Nocardia farcinica (DSM 43665, ATCC 3318, DSM 43257)

Name: Nocardia farcinica (DSM 43665, ATCC 3318, DSM 43257)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 10669

Type strain

Strain Designation GA 919 (N 164), M 258

Culture col. no. DSM 43665 ATCC 3318 DSM 43257 DSM 43578 IMRU 3318 26 more

NCBI tax ID(s) 1210076 37329

Special Collections DSMZ CCUG JCM KCTC CIP Wink compendium

History <- M. Ridell; GA 919 (N 164) <- M. Goodfellow; M 258 <- M. P. Lechevalier; <- ATCC; ATCC 3318 (Nocardia asteroides) <- R. E. Gordon; KCC A-0088 <-- IFM 0028 <-- N. M. McClung <-- ATCC 3318 <-- R. E. Gordon <-- S. A. Waksman 3318. CIP <- 1996, IFO <- 1993, NCIMB <- NCTC <- 1976, ATCC, Nocardia asteroides <- 1957, R.E. Gordon

Links

Nocardia farcinica GA 919 is an obligate aerobe, Gram-positive, rod-shaped bacterium that was isolated from madura foot.

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

Name and taxonomic classification

SI-ID 70749

LMG 4079,ATCC 3318,IMET 7137,CIP 104775,NCTC 11134,CCUG 27778,CCUG 10109,IFO 15532,JCM 3088,NCIMB 12058,IMET 7377,DSM 43245,NCTC 4524,DSM 43578,NCIB 12058,CCRC 13722,NRRL B-2089,CBS 318.60,CECT 3053,CECT 4069,KCTC 9958,NBRC 15532,CCRC 13380,BCRC 13380,BCRC 13722,CCUG 48656,CGMCC 4.1829,CGMCC 4.1166,DSM 43665

@ref 20215

Last LPSN update 2026-02-09 11:20:19

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Nocardiaceae

Genus Nocardia

Species Nocardia farcinica

Full scientific name Nocardia farcinica Trevisan 1889 (Approved Lists 1980)

BacDive ID	Other strains from **Nocardia farcinica** (67)	Type strain
8361	N. farcinica DSM 43527, SN 1602
10641	N. farcinica DSM 44144
10661	N. farcinica N 1 (strain Berlin), DSM 43003
10662	N. farcinica S641, N22, DSM 43006
10663	N. farcinica S643, 51.5, DSM 43063, ATCC 9504, CCM 3254, ...
10664	N. farcinica S644, DSM 43131, LBG A 3052, NCTC 6761, CCUG ...
10665	N. farcinica S390, Noc. 1, DSM 43244, ATCC 6864, DSM 43667, ...
10666	N. farcinica S738, Schering 257, A-0002, DSM 43289, ATCC ...
10667	N. farcinica S647, 24 Foal Blackwell, Schering 273, DSM ...
10668	N. farcinica DSM 43577, IMRU 3301
10670	N. farcinica 844, GA 880 (N 119), N 705, DSM 43668
10671	N. farcinica DSM 43669
10672	N. farcinica S560, DSM 44562
10673	N. farcinica S651, DSM 46004, ATCC 7372, IMET 7021, JCM ...
10674	N. farcinica A 123, DSM 46005, IMET 7141, RIA 476
10675	N. farcinica DSM 46028, CIP 736, IMET 7378, IP 736
104281	N. farcinica ST033274(HKI),
136045	N. farcinica CIP 102917, IP 77-65
136348	N. farcinica A-0316, CIP 104828, IFM 0006, JCM 3316
136406	N. farcinica CIP 54.1
138107	N. farcinica 205, 23087, CIP 104834, ATCC 23826, JCM 6045, ...
142044	N. farcinica CCUG 10108
146186	N. farcinica CCUG 30543
147318	N. farcinica CCUG 33358
148594	N. farcinica CCUG 35683
148895	N. farcinica CCUG 36561
149494	N. farcinica CCUG 37854
150311	N. farcinica CCUG 39607
150582	N. farcinica CCUG 41666
150607	N. farcinica CCUG 41730
150669	N. farcinica CCUG 41922
150793	N. farcinica CCUG 42355
151586	N. farcinica CCUG 44391
151913	N. farcinica CCUG 45182
152249	N. farcinica CCUG 46208
152316	N. farcinica CCUG 46413
152331	N. farcinica CCUG 46459
152623	N. farcinica CCUG 47218
152934	N. farcinica CCUG 48061
152968	N. farcinica CCUG 48152
153222	N. farcinica CCUG 48795
153342	N. farcinica CCUG 49286
153634	N. farcinica CCUG 50443
153724	N. farcinica CCUG 50748
153842	N. farcinica CCUG 51344
153861	N. farcinica CCUG 51417
154057	N. farcinica CCUG 52147
154533	N. farcinica CCUG 54271
155295	N. farcinica CCUG 57238
156116	N. farcinica CCUG 60443
156126	N. farcinica CCUG 60477
156639	N. farcinica CCUG 63788
161639	N. farcinica JCM 15838, IFM 0021
161641	N. farcinica JCM 15840, IFM 0040
161642	N. farcinica JCM 15841, IFM 0041
161644	N. farcinica JCM 15843, IFM 0045
161645	N. farcinica JCM 15844, IFM 0046
161660	N. farcinica JCM 15860, IFM 0169
161661	N. farcinica JCM 15861, IFM 0170
161662	N. farcinica JCM 15862, IFM 0171
161663	N. farcinica JCM 15863, IFM 0172
161664	N. farcinica JCM 15864, IFM 0173
161665	N. farcinica JCM 15865, IFM 0174
161671	N. farcinica JCM 15871, IFM 0225
161678	N. farcinica JCM 15878, IFM 0275
165398	N. farcinica JCM 6410
172801	N. farcinica CIMB 05-1450, CRBIP17.117

