Nocardia mexicana (DSM 44952, CIP 108295, NBRC 108244)

Name: Nocardia mexicana (DSM 44952, CIP 108295, NBRC 108244)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 10722

Type strain

Culture col. no. DSM 44952 CIP 108295 NBRC 108244 IFM 10801 JCM 14590 1 more

NCBI tax ID(s) 1210089 279262

Special Collections DSMZ JCM CIP Wink compendium

History DSMZ <- V. Rodríguez-Nava JCM <-- IFM 10801 <-- DSM 44952 <-- V. Rodríguez-Nava OFN 785.81. CIP <- 2004, P. Boiron, Fac. Pharmacie ISPB, Lyon, France: strain OFN 785-81

Links

Nocardia mexicana DSM 44952 is an aerobe, Gram-positive, filament-shaped bacterium that builds an aerial mycelium and was isolated from pus samples of Mexican patients.

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

Name and taxonomic classification

SI-ID 289771

NBRC 108244,CIP 108295,DSM 44952,JCM 14590

@ref 20215

Last LPSN update 2026-05-29 08:27:24

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Nocardiaceae

Genus Nocardia

Species Nocardia mexicana

Full scientific name Nocardia mexicana Rodríguez-Nava et al. 2006

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility
120928	positive	filament-shaped

Colony morphology

@ref	Colony color	Medium used	Hemolysis ability
69367	Colourless	ISP 6
69367	Colourless	suter with tyrosine
69367	Colourless	suter without tyrosine
69367	Colourless	ISP 3
69367	Colourless	ISP 4
69367	Olive brown (8008)	ISP 5
69367	Sand yellow (1002)	ISP 2
69367	Terra brown (8028)	ISP 7
120928			0

Multicellular morphology

@ref	Complex name	Complex color	Medium name
69367	Aerial mycelium	Cream (9001)	ISP 2
69367	Aerial mycelium		ISP 3
69367	Aerial mycelium		ISP 4
69367	Aerial mycelium	Cream (9001)	ISP 5
69367	Aerial mycelium		ISP 6
69367	Aerial mycelium	Light ivory (1015)	ISP 7
69367	Aerial mycelium		suter with tyrosine
69367	Aerial mycelium		suter without tyrosine

Pigmentation

@ref	Production	Color	Name
69367			melanin pigment
69367		Brown beige(1011)	soluble pigment

Multimedia

@ref:	12205
multimedia content:	DSM_44952.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_44952.jpg
caption:	Medium 65 28°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

@ref:	69367
multimedia content:	DSM_44952_image3.jpeg
multimedia.multimedia content:	DSM_44952_image3.jpeg
caption:	Plates (65, ISP2, ISP3, ISP4, ISP5, ISP7)
intellectual property rights:	Helmholtz-Zentrum für Infektionsforschung GmbH
manual_annotation:	1

@ref:	69367
multimedia content:	DSM_44952_image4.jpeg
multimedia.multimedia content:	DSM_44952_image4.jpeg
caption:	Plates (65, ISP2, ISP3, ISP4, ISP5, ISP7)
intellectual property rights:	Helmholtz-Zentrum für Infektionsforschung GmbH
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
12205	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
37423	MEDIUM 129 - for Pseudonocardia, Nocardia, Skermania and Streptomyces seoulensis, Streptomyces stramineus		Distilled water make up to (1000.000 ml);Agar (20.000 g);Glucose (10.000g);Yeast extract (1.000 g);Beef extract (1.000 g);Casamino acids (2.000 g)
120928	CIP Medium 129	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
12205	positive	growth	28
37423	positive	growth	37
67770	positive	growth	28
120928	positive	growth	25-37
120928	negative	growth	10
120928	negative	growth	41
120928	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
12205	aerobe
120928	obligate aerobe
125439	obligate aerobe	95.876

