Name: Rubellimicrobium aerolatum 5715S-9
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 13778

Type strain:

Species: Rubellimicrobium aerolatum

Strain Designation: 5715S-9

Culture col. no.: DSM 19297, KACC 12504

Strain history: <- S.-W. Kwon, KACC; 5715S-9 <- H.-Y. Weon

NCBI tax ID(s): 1123066 (strain), 490979 (species)

SI-ID 397834

DSM 19297

Section

Rubellimicrobium aerolatum 5715S-9 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from Air sample.

Gram-negative
rod-shaped
aerobe
mesophilic
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	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Rhodobacterales*
	Family	*Roseobacteraceae*
	Genus	*Rubellimicrobium*
	Species	**Rubellimicrobium aerolatum**
	Full Scientific Name (LPSN)	Rubellimicrobium aerolatum Weon et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #32656]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.996

[Ref.: #32656]	Cell length	2.6 µm

[Ref.: #32656]	Cell width	0.8 µm

[Ref.: #32656]	Cell shape	rod-shaped

[Ref.: #32656]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8003]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #8003]

Culture medium growth

[Ref.: #8003]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8003]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #8003]	growth	28 °C
[Ref.: #32656]	growth	05-35 °C
[Ref.: #32656]	optimum	30 °C

[Ref.: #8003]	Temperature range	mesophilic
[Ref.: #32656]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32656]			optimum	7
[Ref.: #32656]			growth	06-07

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32656]

Oxygen tolerance

aerobe

[Ref.: #32656]	Ability of spore formation	no
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.997

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32656]		NaCl		growth	0-1	%
[Ref.: #32656]		NaCl		optimum	0.5	%

[Ref.: #32656]

Observation

aggregates in clumps

	Enzyme	Enzyme activity	EC number
[Ref.: #32656]	alkaline phosphatase	+	3.1.3.1
[Ref.: #32656]	catalase	+	1.11.1.6
[Ref.: #32656]	cytochrome oxidase	+	1.9.3.1

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

[Ref.: #8003]	Sample type/isolated from	Air sample
[Ref.: #8003]	Geographic location (country and/or sea, region)	Suwon
[Ref.: #8003]	Country	Republic of Korea
[Ref.: #8003]	Country ISO 3 Code	KOR
[Ref.: #8003]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Air

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence EU338486 (>99% sequence identity) for Rubellimicrobium aerolatum subclade from Microbeatlas

Aquatic Samples	56
Soil Samples	55
Animal Samples	142
Plant Samples	3
Total Samples	256

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

[Ref.: #8003]

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.: #8003]	Rubellimicrobium aerolatum strain 5715S-9 16S ribosomal RNA gene, partial sequence	EU338486	1354	ENA	490979 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Rubellimicrobium aerolatum DSM 19297	GCA_017872975	contig	GenBank	490979 tax ID	*
[Ref.: #66792]	Rubellimicrobium aerolatum strain DSM 19297	490979.3	wgs	PATRIC	490979 tax ID	*
[Ref.: #66792]	Rubellimicrobium aerolatum DSM 19297	2913276826	draft	JGI IMG/M	490979 tax ID	*

[Ref.: #8003]	GC-content	69 mol%	high performance liquid chromatography (HPLC)
[Ref.: #32656]	GC-content	69 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Rubellimicrobium aerolatum strain DSM 19297 PATRIC: 490979.3
[Ref.: #69481]	spore-forming	yes	55	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Rubellimicrobium aerolatum strain DSM 19297 PATRIC: 490979.3
[Ref.: #69480]	gram-positive	no	98.125	yes
[Ref.: #69480]	anaerobic	no	96.458	no
[Ref.: #69480]	halophile	no	84.028	no
[Ref.: #69480]	spore-forming	no	94.74	yes
[Ref.: #69480]	glucose-util	yes	90.974	no
[Ref.: #69480]	aerobic	yes	89.723	yes
[Ref.: #69480]	motile	no	66.786	yes
[Ref.: #69480]	thermophile	no	94.228	yes
[Ref.: #69480]	flagellated	no	90.306	yes
[Ref.: #69480]	glucose-ferment	no	88.045	no

Availability in culture collections External links

[Ref.: #8003]

Culture collection no.

DSM 19297, KACC 12504

[Ref.: #82957]

SI-ID 397834

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Rubellimicrobium rubrum sp. nov., a novel bright reddish bacterium isolated from a lichen sample.	Jiang LQ, Zhang K, Li GD, Wang XY, Shi SB, Li QY, An DF, Lang L, Wang LS, Jiang CL, Jiang Y	Antonie Van Leeuwenhoek	10.1007/s10482-019-01304-5	2019	*
Phylogeny	Rubellimicrobium roseum sp. nov., a Gram-negative bacterium isolated from the forest soil sample.	Cao YR, Jiang Y, Wang Q, Tang SK, He WX, Xue QH, Xu LH, Jiang CL	Antonie Van Leeuwenhoek	10.1007/s10482-010-9452-2	2010	*
Phylogeny	Rubellimicrobium aerolatum sp. nov., isolated from an air sample in Korea.	Weon HY, Son JA, Yoo SH, Hong SB, Jeon YA, Kwon SW, Koo BS	Int J Syst Evol Microbiol	10.1099/ijs.0.65856-0	2009	*

References

#8003

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19297

#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 )

#32656

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #28867 (see below)

#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) .

#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 )

#82957

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-ID397834.1 )

#28867

IJSEM 406 2009 ( DOI 10.1099/ijs.0.65856-0 , PubMed 19196786 )

* These data were automatically processed and therefore are not curated

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Rubellimicrobium aerolatum strain DSM 19297

Rubellimicrobium aerolatum strain DSM 19297

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