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
119283	positive	rod-shaped
125438			91.1
125438	positive		93.697
125439	positive		99.2

Multimedia

@ref:	11231
multimedia content:	DSM_43665.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_43665.jpg
caption:	Medium 553 37°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
11231	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
11231	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
11231	COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)	Medium recipe at MediaDive	Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
119283	CIP Medium 72	Medium recipe at CIP
119283	CIP Medium 146	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
11231	positive	growth	37
18497	positive	optimum	30
67770	positive	growth	37
119283	positive	growth	30-45
119283	negative	growth	10

Culture pH

@ref	Ability	Type	PH
18497	positive	maximum	8
18497	positive	minimum	5

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
119283	obligate aerobe
125439	obligate aerobe	98.1

Halophily

@ref	Salt	Growth	Tested relation	Concentration
18497	NaCl	positive	maximum	2.5 %
119283	NaCl	positive	growth	0-6 %
119283	NaCl		growth	8 %
119283	NaCl		growth	10 %

Observation

67770

Observationquinones: MK-8(H₄)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	27613 ChEBI	amygdalin	-	builds acid from	from API 50CH acid
18497	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
18497	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
68379	17634 ChEBI	D-glucose	-	fermentation	from API Coryne
68371	17634 ChEBI	D-glucose	-	builds acid from	from API 50CH acid
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68379	16899 ChEBI	D-mannitol	-	fermentation	from API Coryne
68371	16899 ChEBI	D-mannitol	-	builds acid from	from API 50CH acid
68371	16024 ChEBI	D-mannose	-	builds acid from	from API 50CH acid
68379	16988 ChEBI	D-ribose	-	fermentation	from API Coryne
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
68379	65327 ChEBI	D-xylose	-	fermentation	from API Coryne
68371	65327 ChEBI	D-xylose	-	builds acid from	from API 50CH acid
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
68379	4853 ChEBI	esculin	+	hydrolysis	from API Coryne
68371	4853 ChEBI	esculin	-	builds acid from	from API 50CH acid
18497	28757 ChEBI	fructose	-
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68379	5291 ChEBI	gelatin	-	hydrolysis	from API Coryne
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
18497	17234 ChEBI	glucose	+
68371	17754 ChEBI	glycerol	-	builds acid from	from API 50CH acid
68379	28087 ChEBI	glycogen	-	fermentation	from API Coryne
68371	28087 ChEBI	glycogen	-	builds acid from	from API 50CH acid
119283	606565 ChEBI	hippurate	-	hydrolysis
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
68379	17716 ChEBI	lactose	-	fermentation	from API Coryne
68371	17716 ChEBI	lactose	-	builds acid from	from API 50CH acid
68368	25094 ChEBI	lysine	-	degradation	from API 20E
68379	17306 ChEBI	maltose	-	fermentation	from API Coryne
68371	17306 ChEBI	maltose	-	builds acid from	from API 50CH acid
18497	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
18497	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
68379	17632 ChEBI	nitrate	+	reduction	from API Coryne
119283	17632 ChEBI	nitrate	+	reduction
119283	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