Halophily

@ref	Salt	Growth	Tested relation	Concentration
69367	NaCl	positive	growth	0-5 %
120928	NaCl	positive	growth	0-4 %
120928	NaCl		growth	6 %
120928	NaCl		growth	8 %
120928	NaCl		growth	10 %

Observation

67770

Observationquinones: MK-8(H₄, ω-cycl)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
69367	22599 ChEBI	arabinose	-	growth
69367	62968 ChEBI	cellulose	-	growth
120928	16947 ChEBI	citrate	-	carbon source
68379	17634 ChEBI	D-glucose	-	fermentation	from API Coryne
68379	16899 ChEBI	D-mannitol	-	fermentation	from API Coryne
68379	16988 ChEBI	D-ribose	-	fermentation	from API Coryne
68379	65327 ChEBI	D-xylose	-	fermentation	from API Coryne
68379	4853 ChEBI	esculin	-	hydrolysis	from API Coryne
120928	4853 ChEBI	esculin	+	hydrolysis
69367	28757 ChEBI	fructose	+	growth
68379	5291 ChEBI	gelatin	-	hydrolysis	from API Coryne
69367	17234 ChEBI	glucose	+	growth
68379	28087 ChEBI	glycogen	-	fermentation	from API Coryne
120928	606565 ChEBI	hippurate	-	hydrolysis
68379	17716 ChEBI	lactose	-	fermentation	from API Coryne
68379	17306 ChEBI	maltose	-	fermentation	from API Coryne
69367	37684 ChEBI	mannose	+	growth
69367	17268 ChEBI	myo-inositol	+	growth
68379	17632 ChEBI	nitrate	+	reduction	from API Coryne
120928	17632 ChEBI	nitrate	-	reduction
120928	17632 ChEBI	nitrate	-	respiration
120928	16301 ChEBI	nitrite	-	reduction
69367	16634 ChEBI	raffinose	-	growth
69367	26546 ChEBI	rhamnose	+	growth
68379	17992 ChEBI	sucrose	-	fermentation	from API Coryne
69367	17992 ChEBI	sucrose	-	growth
68379	16199 ChEBI	urea	-	hydrolysis	from API Coryne
69367	18222 ChEBI	xylose	-	growth

Metabolite production

@ref	Chebi-ID	Metabolite	Production
120928	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
120928	15688 ChEBI	acetoin	-
120928	17234 ChEBI	glucose		-

