Planomonospora venezuelensis (DSM 43178, ATCC 23865, KCC A-0167)

Name: Planomonospora venezuelensis (DSM 43178, ATCC 23865, KCC A-0167)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 16577

Type strain

Strain Designation B-1072

Culture col. no. DSM 43178 ATCC 23865 KCC A-0167 B-1072 VKM Ac-699 9 more

NCBI tax ID(s) 1999

Special Collections DSMZ JCM KCTC Wink compendium

Links

Planomonospora venezuelensis B-1072 is a spore-forming, mesophilic prokaryote that builds an aerial mycelium and was isolated from soil.

spore-forming mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 38274

ATCC 23865,JCM 3167,IFO 15590,NRRL B-16603,VKM Ac-699,CECT 3303,KCTC 9474,NBRC 15590,DSM 43178

@ref 20215

Last LPSN update 2025-12-16 09:50:53

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Streptosporangiales

Family Streptosporangiaceae

Genus Planomonospora

Species Planomonospora venezuelensis

Full scientific name Planomonospora venezuelensis Thiemann 1970 (Approved Lists 1980)

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	positive	99.9

Colony morphology

@ref	Colony color	Incubation period	Medium used
19556	Pastel yellow	10-14 days	ISP 2
19556	Pastel yellow	10-14 days	ISP 3
19556	Pastel yellow	10-14 days	ISP 4
19556	Pastel yellow	10-14 days	ISP 5
19556	Pastel yellow	10-14 days	ISP 6
19556	Pastel yellow	10-14 days	ISP 7

Multicellular morphology

@ref	Complex name	Complex color	Medium name
19556	Aerial Mycelium	White	ISP 2
19556	Aerial Mycelium	White	ISP 3
19556			ISP 4
19556			ISP 5
19556			ISP 6
19556	Aerial Mycelium	White	ISP 7

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
10846	ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)	Medium recipe at MediaDive	Name: ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) Composition: Agar 20.0 g/l Rolled oats 20.0 g/l ZnSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l Distilled water
19556	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
19556	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:
19556	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
19556	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
19556	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
19556	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
10846	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

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
10846	positive	growth	28	mesophilic
19556	positive	optimum	30	mesophilic
67770	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	98.8

Spore formation

@ref	Spore description	Type of spore	Spore formation
19556	Spore surface: smooth	spore

Halophily

@ref	Salt	Growth	Tested relation	Concentration
19556	NaCl	positive	maximum	2.5 %

Observation

67770

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

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity
19556	22599 ChEBI	arabinose	+
68368	29016 ChEBI	arginine	+	from API 20E
19556	62968 ChEBI	cellulose	-
68368	16947 ChEBI	citrate	+	from API 20E
19556	28757 ChEBI	fructose	+
68368	5291 ChEBI	gelatin	+	from API 20E
19556	17234 ChEBI	glucose	+
68368	25094 ChEBI	lysine	+	from API 20E
19556	29864 ChEBI	mannitol	+
19556	17268 ChEBI	myo-inositol	-
68368	18257 ChEBI	ornithine	+	from API 20E
19556	16634 ChEBI	raffinose	-
19556	26546 ChEBI	rhamnose	+/-
19556	17992 ChEBI	sucrose	-
68368	27897 ChEBI	tryptophan	-	from API 20E
68368	16199 ChEBI	urea	+	from API 20E
19556	18222 ChEBI	xylose	-

Metabolite production

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

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test
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
68382	alkaline phosphatase	+	3.1.3.1	from API zym
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
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
68368	beta-galactosidase	-	3.2.1.23	from API 20E
68382	beta-glucosidase	+	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68382	cystine arylamidase	+	3.4.11.3	from API zym
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
68368	gelatinase	+		from API 20E
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
68368	lysine decarboxylase	+	4.1.1.18	from API 20E
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
68368	ornithine decarboxylase	+	4.1.1.17	from API 20E
68382	trypsin	+	3.4.21.4	from API zym
68368	tryptophan deaminase	-	4.1.99.1	from API 20E
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
19556	-	+	+	+	+	-	+	-	-	+	+	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
19556	not determinedn.d.	+	+	+	-	+	+	+	+	+	+	+	-	+	-	+	+	+	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type
10846	soil
67770	Soil

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
10846	1	Risk group (German classification) According to TRBA 466
19556	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	NCBI tax ID	Score
124043	ASM3953533v1 assembly for Planomonospora venezuelensis JCM 3167	contig	GCA_039535335	1999	57.44
66792	ASM1420360v1 assembly for Planomonospora venezuelensis CECT 3303	scaffold	GCA_014203605	1999	53.69
124043	ASM4264922v1 assembly for Planomonospora venezuelensis JCM 3167	scaffold	GCA_042649225	1999	34.91
66792	ASM1840302v1 assembly for Planomonospora venezuelensis NBRC 15590	contig	GCA_018403025	1999

Genome browser: GCA_039535335

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Planomonospora venezuelensis gene for 16S ribosomal RNA	AB028655	1444		1999
124043	Planomonospora venezuelensis strain JCM 3167 16S ribosomal RNA gene, partial sequence.	MT760421	1381		1999

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Planomonospora venezuelensis CECT 3303
NCBI: GCA_014203605

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	89.60	no
125439	motility	BacteriaNetⓘ	no	88.80	no
125439	gram_stain	BacteriaNetⓘ	positive	99.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.80	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Planomonospora venezuelensis CECT 3303
NCBI: GCA_014203605.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	83.78	no
125438	anaerobic	anaerobicⓘ	no	91.22	no
125438	aerobic	aerobicⓘ	yes	85.35	no
125438	spore-forming	spore-formingⓘ	yes	89.32	no
125438	thermophilic	thermophileⓘ	no	93.40	yes
125438	flagellated	motile2+ⓘ	no	59.71	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Enzymology	Molecular detection of Mycobacterium bovis and Mycobacterium bovis BCG (Pasteur) in soil.	Young JS, Gormley E, Wellington EM.	Appl Environ Microbiol	10.1128/aem.71.4.1946-1952.2005	2005
	Planomonospora: A Metabolomics Perspective on an Underexplored Actinobacteria Genus.	Zdouc MM, Iorio M, Maffioli SI, Crusemann M, Donadio S, Sosio M.	J Nat Prod	10.1021/acs.jnatprod.0c00807	2021
Enzymology	Purification and N-terminal amino-acid sequences of bacterial malate dehydrogenases from six actinomycetales strains and from Phenylobacterium immobile, strain E.	Rommel TO, Hund HK, Speth AR, Lingens F	Biol Chem Hoppe Seyler	10.1515/bchm3.1989.370.2.763	1989
Phylogeny	Planomonospora corallina sp. nov., isolated from soil.	Suriyachadkun C, Ngaemthao W, Chunhametha S	Int J Syst Evol Microbiol	10.1099/ijsem.0.001178	2016

References

#10846	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 43178
#19556	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 .
#68382	Automatically annotated from API zym .
#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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Planomonospora venezuelensis (DSM 43178, ATCC 23865, KCC A-0167)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API 20E

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_039535335

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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