18497	16634 ChEBI	raffinose	-
68371	16634 ChEBI	raffinose	-	builds acid from	from API 50CH acid
18497	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
18497	17992 ChEBI	sucrose	+
68379	17992 ChEBI	sucrose	-	fermentation	from API Coryne
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
68379	16199 ChEBI	urea	-	hydrolysis	from API Coryne
68368	16199 ChEBI	urea	+	hydrolysis	from API 20E
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid
18497	18222 ChEBI	xylose	-

Metabolite production

@ref	Chebi-ID	Metabolite
68368	15688 ChEBI	acetoin	from API 20E
68368	16136 ChEBI	hydrogen sulfide	from API 20E
119283	35581 ChEBI	indole
68368	35581 ChEBI	indole	from API 20E

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Indole test
119283	15688 ChEBI	acetoin	-
68368	15688 ChEBI	acetoin	-		from API 20E
68368	35581 ChEBI	indole		-	from API 20E

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
119283	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
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68379	alpha-glucosidase	-	3.2.1.20	from API Coryne
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68368	arginine dihydrolase	-	3.5.3.6	from API 20E
68382	beta-galactosidase	+	3.2.1.23	from API zym
119283	beta-galactosidase	+	3.2.1.23
68379	beta-galactosidase	-	3.2.1.23	from API Coryne
68368	beta-galactosidase	-	3.2.1.23	from API 20E
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
119283	caseinase	-	3.4.21.50
119283	catalase	+	1.11.1.6
68379	catalase	+	1.11.1.6	from API Coryne
68382	cystine arylamidase	+	3.4.11.3	from API zym
119283	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
119283	gelatinase	-
68379	gelatinase	-		from API Coryne
68368	gelatinase	-		from API 20E
119283	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
119283	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
68379	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API Coryne
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
119283	ornithine decarboxylase	-	4.1.1.17
68368	ornithine decarboxylase	-	4.1.1.17	from API 20E
119283	oxidase	+
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
68368	tryptophan deaminase	-	4.1.99.1	from API 20E
119283	tween esterase	-
119283	urease	+	3.5.1.5
68379	urease	-	3.5.1.5	from API Coryne
68368	urease	+	3.5.1.5	from API 20E
68382	valine arylamidase	+		from API zym

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
18497	-	-	-	-	-	-	+	-	-	-	-	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 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
11231	+	-	-	+	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	+

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
119283	-	+	+	+	-	+	+	+	+	-	+	+	-	+	-	+	+	-	-	-

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
119283	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
119283	not determinedn.d.	+	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	+	-	-	-	-	-	-	-	-	+	-	-	+	+	+	-	-	+	+	+	-	-	+	-	-	-	-	-	-	-	+	-	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host Body-Site	#Limb	#Foot
#Infection	#Disease	-
#Infection	#Patient	-
#Host	#Fungi	-

Isolation

@ref	Sample type
11231	madura foot
119283	Madura foot

Taxonmaps

69479

Global distribution of 16S sequence X80610 (>99% sequence identity) for Nocardia from Microbeatlas

