Name: Rubrobacter aplysinae DSM 27440
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 24540

Type strain:

Species: Rubrobacter aplysinae

Culture col. no.: DSM 27440, CECT 8425, RV 113, JCM 31709

Strain history: CECT 8425 <-- U. R. Abdelmosen; Univ. Würzburg, Germany; RV113.

NCBI tax ID(s): 909625 (species)

SI-ID 392960

DSM 27440, CECT 8425

Special Collections

DSMZ
JCM

Section

Rubrobacter aplysinae DSM 27440 is a bacterium that was isolated from Mediterranean sponge Aplysina aerophoba.

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	*Rubrobacteria*
	Order	*Rubrobacterales*
	Family	*Rubrobacteraceae*
	Genus	*Rubrobacter*
	Species	**Rubrobacter aplysinae**
	Full Scientific Name (LPSN)	Rubrobacter aplysinae Kämpfer et al. 2014

Information on culture and growth conditions Culture and growth conditions

[Ref.: #20789]

Culture medium

BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)

[Ref.: #20789]

Culture medium growth

[Ref.: #20789]

Culture medium link

Medium recipe at MediaDive

[Ref.: #20789]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #20789]			growth	25 °C
[Ref.: #67770]			growth	28 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69481]

Ability of spore formation

yes Confidence in %100

[Ref.: #67770]

Observation

quinones: MK-8, MK-7

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

[Ref.: #20789]	Sample type/isolated from	Mediterranean sponge Aplysina aerophoba
[Ref.: #20789]	Host species	Aplysina aerophoba
[Ref.: #20789]	Geographic location (country and/or sea, region)	Rovinj
[Ref.: #20789]	Country	Croatia
[Ref.: #20789]	Country ISO 3 Code	HRV
[Ref.: #20789]	Continent	Europe

[Ref.: #67770]	Sample type/isolated from	Sponge Aplysina aerophoba
[Ref.: #67770]	Host species	Aplysina aerophoba
[Ref.: #67770]	Geographic location (country and/or sea, region)	close to Rovinj
[Ref.: #67770]	Country	Croatia
[Ref.: #67770]	Country ISO 3 Code	HRV
[Ref.: #67770]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Host

#Invertebrates (Other)

#Porifera (Sponges)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence GU318365 (>99% sequence identity) for Rubrobacter aplysinae subclade from Microbeatlas

Aquatic Samples	124
Soil Samples	663
Animal Samples	161
Plant Samples	41
Total Samples	989

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

[Ref.: #20789]

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.: #20789]	Rubrobacter aplysinae strain RV113 from Croatia 16S ribosomal RNA gene, partial sequence	GU318365	1512	GenBank ENA	909625 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Rubrobacter aplysinae RV113	GCA_001029505	scaffold	GenBank ENA	909625 tax ID
[Ref.: #66792]	Rubrobacter aplysinae strain RV113	909625.5	wgs	PATRIC	909625 tax ID	*
[Ref.: #66792]	Rubrobacter aplysinae RV113	2867637810	draft	JGI IMG/M	909625 tax ID	*

[Ref.: #67770]

GC-content

65.1 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: Rubrobacter aplysinae RV113 NCBI: GCA_001029505.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	yes	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Rubrobacter aplysinae strain RV113 PATRIC: 909625.5
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	70.619	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	79.875	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	73.082	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	54.281	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	69.662	no
[Ref.: #69480]	flagellated	motile2+ⓘ	no	76.184	no

Availability in culture collections External links

[Ref.: #20789]

Culture collection no.

DSM 27440, CECT 8425, RV 113, JCM 31709

[Ref.: #88395]

SI-ID 392960

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Rubrobacter aplysinae sp. nov., isolated from the marine sponge Aplysina aerophoba.	Kampfer P, Glaeser SP, Busse HJ, Abdelmohsen UR, Hentschel U	Int J Syst Evol Microbiol	10.1099/ijs.0.055152-0	2013	*

References

#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 )

#20789

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 27440

#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 )

#88395

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-ID392960.1 )

* These data were automatically processed and therefore are not curated

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Rubrobacter aplysinae RV113

Rubrobacter aplysinae strain RV113

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