Name: Pseudonocardia benzenivorans B5
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 13387

Type strain:

Species: Pseudonocardia benzenivorans

Strain Designation: B5

Culture col. no.: DSM 44703, CIP 107928, CCUG 49018, JCM 12694

Strain history: CIP 107928 <-- P. Kämpfer B5 <-- A. Prieger-Kraft.

NCBI tax ID(s): 228005 (species)

SI-ID 132027

CIP 107928, DSM 44703, CCUG 49018, JCM 12694

Other strains from Pseudonocardia benzenivorans

P. benzenivorans

Section

Pseudonocardia benzenivorans B5 is an aerobe, mesophilic, Gram-positive bacterium that builds an aerial mycelium and was isolated from enrichment culture from soil.

Gram-positive
rod-shaped
aerobe
mesophilic
16S sequence
Bacteria

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Pseudonocardiales*
	Family	*Pseudonocardiaceae*
	Genus	*Pseudonocardia*
	Species	**Pseudonocardia benzenivorans**
	Full Scientific Name (LPSN)	Pseudonocardia benzenivorans Kämpfer and Kroppenstedt 2004

Information on morphological and physiological properties Morphology

[Ref.: #30010]	Gram stain	positive

[Ref.: #30010]	Cell shape	rod-shaped

[Ref.: #20097]	Colony color	Sand yellow (1002)
[Ref.: #20097]	Incubation period	10-14 days
[Ref.: #20097]	Cultivation medium used	ISP 2

[Ref.: #20097]	Colony color	Sand yellow (1002)
[Ref.: #20097]	Incubation period	10-14 days
[Ref.: #20097]	Cultivation medium used	ISP 3

[Ref.: #20097]	Colony color	Beige (1001)
[Ref.: #20097]	Incubation period	10-14 days
[Ref.: #20097]	Cultivation medium used	ISP 4

[Ref.: #20097]	Colony color	Beige (1001)
[Ref.: #20097]	Incubation period	10-14 days
[Ref.: #20097]	Cultivation medium used	ISP 5

[Ref.: #20097]	Colony color	Rose (3017)
[Ref.: #20097]	Incubation period	10-14 days
[Ref.: #20097]	Cultivation medium used	ISP 7

[Ref.: #20097]	Incubation period	10-14 days
[Ref.: #20097]	Cultivation medium used	ISP 6

[Ref.: #58442]	Incubation period	5-12 days

[Ref.: #30010]

Pigment production

[Ref.: #20097]	Multicellular complex forming ability	yes
[Ref.: #20097]	Multicellular complex name	Aerial Mycelium
[Ref.: #20097]	Multicellular complex color	White
[Ref.: #20097]	Medium Name (multicellularity)	ISP 2

[Ref.: #20097]	Multicellular complex forming ability	yes
[Ref.: #20097]	Multicellular complex name	Aerial Mycelium
[Ref.: #20097]	Multicellular complex color	White
[Ref.: #20097]	Medium Name (multicellularity)	ISP 3

[Ref.: #20097]	Multicellular complex forming ability	yes
[Ref.: #20097]	Multicellular complex name	Aerial Mycelium
[Ref.: #20097]	Multicellular complex color	White
[Ref.: #20097]	Medium Name (multicellularity)	ISP 4

[Ref.: #20097]	Multicellular complex forming ability	yes
[Ref.: #20097]	Multicellular complex name	Aerial Mycelium
[Ref.: #20097]	Multicellular complex color	White
[Ref.: #20097]	Medium Name (multicellularity)	ISP 5

[Ref.: #20097]	Multicellular complex forming ability	no
[Ref.: #20097]	Medium Name (multicellularity)	ISP 6

[Ref.: #20097]	Multicellular complex forming ability	yes
[Ref.: #20097]	Multicellular complex name	Aerial Mycelium
[Ref.: #20097]	Multicellular complex color	White
[Ref.: #20097]	Medium Name (multicellularity)	ISP 7

Information on culture and growth conditions Culture and growth conditions

[Ref.: #11894]

Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

[Ref.: #11894]

Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

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Culture medium

GYM+S MEDIUM (DSMZ Medium 214)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

[Ref.: #11894]

Culture medium composition

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[Ref.: #20097]

