Name: Rubellimicrobium thermophilum C-lvkR2A-2
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 13774

Type strain:

Species: Rubellimicrobium thermophilum

Strain Designation: C-lvkR2A-2, C-lvk-R2A-2

Culture col. no.: DSM 16684, CCUG 51817, HAMBI 2421, CIP 109278

Strain history: CIP <- 2006, CCUG <- 2005, M. Salkinoja-Salonen, Helsinki, Finland <- M.Kolari, Helsinki, Finland:strain C-lvk-R2A-2

NCBI tax ID(s): 1123069 (strain), 295419 (species)

SI-ID 297313

CCUG 51817, DSM 16684, HAMBI 2421, CIP 109278

Special Collections

Section

Rubellimicrobium thermophilum C-lvkR2A-2 is an aerobe, thermophilic, Gram-negative bacterium that was isolated from coloured deposits in a pulp dryer.

Gram-negative
motile
rod-shaped
aerobe
thermophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Rhodobacterales*
	Family	*Roseobacteraceae*
	Genus	*Rubellimicrobium*
	Species	**Rubellimicrobium thermophilum**
	Full Scientific Name (LPSN)	Rubellimicrobium thermophilum Denner et al. 2006

Information on morphological and physiological properties Morphology

[Ref.: #31531]	Gram stain	negative
[Ref.: #123508]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %97.833

[Ref.: #31531]	Cell length	02-04 µm

[Ref.: #31531]	Cell width	0.6-0.8 µm

[Ref.: #31531]	Cell shape	rod-shaped
[Ref.: #123508]	Cell shape	rod-shaped

[Ref.: #31531]	Motility	yes
[Ref.: #123508]	Motility	yes

[Ref.: #59328]

Incubation period

2 days

[Ref.: #31531]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6564]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #6564]

Culture medium growth

[Ref.: #6564]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6564]

Culture medium composition

expand / minimize

[Ref.: #37498]

Culture medium

MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromati

[Ref.: #37498]

Culture medium growth

[Ref.: #37498]

Culture medium composition

expand / minimize

[Ref.: #123508]

Culture medium

CIP Medium 566

[Ref.: #123508]

Culture medium growth

[Ref.: #123508]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #6564]	growth	45-52 °C
[Ref.: #31531]	growth	28-37 °C
[Ref.: #31531]	optimum	28-37 °C
[Ref.: #37498]	growth	45 °C
[Ref.: #59328]	growth	42-45 °C

	pH	Kind of pH		pH
[Ref.: #31531]			optimum	7
[Ref.: #31531]			growth	7

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31531]	Oxygen tolerance	aerobe
[Ref.: #59328]	Oxygen tolerance	aerobe
[Ref.: #123508]	Oxygen tolerance	facultative anaerobe

[Ref.: #31531]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %94

[Ref.: #31531]

