Name: Nocardia iowensis BM123
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 10824

Type strain:

Species: Nocardia iowensis

Strain Designation: BM123, UI122540

Culture col. no.: DSM 45197, JCM 18299, NRRL 5646, NRRL B-24671

Strain history: DSM 45197 <-- J. P. Rosazza Ul 122540 <-- NRRL 5646 <-- Lederle Labs.; BM123.

NCBI tax ID(s): 204891 (species)

SI-ID 406680

DSM 45197

Special Collections

Section

When using BacDive for research please cite our paper

Nocardia iowensis BM123 is a spore-forming, mesophilic, Gram-positive bacterium that builds an aerial mycelium and was isolated from garden soil.

Gram-positive
rod-shaped
spore-forming
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Mycobacteriales*
	Family	*Nocardiaceae*
	Genus	*Nocardia*
	Species	**Nocardia iowensis**
	Full Scientific Name (LPSN)	Nocardia iowensis Lamm et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #29152]	Gram stain	positive
[Ref.: #125439]	Gram stain	positive Confidence in %97.5
[Ref.: #125438]	Gram stain	positive Confidence in %91.626

[Ref.: #29152]	Cell shape	rod-shaped

[Ref.: #69377]	Colony color	Ivory (1014)
[Ref.: #69377]	Cultivation medium used	ISP 5

[Ref.: #69377]	Colony color	Mahogany brown (8016)
[Ref.: #69377]	Cultivation medium used	suter with tyrosine

[Ref.: #69377]	Colony color	Ochar brown (8001)
[Ref.: #69377]	Cultivation medium used	ISP 7

[Ref.: #69377]	Colony color	Ochre yellow (1024)
[Ref.: #69377]	Cultivation medium used	ISP 2

[Ref.: #69377]	Colony color	Sand yellow (1002)
[Ref.: #69377]	Cultivation medium used	suter without tyrosine

[Ref.: #29152]	Pigment production	no
[Ref.: #69377]	Pigment production	no
[Ref.: #69377]	Pigment name	Melanin
[Ref.: #69377]	Pigment production	yes
[Ref.: #69377]	Pigmentation color	Beige (1001), copper brown (8004)
[Ref.: #69377]	Pigment name	soluble pigment

[Ref.: #69377]	Multicellular complex forming ability	yes
[Ref.: #69377]	Multicellular complex name	Aerial mycelium
[Ref.: #69377]	Multicellular complex color	Cream (9001)
[Ref.: #69377]	Medium Name (multicellularity)	ISP 2

[Ref.: #69377]	Multicellular complex forming ability	yes
[Ref.: #69377]	Multicellular complex name	Aerial mycelium
[Ref.: #69377]	Multicellular complex color	Cream (9001)
[Ref.: #69377]	Medium Name (multicellularity)	ISP 5

[Ref.: #69377]	Multicellular complex forming ability	yes
[Ref.: #69377]	Multicellular complex name	Aerial mycelium
[Ref.: #69377]	Multicellular complex color	Beige (1001)
[Ref.: #69377]	Medium Name (multicellularity)	ISP 7

[Ref.: #69377]	Multicellular complex forming ability	yes
[Ref.: #69377]	Multicellular complex name	Aerial mycelium
[Ref.: #69377]	Multicellular complex color	Basalt grey (7012)
[Ref.: #69377]	Medium Name (multicellularity)	suter with tyrosine

[Ref.: #69377]	Multicellular complex forming ability	yes
[Ref.: #69377]	Multicellular complex name	Aerial mycelium
[Ref.: #69377]	Multicellular complex color	Ivory (1014)
[Ref.: #69377]	Medium Name (multicellularity)	suter without tyrosine

Multimedia content

[Ref.: #15691]

Intellectual property rights:

[Ref.: #15691]

Caption:

Medium 535 28°C

[Ref.: #15691]

Intellectual property rights:

[Ref.: #69377]

Caption:

Plates (65, ISP2, ISP3, ISP4, ISP5, ISP7)

[Ref.: #69377]

Intellectual property rights:

Helmholtz-Zentrum für Infektionsforschung GmbH

Information on culture and growth conditions Culture and growth conditions

[Ref.: #15691]

Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

[Ref.: #15691]

Culture medium growth

[Ref.: #15691]

Culture medium link

Medium recipe at MediaDive

[Ref.: #15691]

Culture medium composition

expand / minimize

[Ref.: #15691]

Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

[Ref.: #15691]

Culture medium growth

[Ref.: #15691]

Culture medium link

Medium recipe at MediaDive

[Ref.: #15691]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #15691]	growth	28 °C
[Ref.: #19923]	optimum	28 °C
[Ref.: #29152]	optimum	29 °C
[Ref.: #67770]	growth	28 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #125439]

Oxygen tolerance

obligate aerobe Confidence in %99.1

[Ref.: #29152]

Ability of spore formation

yes

[Ref.: #67770]

Name of produced compound

Antibiotic BM123 (US Pat. 4,007,167 and 4,237,120)

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29152]		NaCl		growth	<7	%
[Ref.: #69377]		NaCl		growth	0-5	%

[Ref.: #67770]

Observation

quinones: MK-8(H₄, ω-cycl)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #69377]	arabinose ChEBI	-	growth
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #69377]	cellulose ChEBI	-	growth
[Ref.: #68369]	D-glucose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68379]	D-glucose ChEBI	-	fermentation	* from API Coryne, API 20NE
[Ref.: #68379]	D-mannitol ChEBI	-	fermentation	* from API Coryne
[Ref.: #68369]	D-mannose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68379]	D-ribose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	D-xylose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #29152]	esculin ChEBI	+	hydrolysis
[Ref.: #68369]	esculin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #29152]	fructose ChEBI	+	carbon source
[Ref.: #69377]	fructose ChEBI	-	growth
[Ref.: #68379]	gelatin ChEBI	+	hydrolysis	* from API Coryne
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #29152]	glucose ChEBI	+	carbon source
[Ref.: #69377]	glucose ChEBI	+	growth
[Ref.: #68379]	glycogen ChEBI	-	fermentation	* from API Coryne
[Ref.: #69377]	inositol ChEBI	+	growth
[Ref.: #68369]	L-arabinose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68379]	lactose ChEBI	-	fermentation	* from API Coryne
[Ref.: #29152]	maltose ChEBI	+	carbon source
[Ref.: #68369]	maltose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68379]	maltose ChEBI	-	fermentation	* from API Coryne
[Ref.: #69377]	mannose ChEBI	-	growth
[Ref.: #68369]	N-acetylglucosamine ChEBI	+	assimilation	* from API 20NE
[Ref.: #29152]	nitrate ChEBI	+	reduction
[Ref.: #68379]	nitrate ChEBI	+	reduction	* from API Coryne, API 20NE
[Ref.: #69377]	raffinose ChEBI	-	growth
[Ref.: #69377]	rhamnose ChEBI	-	growth
[Ref.: #29152]	salicin ChEBI	+	carbon source
[Ref.: #69377]	sucrose ChEBI	-	growth
[Ref.: #68379]	sucrose ChEBI	-	fermentation	* from API Coryne
[Ref.: #29152]	trehalose ChEBI	+	carbon source
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68379]	urea ChEBI	+	hydrolysis	* from API Coryne
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #69377]	xylose ChEBI	-	growth
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym, API Coryne
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym, API Coryne
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym, API Coryne
[Ref.: #68382]	beta-glucosidase	+	3.2.1.21	* from API zym, API 20NE
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym, API Coryne
[Ref.: #29152]	catalase	+	1.11.1.6
[Ref.: #68379]	gelatinase	+		* from API Coryne
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API zym, API Coryne
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #68379]	pyrazinamidase	-	3.5.1.B15	* from API Coryne
[Ref.: #68379]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API Coryne
[Ref.: #29152]	urease	+	3.5.1.5
[Ref.: #68379]	urease	+	3.5.1.5	* from API Coryne
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

API® 20NE:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #15691]	28216	+	-	-	-	-	+	-	+/-	+	+	-	+/-	+	-	+/-	-	+/-	+/-	+	-	not determinedn.d.

