	Opal green (6026)	10-14 days	ISP 5
19982	Ochre yellow (1024)	10-14 days	ISP 6
19982	Opal green (6026)	10-14 days	ISP 7

Multicellular morphology

@ref	Forms multicellular complex	Medium name
19982		ISP 2
19982		ISP 3
19982		ISP 4
19982		ISP 5
19982		ISP 6
19982		ISP 7

Multimedia

@ref:	11274
multimedia content:	DSM_43925.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_43925.jpg
caption:	Medium 553 28°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
11274	GPHF-MEDIUM (DSMZ Medium 553)	Medium recipe at MediaDive	Name: GPHF-MEDIUM (DSMZ Medium 553) Composition: Agar 20.0 g/l Glucose 10.0 g/l Beef extract 5.0 g/l Yeast extract 5.0 g/l Casein peptone 5.0 g/l CaCl2 x 2 H2O 0.74 g/l Distilled water
11274	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)	Medium recipe at MediaDive	Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
19982	ISP 2		Name: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
19982	ISP 3		Name: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
19982	ISP 4		Name: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
19982	ISP 5		Name: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
19982	ISP 6		Name: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
19982	ISP 7		Name: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
38203	MEDIUM 57 - for Streptomyces, Nocardioides, Lentzea albidocapillata and Streptoverticillium reticulum		Distilled water make up to (1000.000 ml);Agar (15.000 g);Glucose (4.000g);Yeast extract (4.000 g);Malt extract (10.000 g);Calcium carbonate (2.000 g)
121926	CIP Medium 57	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
11274	positive	growth	28
19982	positive	optimum	28
38203	positive	growth	30
67770	positive	growth	28
121926	positive	growth	30-41
121926	negative	growth	5
121926	negative	growth	15
121926	negative	growth	22

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	98.6

Halophily

@ref	Salt	Growth	Tested relation	Concentration
19982	NaCl	positive	maximum	2.5 %
121926	NaCl		growth	0 %
121926	NaCl		growth	2 %
121926	NaCl		growth	4 %
121926	NaCl		growth	6 %
121926	NaCl		growth	8 %
121926	NaCl		growth	10 %