Observation

aggregates in chains

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31531]	acetate ChEBI	+	carbon source
[Ref.: #31531]	arabinose ChEBI	+	carbon source
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #31531]	cellobiose ChEBI	+	carbon source
[Ref.: #68369]	D-glucose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-mannose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	esculin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #31531]	fructose ChEBI	+	carbon source
[Ref.: #31531]	galactose ChEBI	+	carbon source
[Ref.: #68369]	gelatin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #31531]	gluconate ChEBI	+	carbon source
[Ref.: #68369]	gluconate ChEBI	+	assimilation	* from API 20NE
[Ref.: #31531]	glucose ChEBI	+	carbon source
[Ref.: #68369]	L-arabinose ChEBI	+	assimilation	* from API 20NE
[Ref.: #31531]	lactate ChEBI	+	carbon source
[Ref.: #31531]	malate ChEBI	+	carbon source
[Ref.: #31531]	maltose ChEBI	+	carbon source
[Ref.: #68369]	maltose ChEBI	+	assimilation	* from API 20NE
[Ref.: #31531]	mannitol ChEBI	+	carbon source
[Ref.: #31531]	mannose ChEBI	+	carbon source
[Ref.: #31531]	melibiose ChEBI	+	carbon source
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #123508]	nitrate ChEBI	-	reduction
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #123508]	nitrite ChEBI	-	reduction
[Ref.: #31531]	ornithine ChEBI	+	carbon source
[Ref.: #31531]	proline ChEBI	+	carbon source
[Ref.: #31531]	pyruvate ChEBI	+	carbon source
[Ref.: #31531]	rhamnose ChEBI	+	carbon source
[Ref.: #31531]	ribitol ChEBI	+	carbon source
[Ref.: #31531]	ribose ChEBI	+	carbon source
[Ref.: #31531]	salicin ChEBI	+	carbon source
[Ref.: #31531]	sorbitol ChEBI	+	carbon source
[Ref.: #31531]	sucrose ChEBI	+	carbon source
[Ref.: #31531]	trehalose ChEBI	+	carbon source
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #31531]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #123508]		indole ChEBI	no
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	-	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	-	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68382]	beta-galactosidase	+	3.2.1.23	* from API zym
[Ref.: #68369]	beta-glucosidase	+	3.2.1.21	* from API 20NE
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #31531]	catalase	+	1.11.1.6
[Ref.: #123508]	catalase	+	1.11.1.6
[Ref.: #31531]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68369]	gelatinase	+		* from API 20NE
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #123508]	oxidase	+
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #31531]	urease	+	3.5.1.5
[Ref.: #123508]	urease	+	3.5.1.5
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

API® 20NE:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #6564]	27694	-	-	-	-	-	+	+	+	+	+	+	+	-	+	+	-	+/-	+/-	-	-	not determinedn.d.

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #6564]	14664	-	-	+	+	-	+	+/-	+/-	-	-	-	-	-	+	-	+	-	-	-	-
[Ref.: #123508]	11762	-	-	+	+	-	+	+	-	-	-	-	+	-	+	-	+	+	-	-	-

