Name: Streptomyces somaliensis DSM 40738
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 15604

Type strain:

Species: Streptomyces somaliensis

Culture col. no.: DSM 40738, ATCC 33201, IMRU 1274, IP 733, JCM 12659, KCTC 9044, NCTC 11332, NRRL B-12077, RIA 1188, VKM Ac-1898

Strain history: NCTC 11332 <-- R. Gordon IMRU 1274 <-- F. Mariat IP733.

NCBI tax ID(s): 1134445 (strain), 78355 (species)

SI-ID 360119

ATCC 33201, DSM 40738, KCTC 9044, NCTC 11332, CIP 733, JCM 12659, NRRL B-12077

Special Collections

Other strains from Streptomyces somaliensis

Section

Streptomyces somaliensis DSM 40738 is a spore-forming, Gram-positive bacterium that was isolated from mycetoma on foot of 20-year old male.

Gram-positive
spore-forming
16S sequence
Bacteria
genome sequence

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	*Kitasatosporales*
	Family	*Streptomycetaceae*
	Genus	*Streptomyces*
	Species	**Streptomyces somaliensis**
	Full Scientific Name (LPSN)	Streptomyces somaliensis (Brumpt 1906) Waksman and Henrici 1948 (Approved Lists 1980)

Synonym

"Indiella somaliensis"

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %90.143

[Ref.: #69480]	Motility	no Confidence in %91

Information on culture and growth conditions Culture and growth conditions

[Ref.: #9741]

Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

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Culture medium

SPORULATION-AGAR (SA) (DSMZ Medium 555)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

[Ref.: #9741]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #9741]			growth	28 °C
[Ref.: #67770]			growth	28 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]

Oxygen tolerance

aerobe Confidence in %90.011

[Ref.: #69481]

Ability of spore formation

yes Confidence in %100

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

[Ref.: #9741]	Sample type/isolated from	mycetoma on foot of 20-year old male
[Ref.: #9741]	Country	Somalia
[Ref.: #9741]	Country ISO 3 Code	SOM
[Ref.: #9741]	Continent	Africa

[Ref.: #67770]	Sample type/isolated from	Mycetoma on foot of a 20-year-old male
[Ref.: #67770]	Country	Somalia
[Ref.: #67770]	Country ISO 3 Code	SOM
[Ref.: #67770]	Continent	Africa
* marker position based on {}

Isolation sources categories

#Infection	#Disease	-
#Infection	#Patient	-
#Host Body-Site	#Limb	#Foot
#Host	#Human	#Male

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AJ007403 (>99% sequence identity) for Streptomyces from Microbeatlas

Aquatic Samples	41
Soil Samples	538
Animal Samples	100
Plant Samples	96
Total Samples	775

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

[Ref.: #9741]

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.: #20218]	Streptomyces somaliensis DSM 40738 16S ribosomal RNA gene, partial sequence	AY999731	1450	GenBank ENA	1134445 tax ID	*
[Ref.: #20218]	Streptomyces somaliensis clone E2 16S ribosomal RNA gene, partial sequence	AY262297	504	GenBank ENA	1134445 tax ID	*
[Ref.: #20218]	Streptomyces somaliensis strain DSM 40738, 16S rRNA gene	AJ007403	1483	GenBank ENA	1134445 tax ID	*

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Streptomyces somaliensis DSM 40738	GCA_000258595	contig	GenBank ENA	1134445 tax ID
[Ref.: #67770]	Streptomyces somaliensis DSM 40738	GCA_012396115	contig	GenBank ENA	1134445 tax ID
[Ref.: #66792]	Streptomyces somaliensis DSM 40738	1134445.8	wgs	PATRIC	1134445 tax ID	*
[Ref.: #66792]	Streptomyces somaliensis DSM 40738	1134445.3	wgs	PATRIC	1134445 tax ID	*
[Ref.: #66792]	Streptomyces somaliensis DSM 40738	2548876818	draft	JGI IMG/M	1134445 tax ID	*
[Ref.: #66792]	Streptomyces somaliensis DSM 40738	GCA_024349285	scaffold	GenBank ENA	1134445 tax ID	*

[Ref.: #67770]

GC-content

74.1 mol%

genome sequence analysis

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Streptomyces somaliensis DSM 40738 PATRIC: 1134445.3
[Ref.: #69481]	spore-forming	spore-formingⓘ	yes	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Streptomyces somaliensis DSM 40738 PATRIC: 1134445.8
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	90.143	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	97.212	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	yes	82.631	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	90.011	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	89.929	no
[Ref.: #69480]	flagellated	motile2+ⓘ	no	91	no

Availability in culture collections External links

[Ref.: #9741]

Culture collection no.

DSM 40738, ATCC 33201, IMRU 1274, IP 733, JCM 12659, KCTC 9044, NCTC 11332, NRRL B-12077, RIA 1188, VKM Ac-1898

[Ref.: #84691]

SI-ID 360119

Literature:

Topic	Title	Authors	Journal	DOI	Year
Genetics	Draft genome sequence of the human pathogen Streptomyces somaliensis, a significant cause of actinomycetoma.	Kirby R, Sangal V, Tucker NP, Zakrzewska-Czerwinska J, Wierzbicka K, Herron PR, Chu CJ, Chandra G, Fahal AH, Goodfellow M, Hoskisson PA	J Bacteriol	10.1128/JB.00534-12	2012	*

References

#9741

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 40738

#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;

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: 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: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#84691

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-ID360119.1 )

* These data were automatically processed and therefore are not curated

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