Observation

67770

Observationquinones: MK-9(H₄), MK-9(H₂), MK-9

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	27613 ChEBI	amygdalin	-	builds acid from	from API 50CH acid
19982	22599 ChEBI	arabinose	-
68371	18305 ChEBI	arbutin	-	builds acid from	from API 50CH acid
68368	29016 ChEBI	arginine	+	hydrolysis	from API 20E
68371	17057 ChEBI	cellobiose	-	builds acid from	from API 50CH acid
19982	62968 ChEBI	cellulose	-
68368	16947 ChEBI	citrate	-	assimilation	from API 20E
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
68371	18333 ChEBI	D-arabitol	-	builds acid from	from API 50CH acid
68371	15824 ChEBI	D-fructose	-	builds acid from	from API 50CH acid
68371	28847 ChEBI	D-fucose	-	builds acid from	from API 50CH acid
68371	12936 ChEBI	D-galactose	-	builds acid from	from API 50CH acid
68371	17634 ChEBI	D-glucose	-	builds acid from	from API 50CH acid
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68371	16899 ChEBI	D-mannitol	-	builds acid from	from API 50CH acid
68371	16024 ChEBI	D-mannose	-	builds acid from	from API 50CH acid
68371	16988 ChEBI	D-ribose	-	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	-	builds acid from	from API 50CH acid
68371	16443 ChEBI	D-tagatose	-	builds acid from	from API 50CH acid
68371	65327 ChEBI	D-xylose	-	builds acid from	from API 50CH acid
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
121926	4853 ChEBI	esculin	+	hydrolysis
19982	28757 ChEBI	fructose	-
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68368	5291 ChEBI	gelatin	+	hydrolysis	from API 20E
68371	28066 ChEBI	gentiobiose	-	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	-	builds acid from	from API 50CH acid
19982	17234 ChEBI	glucose	+
68371	17754 ChEBI	glycerol	-	builds acid from	from API 50CH acid
68371	28087 ChEBI	glycogen	-	builds acid from	from API 50CH acid
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
68371	30849 ChEBI	L-arabinose	-	builds acid from	from API 50CH acid
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
68371	18287 ChEBI	L-fucose	-	builds acid from	from API 50CH acid
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
68371	17716 ChEBI	lactose	-	builds acid from	from API 50CH acid
68368	25094 ChEBI	lysine	+	degradation	from API 20E
68371	17306 ChEBI	maltose	-	builds acid from	from API 50CH acid
19982	29864 ChEBI	mannitol	-
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
68371	28053 ChEBI	melibiose	-	builds acid from	from API 50CH acid
68371	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from	from API 50CH acid
68371	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from	from API 50CH acid
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
19982	17268 ChEBI	myo-inositol	-
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
68371	59640 ChEBI	N-acetylglucosamine	-	builds acid from	from API 50CH acid
121926	17632 ChEBI	nitrate	+	reduction
121926	16301 ChEBI	nitrite	-	reduction
68368	18257 ChEBI	ornithine	+	degradation	from API 20E
68371		Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371		Potassium 5-ketogluconate	-	builds acid from	from API 50CH acid
19982	16634 ChEBI	raffinose	-
68371	16634 ChEBI	raffinose	-	builds acid from	from API 50CH acid
19982	26546 ChEBI	rhamnose	-
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
68371	17814 ChEBI	salicin	-	builds acid from	from API 50CH acid
68371	28017 ChEBI	starch	-	builds acid from	from API 50CH acid
19982	17992 ChEBI	sucrose	-
68371	17992 ChEBI	sucrose	-	builds acid from	from API 50CH acid
68371	27082 ChEBI	trehalose	-	builds acid from	from API 50CH acid
68368	27897 ChEBI	tryptophan	-	energy source	from API 20E
68371	32528 ChEBI	turanose	-	builds acid from	from API 50CH acid
68368	16199 ChEBI	urea	-	hydrolysis	from API 20E
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid
19982	18222 ChEBI	xylose	-

Antibiotic resistance

@ref	Metabolite	Is sensitive	Is resistant
121926	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite
68368	15688 ChEBI	acetoin	from API 20E
68368	16136 ChEBI	hydrogen sulfide	from API 20E
121926	35581 ChEBI	indole
68368	35581 ChEBI	indole	from API 20E

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test	Indole test
121926	15688 ChEBI	acetoin	-
68368	15688 ChEBI	acetoin	+			from API 20E
121926	17234 ChEBI	glucose		-
68368	35581 ChEBI	indole			-	from API 20E

