Name: Sphaerisporangium rubeum 3D-72(35)
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 16625

Type strain:

Species: Sphaerisporangium rubeum

Strain Designation: 3D-72(35)

Culture col. no.: DSM 44936, JCM 13067, BCC 36479, CGMCC 4.5529, TBRC 573

Strain history: I. Ara 3D-72(35).

NCBI tax ID(s): 321317 (species)

SI-ID 297456

DSM 44936, JCM 13067

Special Collections

DSMZ
JCM

Section

Sphaerisporangium rubeum 3D-72 is an aerobe, spore-forming bacterium that was isolated from sandy soil.

spore-forming
aerobe
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	*Streptosporangiales*
	Family	*Streptosporangiaceae*
	Genus	*Sphaerisporangium*
	Species	**Sphaerisporangium rubeum**
	Full Scientific Name (LPSN)	Sphaerisporangium rubeum corrig. Ara and Kudo 2007

Synonym

Sphaerosporangium rubeum

Information on culture and growth conditions Culture and growth conditions

[Ref.: #12105]

Culture medium

ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)

[Ref.: #12105]

Culture medium growth

[Ref.: #12105]

Culture medium link

Medium recipe at MediaDive

[Ref.: #12105]

Culture medium composition

expand / minimize

[Ref.: #12105]

Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

[Ref.: #12105]

Culture medium growth

[Ref.: #12105]

Culture medium link

Medium recipe at MediaDive

[Ref.: #12105]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #12105]			growth	28 °C
[Ref.: #67770]			growth	28 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #12105]

Oxygen tolerance

aerobe

[Ref.: #69481]

Ability of spore formation

yes Confidence in %100

[Ref.: #67770]

Observation

quinones: MK-9(III,VIII-H₄), MK-9(H₆)

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

[Ref.: #12105]	Sample type/isolated from	sandy soil
[Ref.: #12105]	Geographic location (country and/or sea, region)	Chokoria
[Ref.: #12105]	Country	Bangladesh
[Ref.: #12105]	Country ISO 3 Code	BGD
[Ref.: #12105]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Sandy soil at a forest-side waterfall
[Ref.: #67770]	Geographic location (country and/or sea, region)	Chokoria, Cox's Bazar
[Ref.: #67770]	Country	Bangladesh
[Ref.: #67770]	Country ISO 3 Code	BGD
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Sandy
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

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

[Ref.: #12105]

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.: #12105]	Sphaerisporangium rubeum gene for 16S rRNA, partial sequence, strain: 3D-72(35)	AB208718	1502	GenBank ENA	321317 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Sphaerisporangium rubeum DSM 44936	GCA_014207705	contig	GenBank ENA	321317 tax ID	*
[Ref.: #66792]	Sphaerisporangium rubeum strain DSM 44936	321317.3	wgs	PATRIC	321317 tax ID	*
[Ref.: #66792]	Sphaerisporangium rubeum DSM 44936	2863055337	draft	JGI IMG/M	321317 tax ID	*

[Ref.: #12105]	GC-content	71 mol%
[Ref.: #67770]	GC-content	71 mol%	high performance liquid chromatography (HPLC)

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: Sphaerisporangium rubeum strain DSM 44936 PATRIC: 321317.3
[Ref.: #69481]	spore-forming	spore-formingⓘ	yes	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Sphaerisporangium rubeum strain DSM 44936 PATRIC: 321317.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	89.227	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	94.156	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	yes	87.847	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	87.754	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	94.4	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	86	no

Availability in culture collections External links

[Ref.: #12105]

Culture collection no.

DSM 44936, JCM 13067, BCC 36479, CGMCC 4.5529, TBRC 573

[Ref.: #85646]

SI-ID 297456

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Sphaerisporangium aureirubrum sp. nov., an actinomycete isolated from soil.	Guo L, Zhao J, Liu C, Bai L, Sun P, Han C, Li J, Guo X, Xiang W, Wang X	Int J Syst Evol Microbiol	10.1099/ijsem.0.000554	2015	*

References

#12105

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 44936

#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 )

#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;

#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 )

#85646

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-ID297456.1 )

* These data were automatically processed and therefore are not curated

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Sphaerisporangium rubeum strain DSM 44936

Sphaerisporangium rubeum strain DSM 44936

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