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
120928	alcohol dehydrogenase	-	1.1.1.1
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68379	alkaline phosphatase	+	3.1.3.1	from API Coryne
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68379	alpha-glucosidase	-	3.2.1.20	from API Coryne
68382	alpha-mannosidase	-	3.2.1.24	from API zym
120928	amylase	-
120928	beta-galactosidase	+	3.2.1.23
68379	beta-galactosidase	-	3.2.1.23	from API Coryne
68382	beta-glucosidase	+	3.2.1.21	from API zym
68379	beta-glucosidase	-	3.2.1.21	from API Coryne
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68379	beta-glucuronidase	-	3.2.1.31	from API Coryne
120928	caseinase	-	3.4.21.50
120928	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
120928	DNase	-
68382	esterase (C 4)	+		from API zym
120928	gamma-glutamyltransferase	+	2.3.2.2
120928	gelatinase	-
68379	gelatinase	-		from API Coryne
120928	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
120928	lipase	-
68382	lipase (C 14)	-		from API zym
120928	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68379	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API Coryne
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
120928	ornithine decarboxylase	-	4.1.1.17
120928	oxidase	-
120928	phenylalanine ammonia-lyase	-	4.3.1.24
120928	protease	-
68379	pyrazinamidase	-	3.5.1.B15	from API Coryne
68379	pyrrolidonyl arylamidase	-	3.4.19.3	from API Coryne
68382	trypsin	-	3.4.21.4	from API zym
120928	tryptophan deaminase	-
120928	tween esterase	-
120928	urease	+	3.5.1.5
68379	urease	-	3.5.1.5	from API Coryne
68382	valine arylamidase	-		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	cardiolipin biosynthesis	100	7 of 7
66794	glycolate and glyoxylate degradation	100	6 of 6
66794	reductive acetyl coenzyme A pathway	100	7 of 7
66794	vitamin K metabolism	100	5 of 5
66794	cyanate degradation	100	3 of 3
66794	ppGpp biosynthesis	100	4 of 4
66794	threonine metabolism	100	10 of 10
66794	formaldehyde oxidation	100	3 of 3
66794	coenzyme A metabolism	100	4 of 4
66794	ethanol fermentation	100	2 of 2
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	methylglyoxal degradation	100	5 of 5
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	ethylmalonyl-CoA pathway	100	5 of 5
66794	enterobactin biosynthesis	100	3 of 3
66794	acetate fermentation	100	4 of 4
66794	valine metabolism	100	9 of 9
66794	butanoate fermentation	100	4 of 4
66794	biotin biosynthesis	100	4 of 4
66794	L-lactaldehyde degradation	100	3 of 3
66794	propanol degradation	100	7 of 7
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	octane oxidation	100	3 of 3
66794	adipate degradation	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	ceramide biosynthesis	100	1 of 1
66794	palmitate biosynthesis	100	22 of 22
66794	suberin monomers biosynthesis	100	2 of 2
66794	aerobactin biosynthesis	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	taurine degradation	100	1 of 1
66794	photosynthesis	100	14 of 14
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	glycine betaine biosynthesis	100	5 of 5
66794	flavin biosynthesis	93.33	14 of 15
66794	citric acid cycle	92.86	13 of 14
66794	glutamate and glutamine metabolism	92.86	26 of 28
66794	heme metabolism	92.86	13 of 14
66794	phenylalanine metabolism	92.31	12 of 13
66794	propionate fermentation	90	9 of 10
66794	Entner Doudoroff pathway	90	9 of 10
66794	NAD metabolism	88.89	16 of 18
66794	chorismate metabolism	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	purine metabolism	88.3	83 of 94
66794	vitamin B12 metabolism	88.24	30 of 34
66794	glycolysis	88.24	15 of 17
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	gluconeogenesis	87.5	7 of 8
66794	peptidoglycan biosynthesis	86.67	13 of 15
66794	methionine metabolism	84.62	22 of 26
66794	urea cycle	84.62	11 of 13