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
121926	alcohol dehydrogenase	-	1.1.1.1
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-galactosidase	+	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	+	3.2.1.24	from API zym
121926	amylase	-
68368	arginine dihydrolase	+	3.5.3.6	from API 20E
68382	beta-galactosidase	+	3.2.1.23	from API zym
68368	beta-galactosidase	-	3.2.1.23	from API 20E
68382	beta-glucosidase	+	3.2.1.21	from API zym
121926	caseinase	+	3.4.21.50
121926	catalase	+	1.11.1.6
121926	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
121926	gamma-glutamyltransferase	+	2.3.2.2
121926	gelatinase	+
68368	gelatinase	+		from API 20E
121926	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
121926	lipase	+
68382	lipase (C 14)	-		from API zym
121926	lysine decarboxylase	-	4.1.1.18
68368	lysine decarboxylase	+	4.1.1.18	from API 20E
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
121926	ornithine decarboxylase	-	4.1.1.17
68368	ornithine decarboxylase	+	4.1.1.17	from API 20E
121926	oxidase	-
121926	phenylalanine ammonia-lyase	-	4.3.1.24
68382	trypsin	+	3.4.21.4	from API zym
121926	tryptophan deaminase	-
68368	tryptophan deaminase	-	4.1.99.1	from API 20E
121926	tween esterase	-
121926	urease	-	3.5.1.5
68368	urease	-	3.5.1.5	from API 20E
68382	valine arylamidase	+		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	starch degradation	100	10 of 10
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	kanosamine biosynthesis II	100	2 of 2
66794	formaldehyde oxidation	100	3 of 3
66794	Entner Doudoroff pathway	100	10 of 10
66794	suberin monomers biosynthesis	100	2 of 2
66794	ceramide biosynthesis	100	1 of 1
66794	taurine degradation	100	1 of 1
66794	ppGpp biosynthesis	100	4 of 4
66794	methylglyoxal degradation	100	5 of 5
66794	glycine betaine biosynthesis	100	5 of 5
66794	acetate fermentation	100	4 of 4
66794	reductive acetyl coenzyme A pathway	100	7 of 7
66794	coenzyme A metabolism	100	4 of 4
66794	resorcinol degradation	100	2 of 2
66794	molybdenum cofactor biosynthesis	100	9 of 9
66794	butanoate fermentation	100	4 of 4
66794	adipate degradation	100	2 of 2
66794	glycogen metabolism	100	5 of 5
66794	palmitate biosynthesis	100	22 of 22
66794	3-chlorocatechol degradation	100	5 of 5
66794	dTDPLrhamnose biosynthesis	100	8 of 8
66794	CMP-KDO biosynthesis	100	4 of 4
66794	enterobactin biosynthesis	100	3 of 3
66794	folate polyglutamylation	100	1 of 1
66794	myo-inositol biosynthesis	100	10 of 10
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	threonine metabolism	100	10 of 10
66794	cardiolipin biosynthesis	100	7 of 7
66794	cellulose degradation	100	5 of 5
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	aerobactin biosynthesis	100	1 of 1
66794	vitamin K metabolism	100	5 of 5
66794	aspartate and asparagine metabolism	100	9 of 9
66794	3-phenylpropionate degradation	93.33	14 of 15
66794	photosynthesis	92.86	13 of 14
66794	glutamate and glutamine metabolism	92.86	26 of 28
66794	phenylalanine metabolism	92.31	12 of 13
66794	urea cycle	92.31	12 of 13
66794	proline metabolism	90.91	10 of 11
66794	pentose phosphate pathway	90.91	10 of 11
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	4-hydroxymandelate degradation	88.89	8 of 9
66794	d-mannose degradation	88.89	8 of 9
66794	valine metabolism	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	purine metabolism	88.3	83 of 94
66794	ketogluconate metabolism	87.5	7 of 8
66794	gluconeogenesis	87.5	7 of 8
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	flavin biosynthesis	86.67	13 of 15
66794	peptidoglycan biosynthesis	86.67	13 of 15
66794	citric acid cycle	85.71	12 of 14
66794	degradation of pentoses	85.71	24 of 28
66794	aclacinomycin biosynthesis	85.71	6 of 7
66794	propanol degradation	85.71	6 of 7
66794	leucine metabolism	84.62	11 of 13
66794	pyrimidine metabolism	84.44	38 of 45