Aquatic Samples	189
Soil Samples	406
Animal Samples	365
Plant Samples	95
Total Samples	1055

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
18497	2	German classification According to TRBA 466
11231	2	Risk group (German classification) According to TRBA 466
119283	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
66792	NCTC11134 assembly for Nocardia farcinica NCTC11134	complete	GCA_001182745	562.7382	2663763270	37329	75.31
67770	IMG-taxon 2681813555 annotated assembly for Nocardia farcinica DSM 43257	contig	GCA_900156775	37329.5	2681813555	37329	70.14
67770	ASM161292v1 assembly for Nocardia farcinica NBRC 15532	contig	GCA_001612925	1210076.5	2731957735	1210076	39.63

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Nocardia farcinica strain ATCC 3318 16S ribosomal RNA gene, partial sequence	DQ659906	1389	37329
20218	Nocardia farcinica culture collection CDC:W6977 16S ribosomal RNA gene, partial sequence	GQ217499	1441	37329
20218	Nocardia farcinica strain W6977 16S ribosomal RNA gene, partial sequence	GQ853065	1441	37329
20218	Nocardia farcinica 16S rRNA gene, strain ATCC 3318	X80595	1394	37329
20218	N.farcinica gene for 16S ribosomal RNA	Z36936	1474	37329
20218	Nocardia farcinica strain CGMCC 4.1166 16S-23S ribosomal RNA intergenic spacer, complete sequence	DQ518339	341	37329
20218	Nocardia farcinica strain DSM 43665 16S ribosomal RNA gene, partial sequence	AY756551	606	37329
20218	Nocardia farcinica strain DSM 43665 16S ribosomal RNA gene, complete sequence	AF430033	1494	37329
20218	Nocardia farcinica strain DSM 43665 note copy 1 16S-23S ribosomal RNA intergenic spacer, complete sequence	AF536445	338	37329
20218	Nocardia farcinica strain DSM 43665 note copy 2 16S-23S ribosomal RNA intergenic spacer, complete sequence	AF536446	334	37329
20218	Nocardia farcinica 16S rRNA gene, strain DSM43665T	X80610	1465	37329
20218	Nocardia farcinica strain NRRL B-2089 16S ribosomal RNA gene, partial sequence	JN041682	462	37329
124043	Nocardia farcinica strain DSM 43665 16S ribosomal RNA gene, partial sequence.	MW563841	1366	37329
124043	Nocardia farcinica strain DSM 43665 16S ribosomal RNA gene, partial sequence.	KR265308	386	37329

GC content

@ref	GC-content (mol%)	Method
67770	70.7	genome sequence analysis
67770	70.2	high performance liquid chromatography (HPLC)
67770	68	fluorimetric

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Nocardia farcinica NCTC11134
IMG: 2663763270

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.10	no
125439	gram_stain	BacteriaNetⓘ	positive	99.20	no
125439	motility	BacteriaNetⓘ	no	88.20	no
125439	spore_formation	BacteriaNetⓘ	yes	76.60	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Nocardia farcinica NCTC11134
NCBI: GCA_001182745.2