API® Coryne:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Reduction of nitrateNIT	PyrazinamidasePYZ	Pyrrolidonyl arylamidasePYRA	Alkaline phosphatasePAL	beta-Glucuronidasebeta GUR	beta-Galactosidasebeta GAL	alpha-Glucosidasealpha GLU	N-Acetyl-beta-Glucosidasebeta NAG	Esculin hydrolysis/beta-GlucosidaseESC	Urease/urea hydrolysisURE	Gelatinase/gelatin hydrolysisGEL	Control fermentationControl	Fermentation of D-glucoseGLU	Fermentation of D-riboseRIB	Fermentation of D-xyloseXYL	Fermentation of D-mannitolMAN	Fermentation of maltoseMAL	Fermentation of lactoseLAC	Fermentation of sucroseSAC	Fermentation of glycogenGLYG	CatalaseCAT
[Ref.: #69377]	3870	+	-	-	+	-	-	+	+	+/-	+	+	not determinedn.d.	-	-	-	-	-	-	-	-	not determinedn.d.

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #69377]	6054	not determinedn.d.	+	+	+/-	+/-	+	+	+/-	+/-	-	+	+	-	-	-	+	+	+	+	-
[Ref.: #15691]	14818	-	+	-	-	-	+	-	-	-	-	+	+	-	-	-	+	+	+	-	-

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #15691]	Sample type/isolated from	garden soil
[Ref.: #15691]	Geographic location (country and/or sea, region)	Osceola, Iowa
[Ref.: #15691]	Country	USA
[Ref.: #15691]	Country ISO 3 Code	USA
[Ref.: #15691]	Continent	North America

[Ref.: #67770]	Sample type/isolated from	Garden soil
[Ref.: #67770]	Geographic location (country and/or sea, region)	Osceola, IA
[Ref.: #67770]	Country	USA
[Ref.: #67770]	Country ISO 3 Code	USA
[Ref.: #67770]	Continent	North America
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Soil
#Engineered	#Agriculture	#Garden

What are isolation sources categories?

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #15691]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #15691]	Nocardia sp. NRRL 5646 16S ribosomal RNA gene, partial sequence	DQ925490	1427	GenBank ENA	204891 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Nocardia iowensis NRRL 5646	GCA_019222765	complete	GenBank ENA	204891 tax ID	*
[Ref.: #66792]	Nocardia iowensis strain NRRL 5646	204891.4	complete	PATRIC	204891 tax ID	*

Data predicted using genome information as a basis Genome-based predictions

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Nocardia iowensis NRRL 5646 NCBI: GCA_019222765.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	yes	91.626	yes
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	98.432	no
[Ref.: #125438]	aerobic	aerobicⓘ	yes	87.029	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	yes	71.079	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	96.5	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	no	85.5	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Nocardia iowensis NRRL 5646 NCBI: GCA_019222765
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	yes	76.9
[Ref.: #125439]	BacteriaNet	motilityⓘ	no	85.4
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	positive	97.5
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	obligate aerobe	99.1

Availability in culture collections External links

[Ref.: #15691]

Culture collection no.

DSM 45197, JCM 18299, NRRL 5646, NRRL B-24671

[Ref.: #80085]

SI-ID 406680

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Nocardia iowensis sp. nov., an organism rich in biocatalytically important enzymes and nitric oxide synthase.	Lamm AS, Khare A, Conville P, Lau PC, Bergeron H, Rosazza JP	Int J Syst Evol Microbiol	10.1099/ijs.0.007427-0	2009	*

References

#15691

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45197

#19923

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 )

#29152

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 #25576 (see below)

#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;

#68369

Automatically annotated from API 20NE .

#68379

Automatically annotated from API Coryne .

#68382

Automatically annotated from API zym .

#69377

Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .

#80085

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID406680.1 )

#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 .

#25576

IJSEM 2408 2009 ( DOI 10.1099/ijs.0.007427-0 , PubMed 19622667 )

* These data were automatically processed and therefore are not curated

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Nocardia iowensis NRRL 5646

Nocardia iowensis NRRL 5646

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