66794	selenocysteine biosynthesis	83.33	5 of 6
66794	glycolate and glyoxylate degradation	83.33	5 of 6
66794	alanine metabolism	82.76	24 of 29
66794	glycolysis	82.35	14 of 17
66794	metabolism of disaccharids	81.82	9 of 11
66794	tryptophan metabolism	81.58	31 of 38
66794	4-hydroxyphenylacetate degradation	80	8 of 10
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	gallate degradation	80	4 of 5
66794	propionate fermentation	80	8 of 10
66794	phenylacetate degradation (aerobic)	80	4 of 5
66794	metabolism of amino sugars and derivatives	80	4 of 5
66794	factor 420 biosynthesis	80	4 of 5
66794	histidine metabolism	79.31	23 of 29
66794	arginine metabolism	79.17	19 of 24
66794	glutathione metabolism	78.57	11 of 14
66794	allantoin degradation	77.78	7 of 9
66794	lipid metabolism	77.42	24 of 31
66794	phosphatidylethanolamine bioynthesis	76.92	10 of 13
66794	vitamin B1 metabolism	76.92	10 of 13
66794	methionine metabolism	76.92	20 of 26
66794	non-pathway related	76.32	29 of 38
66794	degradation of sugar acids	76	19 of 25
66794	degradation of aromatic, nitrogen containing compounds	75	9 of 12
66794	glycogen biosynthesis	75	3 of 4
66794	degradation of sugar alcohols	75	12 of 16
66794	cyclohexanol degradation	75	3 of 4
66794	sulfopterin metabolism	75	3 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	polyamine pathway	73.91	17 of 23
66794	d-xylose degradation	72.73	8 of 11
66794	oxidative phosphorylation	72.53	66 of 91
66794	degradation of hexoses	72.22	13 of 18
66794	NAD metabolism	72.22	13 of 18
66794	heme metabolism	71.43	10 of 14
66794	tetrahydrofolate metabolism	71.43	10 of 14
66794	tyrosine metabolism	71.43	10 of 14
66794	ubiquinone biosynthesis	71.43	5 of 7
66794	vitamin B12 metabolism	70.59	24 of 34
66794	phenol degradation	70	14 of 20
66794	octane oxidation	66.67	2 of 3
66794	sulfoquinovose degradation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	cyanate degradation	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	cysteine metabolism	66.67	12 of 18
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	isoprenoid biosynthesis	65.38	17 of 26
66794	isoleucine metabolism	62.5	5 of 8
66794	lysine metabolism	61.9	26 of 42
66794	sulfate reduction	61.54	8 of 13
66794	lipoate biosynthesis	60	3 of 5
66794	arachidonate biosynthesis	60	3 of 5
66794	hydrogen production	60	3 of 5
66794	bile acid biosynthesis, neutral pathway	58.82	10 of 17
66794	daunorubicin biosynthesis	55.56	5 of 9
66794	phenylpropanoid biosynthesis	53.85	7 of 13
66794	toluene degradation	50	2 of 4
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	lactate fermentation	50	2 of 4
66794	biotin biosynthesis	50	2 of 4
66794	glycine metabolism	50	5 of 10
66794	ribulose monophosphate pathway	50	1 of 2
66794	phenylmercury acetate degradation	50	1 of 2
66794	androgen and estrogen metabolism	50	8 of 16
66794	carnitine metabolism	50	4 of 8
66794	quinate degradation	50	1 of 2
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	pantothenate biosynthesis	50	3 of 6
66794	ethanol fermentation	50	1 of 2
66794	vitamin E metabolism	50	2 of 4
66794	catecholamine biosynthesis	50	2 of 4
66794	vitamin B6 metabolism	45.45	5 of 11
66794	ascorbate metabolism	45.45	10 of 22
66794	nitrate assimilation	44.44	4 of 9
66794	lipid A biosynthesis	44.44	4 of 9
66794	D-cycloserine biosynthesis	40	2 of 5
66794	coenzyme M biosynthesis	40	4 of 10
66794	arachidonic acid metabolism	38.89	7 of 18
66794	dolichyl-diphosphooligosaccharide biosynthesis	36.36	4 of 11
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	IAA biosynthesis	33.33	1 of 3
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	mevalonate metabolism	28.57	2 of 7
66794	chlorophyll metabolism	27.78	5 of 18
66794	cholesterol biosynthesis	27.27	3 of 11
66794	diterpene phytoalexins precursors biosynthesis	25	4 of 16
66794	methanogenesis from CO2	25	3 of 12
66794	carotenoid biosynthesis	22.73	5 of 22

