Archive BacDiveID:10.13145/bacdive15479.20230509.8.1

Strain identifier

BacDive ID: 15479

Type strain:

Species: Streptomyces poonensis

Strain history: KCC S-0815 <-- IFO 13485 <-- SAJ <-- ISP 5596 <-- ATCC 15723 <-- IMRU 3752 <-- M. J. Thirumalachar.

NCBI tax ID(s): 68255 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.

General

@ref: 9672

BacDive-ID: 15479

DSM-Number: 40596

keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic

description: Streptomyces poonensis DSM 40596 is a spore-forming, mesophilic bacterium that builds an aerial mycelium.

NCBI tax id

NCBI tax id: 68255
Matching level: species

strain history

@ref	history
9672	<- E.B. Shirling, ISP <- ATCC <- H.A. Lechevalier, IMRU <- M.J. Thirumalachar
67770	KCC S-0815 <-- IFO 13485 <-- SAJ <-- ISP 5596 <-- ATCC 15723 <-- IMRU 3752 <-- M. J. Thirumalachar.

doi: 10.13145/bacdive15479.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/actinomycetota
domain: Bacteria
phylum: Actinomycetota
class: Actinomycetes
order: Kitasatosporales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces poonensis
full scientific name: Streptomyces poonensis (Thirumalachar 1960) Pridham 1970 (Approved Lists 1980)
synonyms
- @ref: 20215
- synonym: Chainia poonensis

@ref: 9672

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces poonensis

full scientific name: Streptomyces poonensis (Thirumalachar 1960) Pridham 1970

type strain: yes

Morphology

cell morphology

@ref	motility	confidence	gram stain
69480	no	92.684
69480		100	positive

colony morphology

@ref	colony color	incubation period	medium used
18660	Colourless	10-14 days	ISP 2
18660	Colourless	10-14 days	ISP 3
18660	Colourless	10-14 days	ISP 4
18660	Colourless	10-14 days	ISP 5
18660	Colourless	10-14 days	ISP 6
18660	Colourless	10-14 days	ISP 7

multicellular morphology

@ref	forms multicellular complex	complex name	complex color	medium name
18660	yes	Aerial Mycelium	White/sparse	ISP 2
18660	yes	Aerial Mycelium	White/sparse	ISP 3
18660	yes	Aerial Mycelium	White/sparse	ISP 4
18660	yes	Aerial Mycelium	White/sparse	ISP 5
18660	no			ISP 6
18660	no			ISP 7

Culture and growth conditions

culture medium

@ref	name	growth	link	composition
9672	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)	yes	https://mediadive.dsmz.de/medium/65	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
18660	ISP 2	yes		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
18660	ISP 3	yes		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:
18660	ISP 4	yes		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
18660	ISP 5	yes		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
18660	ISP 6	yes		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
18660	ISP 7	yes		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
9672	STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252)	yes	https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium252.pdf

culture temp

@ref	growth	type	temperature	range
18660	positive	optimum	28	mesophilic
9672	positive	growth	28	mesophilic
67770	positive	growth	28	mesophilic

Physiology and metabolism

spore formation

@ref	spore description	spore formation	confidence
18660	Formation of spore chains (spirales)(Sp), spore surface smooth	yes
69481		yes	100
69480		yes	100

observation

@ref: 20216
observation: Antifungal and antibacterial activity

metabolite utilization

@ref	Chebi-ID	metabolite	utilization activity	kind of utilization tested
68368	5291	gelatin	+	hydrolysis
68368	27897	tryptophan	-	energy source
68368	16199	urea	+	hydrolysis
68368	16947	citrate	+	assimilation
68368	18257	ornithine	-	degradation
68368	25094	lysine	-	degradation
68368	29016	arginine	-	hydrolysis

metabolite production

@ref	Chebi-ID	metabolite	production
68368	15688	acetoin	yes
68368	35581	indole	no
68368	16136	hydrogen sulfide	no

metabolite tests

@ref	Chebi-ID	metabolite	voges-proskauer-test	indole test
68368	15688	acetoin	+
68368	35581	indole		-

enzymes

@ref	value	activity	ec
68368	gelatinase	+
68368	tryptophan deaminase	-	4.1.99.1
68368	urease	+	3.5.1.5
68368	ornithine decarboxylase	-	4.1.1.17
68368	lysine decarboxylase	-	4.1.1.18
68368	arginine dihydrolase	-	3.5.3.6
68368	beta-galactosidase	-	3.2.1.23