66794	vitamin B1 metabolism	84.62	11 of 13
66794	leucine metabolism	84.62	11 of 13
66794	histidine metabolism	82.76	24 of 29
66794	pyrimidine metabolism	82.22	37 of 45
66794	cholesterol biosynthesis	81.82	9 of 11
66794	proline metabolism	81.82	9 of 11
66794	pentose phosphate pathway	81.82	9 of 11
66794	gallate degradation	80	4 of 5
66794	creatinine degradation	80	4 of 5
66794	factor 420 biosynthesis	80	4 of 5
66794	3-phenylpropionate degradation	80	12 of 15
66794	hydrogen production	80	4 of 5
66794	glycogen metabolism	80	4 of 5
66794	myo-inositol biosynthesis	80	8 of 10
66794	starch degradation	80	8 of 10
66794	alanine metabolism	79.31	23 of 29
66794	tryptophan metabolism	78.95	30 of 38
66794	glutathione metabolism	78.57	11 of 14
66794	allantoin degradation	77.78	7 of 9
66794	sulfate reduction	76.92	10 of 13
66794	non-pathway related	76.32	29 of 38
66794	isoleucine metabolism	75	6 of 8
66794	lactate fermentation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	sulfopterin metabolism	75	3 of 4
66794	ketogluconate metabolism	75	6 of 8
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	dTDPLrhamnose biosynthesis	75	6 of 8
66794	metabolism of disaccharids	72.73	8 of 11
66794	ubiquinone biosynthesis	71.43	5 of 7
66794	aclacinomycin biosynthesis	71.43	5 of 7
66794	tetrahydrofolate metabolism	71.43	10 of 14
66794	arginine metabolism	70.83	17 of 24
66794	4-hydroxyphenylacetate degradation	70	7 of 10
66794	degradation of sugar alcohols	68.75	11 of 16
66794	androgen and estrogen metabolism	68.75	11 of 16
66794	oxidative phosphorylation	67.03	61 of 91
66794	methane metabolism	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	cysteine metabolism	66.67	12 of 18
66794	4-hydroxymandelate degradation	66.67	6 of 9
66794	isoprenoid biosynthesis	65.38	17 of 26
66794	lipid metabolism	64.52	20 of 31
66794	lysine metabolism	64.29	27 of 42
66794	tyrosine metabolism	64.29	9 of 14
66794	degradation of hexoses	61.11	11 of 18
66794	polyamine pathway	60.87	14 of 23
66794	lipoate biosynthesis	60	3 of 5
66794	3-chlorocatechol degradation	60	3 of 5
66794	arachidonate biosynthesis	60	3 of 5
66794	carotenoid biosynthesis	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	mevalonate metabolism	57.14	4 of 7
66794	nitrate assimilation	55.56	5 of 9
66794	d-mannose degradation	55.56	5 of 9
66794	daunorubicin biosynthesis	55.56	5 of 9
66794	phenol degradation	55	11 of 20
66794	phenylpropanoid biosynthesis	53.85	7 of 13
66794	pantothenate biosynthesis	50	3 of 6
66794	toluene degradation	50	2 of 4
66794	phenylmercury acetate degradation	50	1 of 2
66794	cyclohexanol degradation	50	2 of 4
66794	glycine metabolism	50	5 of 10
66794	CMP-KDO biosynthesis	50	2 of 4
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	degradation of sugar acids	48	12 of 25
66794	degradation of pentoses	46.43	13 of 28
66794	lipid A biosynthesis	44.44	4 of 9
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	ascorbate metabolism	40.91	9 of 22
66794	cellulose degradation	40	2 of 5
66794	metabolism of amino sugars and derivatives	40	2 of 5
66794	elloramycin biosynthesis	40	2 of 5
66794	D-cycloserine biosynthesis	40	2 of 5
66794	bacilysin biosynthesis	40	2 of 5
66794	arachidonic acid metabolism	38.89	7 of 18
66794	carnitine metabolism	37.5	3 of 8
66794	vitamin B6 metabolism	36.36	4 of 11
66794	sulfoquinovose degradation	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	chlorophyll metabolism	33.33	6 of 18
66794	IAA biosynthesis	33.33	1 of 3
66794	phosphatidylethanolamine bioynthesis	30.77	4 of 13
66794	coenzyme M biosynthesis	30	3 of 10
66794	d-xylose degradation	27.27	3 of 11
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	alginate biosynthesis	25	1 of 4
66794	catecholamine biosynthesis	25	1 of 4
66794	methanogenesis from CO2	25	3 of 12
66794	vitamin E metabolism	25	1 of 4