API 20E

@ref	ONPG	ADH (Arg)	LDC (Lys)	ODC	CIT	H2S productionH2S	URE	TDA (Trp)	IND	Acetoin production (Voges Proskauer test)VP	GEL	GLU	MAN	INO	Sor	RHA	SAC	MEL	AMY	ARA	OX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	OF-O	OF-F
19982	-	+	+	+	-	-	-	-	-	+	+	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
19982	not determinedn.d.	+	+	+	-	+	+	+	+	-	+	+	+	+	+	+	+	+	+	+
121926	-	+	+	+	-	+	+	-	+	-	+	-	+	+	-	+	+	+	+	-

API 50CHac

@ref	ControlQ	GLY	ERY	DARA	LARA	RIB	DXYL	LXYL	ADO	MDX	GAL	GLU	FRU	MNE	SBE	RHA	DUL	INO	MAN	SOR	MDM	MDG	NAG	AMY	ARB	ESC	SAL	CEL	MAL	LAC	MEL	SAC	TRE	INU	MLZ	RAF	AMD	GLYG	XLT	GEN	TUR	LYX	TAG	DFUC	LFUC	DARL	LARL	GNT	2KG	5KG
121926	not determinedn.d.	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+/-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

API biotype100

@ref	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
121926	not determinedn.d.	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
11274	soil	Turkmenistan	TKM	Asia
67770	Soil	Turkmenistan	TKM	Asia
121926	Environment, Soil	Turkmenistan	TKM	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
11274	1	Risk group (German classification) According to TRBA 466
19982	1	German classification According to TRBA 466
121926	1	Risk group (French 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	ASM401150v1 assembly for Nonomuraea polychroma DSM 43925	contig	GCA_004011505	46176.3	2808606959	46176	71.92

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Microtetraspora polychroma 16S rRNA gene	U48977	1413		46176
67770	Nonomuraea polychroma gene for 16S ribosomal RNA, partial sequence, strain: JCM 6834	LC111529	1426		46176

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Nonomuraea polychroma DSM 43925
NCBI: GCA_004011505

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	83.30	no
125439	motility	BacteriaNetⓘ	no	90.50	no
125439	gram_stain	BacteriaNetⓘ	positive	99.70	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.60	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Nonomuraea polychroma strain DSM 43925
PATRIC: 46176.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	86.82	no
125438	anaerobic	anaerobicⓘ	no	89.53	no
125438	spore-forming	spore-formingⓘ	yes	87.25	no
125438	aerobic	aerobicⓘ	yes	83.67	no
125438	thermophilic	thermophileⓘ	no	96.82	yes
125438	flagellated	motile2+ⓘ	no	83.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	A persistent and diverse airway microbiota present during chronic obstructive pulmonary disease exacerbations.	Huang YJ, Kim E, Cox MJ, Brodie EL, Brown R, Wiener-Kronish JP, Lynch SV.	OMICS	10.1089/omi.2009.0100	2010
Phylogeny	[New species of Actinomadura isolated from soils in Turkmenia and their antagonistic properties].	Galatenko OA, Terekhova LP, Preobrazhenskaia TP	Antibiotiki		1981
Phylogeny	Nonomuraea kuesteri sp. nov.	Kampfer P, Kroppenstedt RM, Grun-Wollny I.	Int J Syst Evol Microbiol	10.1099/ijs.0.63380-0	2005
Phylogeny	Nonomuraea nitratireducens sp. nov., a new actinobacterium isolated from Suaeda australis Moq. rhizosphere.	Ou Y, Sheng Y, Hu X, Leng D, Huang J, Hu Z, Bai L, Deng Z, Kang Q, Wu Y	Int J Syst Evol Microbiol	10.1099/ijsem.0.004377	2020
Phylogeny	Nonomuraea terrae sp. nov., isolated from arid soil.	Ay H	Arch Microbiol	10.1007/s00203-020-01941-9	2020

References

#11274	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 43925
#19982	Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#38203	; Curators of the CIP;
#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;
#68368	Automatically annotated from API 20E .
#68371	Automatically annotated from API 50CH acid .
#68382	Automatically annotated from API zym .
#121926	Collection of Institut Pasteur ; Curators of the CIP; CIP 107354
#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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Nonomuraea polychroma (DSM 43925, IFO 14345, IMET 9743)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Halophily

Observation

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

Pathway annotation

API 20E

API zym

API 50CHac

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_004011505

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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