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	ribulose monophosphate pathway	100	2 of 2
[Ref.: #66794]	pentose phosphate pathway	100	11 of 11
[Ref.: #66794]	Entner Doudoroff pathway	100	10 of 10
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	gallate degradation	100	5 of 5
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	ethanol fermentation	100	2 of 2
[Ref.: #66794]	quinate degradation	100	2 of 2
[Ref.: #66794]	octane oxidation	100	3 of 3
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	glycogen biosynthesis	100	4 of 4
[Ref.: #66794]	C4 and CAM-carbon fixation	100	8 of 8
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	valine metabolism	100	9 of 9
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	ketogluconate metabolism	100	8 of 8
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	methane metabolism	100	3 of 3
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	phenylalanine metabolism	92.31	12 of 13
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	serine metabolism	88.89	8 of 9
[Ref.: #66794]	glutamate and glutamine metabolism	85.71	24 of 28
[Ref.: #66794]	photosynthesis	85.71	12 of 14
[Ref.: #66794]	purine metabolism	85.11	80 of 94
[Ref.: #66794]	proline metabolism	81.82	9 of 11
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	starch degradation	80	8 of 10
[Ref.: #66794]	methylglyoxal degradation	80	4 of 5
[Ref.: #66794]	NAD metabolism	77.78	14 of 18
[Ref.: #66794]	CO2 fixation in Crenarchaeota	77.78	7 of 9
[Ref.: #66794]	chorismate metabolism	77.78	7 of 9
[Ref.: #66794]	methionine metabolism	76.92	20 of 26
[Ref.: #66794]	vitamin B1 metabolism	76.92	10 of 13
[Ref.: #66794]	alanine metabolism	75.86	22 of 29
[Ref.: #66794]	pyrimidine metabolism	75.56	34 of 45
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	arginine metabolism	75	18 of 24
[Ref.: #66794]	flavin biosynthesis	73.33	11 of 15
[Ref.: #66794]	histidine metabolism	72.41	21 of 29
[Ref.: #66794]	degradation of sugar acids	72	18 of 25
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	heme metabolism	71.43	10 of 14
[Ref.: #66794]	reductive acetyl coenzyme A pathway	71.43	5 of 7
[Ref.: #66794]	tetrahydrofolate metabolism	71.43	10 of 14
[Ref.: #66794]	ubiquinone biosynthesis	71.43	5 of 7
[Ref.: #66794]	propanol degradation	71.43	5 of 7
[Ref.: #66794]	citric acid cycle	71.43	10 of 14
[Ref.: #66794]	propionate fermentation	70	7 of 10
[Ref.: #66794]	threonine metabolism	70	7 of 10
[Ref.: #66794]	leucine metabolism	69.23	9 of 13
[Ref.: #66794]	degradation of sugar alcohols	68.75	11 of 16
[Ref.: #66794]	degradation of pentoses	67.86	19 of 28
[Ref.: #66794]	d-mannose degradation	66.67	6 of 9
[Ref.: #66794]	4-hydroxymandelate degradation	66.67	6 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	66.67	6 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	66.67	6 of 9
[Ref.: #66794]	allantoin degradation	66.67	6 of 9
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	non-pathway related	65.79	25 of 38
[Ref.: #66794]	tryptophan metabolism	65.79	25 of 38
[Ref.: #66794]	glycolysis	64.71	11 of 17
[Ref.: #66794]	lipid metabolism	64.52	20 of 31
[Ref.: #66794]	oxidative phosphorylation	63.74	58 of 91
[Ref.: #66794]	metabolism of disaccharids	63.64	7 of 11
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
[Ref.: #66794]	dTDPLrhamnose biosynthesis	62.5	5 of 8
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	61.54	8 of 13
[Ref.: #66794]	hydrogen production	60	3 of 5
[Ref.: #66794]	glycogen metabolism	60	3 of 5
[Ref.: #66794]	creatinine degradation	60	3 of 5
[Ref.: #66794]	3-phenylpropionate degradation	60	9 of 15
[Ref.: #66794]	myo-inositol biosynthesis	60	6 of 10
[Ref.: #66794]	isoprenoid biosynthesis	57.69	15 of 26
[Ref.: #66794]	tyrosine metabolism	57.14	8 of 14
[Ref.: #66794]	glutathione metabolism	57.14	8 of 14
[Ref.: #66794]	lysine metabolism	57.14	24 of 42
[Ref.: #66794]	cysteine metabolism	55.56	10 of 18
[Ref.: #66794]	phenol degradation	55	11 of 20
[Ref.: #66794]	ascorbate metabolism	54.55	12 of 22
[Ref.: #66794]	vitamin B6 metabolism	54.55	6 of 11
[Ref.: #66794]	urea cycle	53.85	7 of 13
[Ref.: #66794]	sulfate reduction	53.85	7 of 13
[Ref.: #66794]	cyclohexanol degradation	50	2 of 4
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	carnitine metabolism	50	4 of 8
[Ref.: #66794]	glycolate and glyoxylate degradation	50	3 of 6
[Ref.: #66794]	toluene degradation	50	2 of 4
[Ref.: #66794]	degradation of hexoses	50	9 of 18
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	50	6 of 12
[Ref.: #66794]	biotin biosynthesis	50	2 of 4
[Ref.: #66794]	acetate fermentation	50	2 of 4
[Ref.: #66794]	resorcinol degradation	50	1 of 2
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	4-hydroxyphenylacetate degradation	50	5 of 10
[Ref.: #66794]	selenocysteine biosynthesis	50	3 of 6
[Ref.: #66794]	d-xylose degradation	45.45	5 of 11
[Ref.: #66794]	vitamin B12 metabolism	44.12	15 of 34
[Ref.: #66794]	androgen and estrogen metabolism	43.75	7 of 16
[Ref.: #66794]	polyamine pathway	43.48	10 of 23
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	coenzyme M biosynthesis	40	4 of 10
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	metabolism of amino sugars and derivatives	40	2 of 5
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	sulfoquinovose degradation	33.33	1 of 3
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	pantothenate biosynthesis	33.33	2 of 6
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	nitrate assimilation	33.33	3 of 9
[Ref.: #66794]	bile acid biosynthesis, neutral pathway	29.41	5 of 17
[Ref.: #66794]	benzoyl-CoA degradation	28.57	2 of 7
[Ref.: #66794]	mevalonate metabolism	28.57	2 of 7
[Ref.: #66794]	arachidonic acid metabolism	27.78	5 of 18
[Ref.: #66794]	alginate biosynthesis	25	1 of 4
[Ref.: #66794]	lactate fermentation	25	1 of 4
		Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #6564]	Sample type/isolated from	coloured deposits in a pulp dryer
[Ref.: #6564]	Country	Finland
[Ref.: #6564]	Country ISO 3 Code	FIN
[Ref.: #6564]	Continent	Europe