API coryne

@ref	Reduction of nitrateNIT	PYZ	PYRA	PAL	beta GUR	beta GAL	alpha GLU	beta NAG	ESC	URE	GEL	Control fermentationControl	GLU	RIB	XYL	MAN	MAL	LAC	SAC	GLYG	CAT
69367	+	-	-	+	-	-	-	-	-	-	-	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
69367	not determinedn.d.	+	+	+/-	-	+	-	-	-	-	+	+	-	+/-	-	+/-	+	-	-	-
120928	-	+	+	+	-	+	-	-	-	-	+	+	-	+	-	+	+	-	-	-

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
120928	not determinedn.d.	+	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	+	-	-	-	-	-	-	-	+	-	+	-	-	+	-	-	-	-	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2
#Infection	#Patient
#Host Body Product	#Fluids

Isolation

@ref	Sample type	Host species	Country	Country ISO 3 Code	Continent	Isolation date
12205	pus samples of Mexican patients	Homo sapiens	Mexico	MEX	North America
67770	Pus samples of Mexican patients with mycetomas	Homo sapiens	Mexico	MEX	North America
120928	Human, Mycetomas	Homo sapiens	Mexico	MEX	North America	1960

Taxonmaps

69479

Global distribution of 16S sequence JF797310 (>99% sequence identity) for Nocardia from Microbeatlas

Aquatic Samples	4
Soil Samples	60
Animal Samples	15
Plant Samples	7
Total Samples	86

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
12205	2	Risk group (German classification) According to TRBA 466
120928	2	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	ASM335052v1 assembly for Nocardia mexicana DSM 44952	scaffold	GCA_003350525	279262.5	2770939516	279262	68.27
67770	ASM161316v1 assembly for Nocardia mexicana NBRC 108244	contig	GCA_001613165	1210089.4	2698536635	1210089	40.65

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Nocardia mexicana partial 16S rRNA gene, type strain DSM44952T	FR733723	1504	279262
20218	Nocardia mexicana 16S ribosomal RNA gene, partial sequence	GQ376178	1439	279262
20218	Nocardia mexicana strain DSM 44952 16S ribosomal RNA gene, partial sequence	JF797310	1412	279262
12205	Nocardia mexicana strain CIP 108295 isolate VNS29 16S ribosomal RNA gene, partial sequence	AY903610	606	279262
67770	Nocardia mexicana strain OFN 785.81 16S ribosomal RNA gene, partial sequence	AY555577	1329	279262

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM335052v1 assembly for Nocardia mexicana DSM 44952
BV-BRC: 279262.5

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	95.88	no
125439	gram_stain	BacteriaNetⓘ	positive	89.23	no
125439	motility	BacteriaNetⓘ	no	87.12	no
125439	spore_formation	BacteriaNetⓘ	yes	45.51	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Nocardia mexicana NBRC 108244
PATRIC: 1210089.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	89.47	no
125438	anaerobic	anaerobicⓘ	no	96.32	yes
125438	spore-forming	spore-formingⓘ	yes	67.39	no
125438	aerobic	aerobicⓘ	yes	89.88	yes
125438	thermophilic	thermophileⓘ	no	95.00	yes
125438	flagellated	motile2+ⓘ	no	85.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	First case report of pulmonary and cutaneous nocardiosis caused by Nocardia mexicana in Iran.	Shokri D, Motalebirad T, Jafarinia M, Azadi D, Ghaffari K.	Access Microbiol	10.1099/acmi.0.000016	2019
	Investigation of dirigent like domains from bacterial genomes.	Bardin M, Rousselot-Pailley P, Tron T, Robert V.	BMC Bioinformatics	10.1186/s12859-022-04832-6	2022
Phylogeny	Isolation of Nocardia mexicana from focal proliferative tenosynovitis and arthritis in a steer.	Owen H, Buckle K, Olm J, Leitner M, Pandey S, Gaughan JB, Sullivan ML, Lees AM, Gibson JS	Aust Vet J	10.1111/avj.12308	2015
Phylogeny	Nocardia goodfellowii sp. nov. and Nocardia thraciensis sp. nov., isolated from soil.	Sazak A, Sahin N, Camas M	Int J Syst Evol Microbiol	10.1099/ijs.0.031559-0	2011

References

#12205	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 44952
#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 )
#37423	; 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;
#68379	Automatically annotated from API Coryne .
#68382	Automatically annotated from API zym .
#69367	Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#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 .
#120928	Collection of Institut Pasteur ; Curators of the CIP; CIP 108295
#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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Nocardia mexicana (DSM 44952, CIP 108295, NBRC 108244)

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