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	93.70	no
125438	anaerobic	anaerobicⓘ	no	98.50	yes
125438	aerobic	aerobicⓘ	yes	89.98	no
125438	spore-forming	spore-formingⓘ	yes	62.21	no
125438	thermophilic	thermophileⓘ	no	96.88	no
125438	flagellated	motile2+ⓘ	no	91.10	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Photoprotection-related properties of a raw extract from Gordonia hongkongensis EUFUS-Z928: A culturable rare actinomycete associated with the Caribbean octocoral Eunicea fusca.	Sanchez-Suarez J, Villamil L, Coy-Barrera E, Diaz L.	Sci Prog	10.1177/00368504241272454	2024
Metabolism	Direct binding of human NK cell natural cytotoxicity receptor NKp44 to the surfaces of mycobacteria and other bacteria.	Esin S, Batoni G, Counoupas C, Stringaro A, Brancatisano FL, Colone M, Maisetta G, Florio W, Arancia G, Campa M.	Infect Immun	10.1128/iai.00870-07	2008
	Influenza A Virus Hemagglutinin and Other Pathogen Glycoprotein Interactions with NK Cell Natural Cytotoxicity Receptors NKp46, NKp44, and NKp30.	Luczo JM, Ronzulli SL, Tompkins SM.	Viruses	10.3390/v13020156	2021
Phylogeny	The Complexities of Nocardia Taxonomy and Identification.	Conville PS, Brown-Elliott BA, Smith T, Zelazny AM.	J Clin Microbiol	10.1128/jcm.01419-17	2018
	Current Perspectives on Mycobacterium farcinogenes and Mycobacterium senegalense, the Causal Agents of Bovine Farcy.	Hamid ME.	Vet Med Int	10.1155/2014/247906	2014
Phylogeny	Molecular typing of a suspected cluster of Nocardia farcinica infections by use of randomly amplified polymorphic DNA, pulsed-field gel electrophoresis, and amplified fragment length polymorphism analyses.	Kalpoe JS, Templeton KE, Horrevorts AM, Endtz HP, Kuijper EJ, Bernards AT, Klaassen CH.	J Clin Microbiol	10.1128/jcm.00932-07	2007
	Differential Identification of Mycobacterial Species Using High-Resolution Melting Analysis.	Khosravi AD, Hashemzadeh M, Hashemi Shahraki A, Teimoori A.	Front Microbiol	10.3389/fmicb.2017.02045	2017
Pathogenicity	Differential activity of innate defense antimicrobial peptides against Nocardia species.	Rieg S, Meier B, Fahnrich E, Huth A, Wagner D, Kern WV, Kalbacher H.	BMC Microbiol	10.1186/1471-2180-10-61	2010
Phylogeny	Rapid identification of Nocardia farcinica clinical isolates by a PCR assay targeting a 314-base-pair species-specific DNA fragment.	Brown JM, Pham KN, McNeil MM, Lasker BA.	J Clin Microbiol	10.1128/jcm.42.8.3655-3660.2004	2004
Enzymology	Detection of Tropheryma whipplei DNA in clinical specimens by LightCycler real-time PCR.	Sloan LM, Rosenblatt JE, Cockerill FR.	J Clin Microbiol	10.1128/jcm.43.7.3516-3518.2005	2005
	Determinants of redox sensitivity in RsrA, a zinc-containing anti-sigma factor for regulating thiol oxidative stress response.	Jung YG, Cho YB, Kim MS, Yoo JS, Hong SH, Roe JH.	Nucleic Acids Res	10.1093/nar/gkr477	2011
Enzymology	Partial characterization of Nocardia farcinica beta-lactamases.	Steingrube VA, Wallace RJ, Brown BA, Zhang Y, Steele LC, Young G, Nash DR.	Antimicrob Agents Chemother	10.1128/aac.37.9.1850	1993
	Rapid PCR Detection of Mycoplasma hominis, Ureaplasma urealyticum, and Ureaplasma parvum.	Cunningham SA, Mandrekar JN, Rosenblatt JE, Patel R.	Int J Bacteriol	10.1155/2013/168742	2013
Enzymology	Opacification of Middlebrook agar as an aid in identification of Nocardia farcinica.	Flores M, Desmond E.	J Clin Microbiol	10.1128/jcm.31.11.3040-3041.1993	1993