Culture medium

ISP 2

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Culture medium growth

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Culture medium composition

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Culture medium

ISP 3

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Culture medium growth

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Culture medium composition

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Culture medium

ISP 4

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Culture medium growth

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Culture medium composition

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Culture medium

ISP 5

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Culture medium growth

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Culture medium composition

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Culture medium

ISP 7

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Culture medium growth

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Culture medium composition

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Culture medium

ISP 6

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Culture medium growth

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Culture medium composition

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		Temperature
[Ref.: #11894]	growth	28 °C
[Ref.: #20097]	optimum	28 °C
[Ref.: #30010]	growth	25-30 °C
[Ref.: #30010]	optimum	27.5 °C
[Ref.: #58442]	growth	30 °C
[Ref.: #67770]	growth	28 °C

[Ref.: #11894]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30010]	Oxygen tolerance	aerobe
[Ref.: #58442]	Oxygen tolerance	aerobe

[Ref.: #30010]

Ability of spore formation

[Ref.: #67770]

Observation

quinones: MK-8(H₄)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30010]	4-hydroxybenzoate ChEBI	+	carbon source
[Ref.: #20097]	arabinose ChEBI	-
[Ref.: #20097]	cellulose ChEBI	+
[Ref.: #20097]	fructose ChEBI	-
[Ref.: #20097]	glucose ChEBI	+
[Ref.: #30010]	itaconate ChEBI	+	carbon source
[Ref.: #30010]	lactate ChEBI	+	carbon source
[Ref.: #20097]	mannitol ChEBI	-
[Ref.: #30010]	mannose ChEBI	+	carbon source
[Ref.: #20097]	myo-inositol ChEBI	+
[Ref.: #30010]	phenylalanine ChEBI	+	carbon source
[Ref.: #20097]	raffinose ChEBI	+
[Ref.: #20097]	rhamnose ChEBI	+
[Ref.: #30010]	ribose ChEBI	+	carbon source
[Ref.: #30010]	serine ChEBI	+	carbon source
[Ref.: #20097]	sucrose ChEBI	-
[Ref.: #30010]	trehalose ChEBI	+	carbon source
[Ref.: #20097]	xylose ChEBI	+
[Ref.: #30010]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	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
[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
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #30010]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	-		* from API zym
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

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.: #20097]	878	not determinedn.d.	-	+	+	-	+	-	-	-	-	-	-	-	-	-	+	-	-	-	-

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

[Ref.: #11894]	Sample type/isolated from	enrichment culture from soil
[Ref.: #11894]	Geographic location (country and/or sea, region)	Sachsen, Bitterfeld
[Ref.: #11894]	Country	Germany
[Ref.: #11894]	Country ISO 3 Code	DEU
[Ref.: #11894]	Continent	Europe

[Ref.: #67770]	Sample type/isolated from	Enrichment culture from soil
[Ref.: #67770]	Geographic location (country and/or sea, region)	Bitterfeld
[Ref.: #67770]	Country	Germany
[Ref.: #67770]	Country ISO 3 Code	DEU
[Ref.: #67770]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Engineered	#Laboratory	#Lab enrichment
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AJ556156 (>99% sequence identity) for Pseudonocardia from Microbeatlas

Aquatic Samples	241
Soil Samples	1233
Animal Samples	242
Plant Samples	132
Total Samples	1848

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

[Ref.: #11894]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #20097]	Biosafety level	1	German classification

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.: #11894]	Pseudonocardia benzenivorans partial 16S rRNA gene, type strain B5	AJ556156	1494	ENA	228005 tax ID

Availability in culture collections External links

[Ref.: #11894]

Culture collection no.

DSM 44703, CIP 107928, CCUG 49018, JCM 12694

[Ref.: #82584]

SI-ID 132027

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pseudonocardia benzenivorans sp. nov.	Kampfer P, Kroppenstedt RM	Int J Syst Evol Microbiol	10.1099/ijs.0.02825-0	2004	*

References

#11894

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 44703

#20097

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 )

#30010

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 #26374 (see below)

#58442 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 49018
#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 .

#82584

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-ID132027.1 )

#26374

IJSEM 749 2004 ( DOI 10.1099/ijs.0.02825-0 , PubMed 15143019 )

* These data were automatically processed and therefore are not curated

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