API 20E

@ref	ONPG	ADH Arg	LDC Lys	ODC	CIT	H2S	URE	TDA Trp	IND	VP	GEL
18660	-	-	-	-	+	-	+	-	-	+	+

Isolation, sampling and environmental information

taxonmaps

@ref: 69479
File name: preview.99_5370.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_91;97_287;98_1597;99_5370&stattab=map
Last taxonomy: Streptomyces
16S sequence: AB184437
Sequence Identity:
Total samples: 40
soil counts: 34
aquatic counts: 1
animal counts: 5

Safety information

risk assessment

@ref	biosafety level	biosafety level comment
18660	1	German classification
9672	1	Risk group (German classification)

Sequence information

16S sequences

@ref	description	accession	length	database	NCBI tax ID
20218	Streptomyces poonensis gene for 16S ribosomal RNA, partial sequence, strain: JCM 4815	D44382	121	ena	68255
20218	Streptomyces poonensis gene for 16S rRNA, partial sequence, strain: NBRC 12556	AB184103	1475	ena	68255
20218	Streptomyces poonensis gene for 16S rRNA, partial sequence, strain: NBRC 13485	AB184437	1473	ena	68255
20218	Streptomyces poonensis strain NRRL B-2319 16S ribosomal RNA gene, partial sequence	DQ445792	1530	ena	68255

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Streptomyces poonensis JCM 4815	GCA_014650915	scaffold	ncbi	68255
66792	Streptomyces poonensis strain JCM 4815	68255.3	wgs	patric	68255

GC content

@ref: 67770
GC-content: 71.9

Genome-based predictions

predictions

trait	prediction	confidence	training_data
spore-forming	yes	100	no
flagellated	no	97.805	no
gram-positive	yes	86.656	no
anaerobic	no	98.939	no
aerobic	yes	93.741	no
halophile	no	91.99	no
spore-forming	yes	96.556	yes
thermophile	no	96.526	no
glucose-util	yes	89.212	no
motile	no	94.861	no
glucose-ferment	no	88.82	no

External links

@ref: 9672

culture collection no.: DSM 40596, ATCC 15723, CBS 295.66, CBS 786.72, IFO 13485, IMRU 3752, ISP 5596, NBRC 13485, RIA 1446, JCM 4815, BCRC 13311, CGMCC 4.1097, HAMBI 987, IFO 12556, IMET 43406, JCM 3071, JCM 3079, LMG 19326, NBRC 12556, NRRL B-2319, NRRL B-2951, PCM 2246, VKM Ac-1715

straininfo link

@ref: 84566
straininfo: 63614

Reference

@id	authors	catalogue	doi/url	title	journal	pubmed
9672	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40596)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-40596
18660	Wink, J.		http://www.dsmz.de/microorganisms/wink_pdf/DSM40596.pdf	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.		10.1099/ijsem.0.004332	List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20216	Curators of the HKI		http://www.leibniz-hki.de/de/	Collection Description Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI)
20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.		10.1016/j.syapm.2013.11.002	StrainInfo introduces electronic passports for microorganisms.	Syst Appl Microbiol. 37: 42-50 2014	24321274
66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann		https://diaspora-project.de/progress.html#genomes	Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770	Curators of the JCM		https://jcm.brc.riken.jp/en/
68368				Automatically annotated from API 20E
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.		https://microbeatlas.org/	MicrobeAtlas 1.0 beta
69480	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann		https://diaspora-project.de/progress.html#genomes	Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481	Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch		10.21203/rs.3.rs-2527258/v1	Predictions based on the model GenomeNet Sporulation v. 1
84566	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.		10.60712/SI-ID63614.1	StrainInfo: A central database for resolving microbial strain identifiers

General

NCBI tax id

strain history

Name and taxonomic classification

LPSN

synonyms

Morphology

cell morphology

colony morphology

multicellular morphology

Culture and growth conditions

culture medium

culture temp

Physiology and metabolism

spore formation

observation

metabolite utilization

metabolite production

metabolite tests

enzymes

API 20E

Isolation, sampling and environmental information

taxonmaps

Safety information

risk assessment

Sequence information

16S sequences

Genome sequences

GC content

Genome-based predictions

predictions

External links

straininfo link

Reference