Pathogenicity	Cefotaxime-resistant Nocardia asteroides strains are isolates of the controversial species Nocardia farcinica.	Wallace RJ, Tsukamura M, Brown BA, Brown J, Steingrube VA, Zhang YS, Nash DR.	J Clin Microbiol	10.1128/jcm.28.12.2726-2732.1990	1990
Enzymology	Rapid identification of clinically relevant Nocardia species to genus level by 16S rRNA gene PCR.	Laurent FJ, Provost F, Boiron P.	J Clin Microbiol	10.1128/jcm.37.1.99-102.1999	1999
Pathogenicity	Activities of the glycylcyclines N,N-dimethylglycylamido-minocycline and N,N-dimethylglycylamido-6-demethyl-6-deoxytetracycline against Nocardia spp. and tetracycline-resistant isolates of rapidly growing mycobacteria.	Brown BA, Wallace RJ, Onyi G.	Antimicrob Agents Chemother	10.1128/aac.40.4.874	1996
	Serological study of nocardia by using mycobacterial precipitation reference systems.	Ridell M, Norlin M.	J Bacteriol	10.1128/jb.113.1.1-7.1973	1973
Pathogenicity	Clinical and laboratory features of Nocardia nova.	Wallace RJ, Brown BA, Tsukamura M, Brown JM, Onyi GO.	J Clin Microbiol	10.1128/jcm.29.11.2407-2411.1991	1991
Phylogeny	Rapid-cycle PCR and fluorimetry for detection of mycobacteria.	Lachnik J, Ackermann B, Bohrssen A, Maass S, Diephaus C, Puncken A, Stermann M, Bange FC.	J Clin Microbiol	10.1128/jcm.40.9.3364-3373.2002	2002
Phylogeny	Identification of Mycobacterium species by secA1 sequences.	Zelazny AM, Calhoun LB, Li L, Shea YR, Fischer SH.	J Clin Microbiol	10.1128/jcm.43.3.1051-1058.2005	2005
	Evaluation of the analytical performance of the Xpert MTB/RIF assay.	Blakemore R, Story E, Helb D, Kop J, Banada P, Owens MR, Chakravorty S, Jones M, Alland D.	J Clin Microbiol	10.1128/jcm.00128-10	2010
Phylogeny	Clinical and laboratory features of the Nocardia spp. based on current molecular taxonomy.	Brown-Elliott BA, Brown JM, Conville PS, Wallace RJ.	Clin Microbiol Rev	10.1128/cmr.19.2.259-282.2006	2006
Phylogeny	Evaluation of API Coryne system for identifying coryneform bacteria.	Soto A, Zapardiel J, Soriano F.	J Clin Pathol	10.1136/jcp.47.8.756	1994
	Lipid composition in the classification of nocardiae and mycobacteria.	Lechevalier MP, Horan AC, Lechevalier H.	J Bacteriol	10.1128/jb.105.1.313-318.1971	1971
	A comparative study of some strains received as nocardiae.	GORDON RE, MIHM JM.	J Bacteriol	10.1128/jb.73.1.15-27.1957	1957
	Nocardia species: host-parasite relationships.	Beaman BL, Beaman L.	Clin Microbiol Rev	10.1128/cmr.7.2.213	1994
Enzymology	The medically important aerobic actinomycetes: epidemiology and microbiology.	McNeil MM, Brown JM.	Clin Microbiol Rev	10.1128/cmr.7.3.357	1994
	Nocardia in naturally acquired and experimental infections in animals.	Beaman BL, Sugar AM.	J Hyg (Lond)	10.1017/s0022172400060447	1983
Metabolism	Superoxide dismutase and oxygen metabolism in Streptococcus faecalis and comparisons with other organisms.	Britton L, Malinowski DP, Fridovich I.	J Bacteriol	10.1128/jb.134.1.229-236.1978	1978
	Distribution of isoprenoid quinone structural types in bacteria and their taxonomic implication.	Collins MD, Jones D.	Microbiol Rev	10.1128/mr.45.2.316-354.1981	1981
Enzymology	The first case of catheter-related bloodstream infection caused by Nocardia farcinica.	Heo ST, Ko KS, Kwon KT, Ryu SY, Bae IG, Oh WS, Song JH, Peck KR.	J Korean Med Sci	10.3346/jkms.2010.25.11.1665	2010
Phylogeny	AutoMLST2: a web server for phylogeny and microbial taxonomy.	Pourmohsenin B, Wiese A, Ziemert N.	Nucleic Acids Res	10.1093/nar/gkaf397	2025
Phylogeny	Phylogenomics and Comparative Genomic Studies Robustly Support Division of the Genus Mycobacterium into an Emended Genus Mycobacterium and Four Novel Genera.	Gupta RS, Lo B, Son J.	Front Microbiol	10.3389/fmicb.2018.00067	2018
Enzymology	Creation of an In-House Matrix-Assisted Laser Desorption Ionization-Time of Flight Mass Spectrometry Corynebacterineae Database Overcomes Difficulties in Identification of Nocardia farcinica Clinical Isolates.	Pasciak M, Dacko W, Sikora J, Gurlaga D, Pawlik K, Miekisiak G, Gamian A.	J Clin Microbiol	10.1128/jcm.00268-15	2015
Enzymology	Characterization of Latex-Clearing Protein and Aldehyde Dehydrogenases Involved in the Utilization of poly(cis-1,4-isoprene) by Nocardia farcinica NBRC 15532	Suzuki N, Suda D, Ngan NTT, Gibu N, Huong NL, Anh TK, Kasai D.	Microorganisms	10.3390/microorganisms10122324	2022
Pathogenicity	Peptide nucleic acid-mediated competitive PCR clamping for detection of rifampin-resistant Mycobacterium tuberculosis.	Iwamoto T, Sonobe T.	Antimicrob Agents Chemother	10.1128/aac.48.10.4023-4026.2004	2004
Enzymology	Loop-mediated isothermal amplification for direct detection of Mycobacterium tuberculosis complex, M. avium, and M. intracellulare in sputum samples.	Iwamoto T, Sonobe T, Hayashi K.	J Clin Microbiol	10.1128/jcm.41.6.2616-2622.2003	2003
Pathogenicity	Contribution of rpoB2 RNA polymerase beta subunit gene to rifampin resistance in Nocardia species.	Ishikawa J, Chiba K, Kurita H, Satoh H.	Antimicrob Agents Chemother	10.1128/aac.50.4.1342-1346.2006	2006
Metabolism	Inactivation of rifampin by Nocardia brasiliensis.	Yazawa K, Mikami Y, Maeda A, Akao M, Morisaki N, Iwasaki S.	Antimicrob Agents Chemother	10.1128/aac.37.6.1313	1993
Metabolism	Characterization and functional expression of a rubber degradation gene of a Nocardia degrader from a rubber-processing factory.	Linh DV, Huong NL, Tabata M, Imai S, Iijima S, Kasai D, Anh TK, Fukuda M	J Biosci Bioeng	10.1016/j.jbiosc.2016.11.012	2017
Metabolism	Nocardia panacis sp. nov., a novel actinomycete with antiphytopathogen activity isolated from the rhizosphere of Panax notoginseng.	Hu JY, Li L, Peng G, Li YQ, Xu LH, Guan HL, Zhao LX, Miao CP	Antonie Van Leeuwenhoek	10.1007/s10482-019-01326-z	2019
Phylogeny	Nocardia kroppenstedtii sp. nov., an actinomycete isolated from a lung transplant patient with a pulmonary infection.	Jones AL, Fisher AJ, Mahida R, Gould K, Perry JD, Hannan MM, Judge EP, Brown R, Boagey K, Goodfellow M	Int J Syst Evol Microbiol	10.1099/ijs.0.048330-0	2013

References

#11231	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 43665
#18497	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 )
#66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68368	Automatically annotated from API 20E .
#68371	Automatically annotated from API 50CH acid .
#68379	Automatically annotated from API Coryne .
#68382	Automatically annotated from API zym .
#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 .
#119283	Collection of Institut Pasteur ; Curators of the CIP; CIP 104775
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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 farcinica (DSM 43665, ATCC 3318, DSM 43257)

Name and taxonomic classification

Morphology

Cell morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Halophily

Observation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API 20E

API coryne

API zym

API 50CHac

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_001182745

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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