[Ref.: #59328]	Sample type/isolated from	Water,paper machine
[Ref.: #59328]	Sampling date	2001
[Ref.: #59328]	Country	Finland
[Ref.: #59328]	Country ISO 3 Code	FIN
[Ref.: #59328]	Continent	Europe

[Ref.: #123508]	Sample type/isolated from	Environment, Water, paper machine
[Ref.: #123508]	Country	Finland
[Ref.: #123508]	Country ISO 3 Code	FIN
[Ref.: #123508]	Continent	Europe
[Ref.: #123508]	Isolation date	2001
* marker position based on {}

Isolation sources categories

#Engineered

#Industrial

#Engineered product

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AJ844281 (>99% sequence identity) for Rubellimicrobium thermophilum subclade from Microbeatlas

Aquatic Samples	473
Soil Samples	458
Animal Samples	451
Plant Samples	45
Total Samples	1427

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

[Ref.: #6564]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #123508]	Biosafety level	1	Risk group (French classification)

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.: #6564]	Rubellimicrobium thermophilum 16S rRNA gene, type strain C-lvk-R2A-2	AJ844281	1449	GenBank ENA	295419 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Rubellimicrobium thermophilum DSM 16684	GCA_000442315	scaffold	GenBank ENA	1123069 tax ID	*
[Ref.: #66792]	Rubellimicrobium thermophilum DSM 16684	1123069.3	wgs	PATRIC	1123069 tax ID	*
[Ref.: #66792]	Rubellimicrobium thermophilum DSM 16684	2521172529	draft	JGI IMG/M	1123069 tax ID	*

[Ref.: #6564]	GC-content	70.0 mol%
[Ref.: #31531]	GC-content	70 mol%

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: Rubellimicrobium thermophilum DSM 16684 DSM 16684 NCBI: GCA_000442315.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	94	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Rubellimicrobium thermophilum DSM 16684 DSM 16684 NCBI: GCA_000442315.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	97.833	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	90.227	yes
[Ref.: #69480]	aerobic	aerobicⓘ	yes	80.086	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	88.712	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	89.235	no
[Ref.: #69480]	flagellated	motile2+ⓘ	no	57.388	no

Availability in culture collections External links

[Ref.: #6564]

Culture collection no.

DSM 16684, CCUG 51817, HAMBI 2421, CIP 109278

[Ref.: #82953]

SI-ID 297313

Literature:

Only first 10 entries are displayed. Click here to see all.

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	*
Genetics	Genome sequence of the reddish-pigmented Rubellimicrobium thermophilum type strain (DSM 16684(T)), a member of the Roseobacter clade.	Fiebig A, Riedel T, Gronow S, Petersen J, Klenk HP, Goker M	Stand Genomic Sci	10.4056/sigs.4247911	2013	*
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	*
Phylogeny	Rubellimicrobium mesophilum sp. nov., a mesophilic, pigmented bacterium isolated from soil.	Dastager SG, Lee JC, Ju YJ, Park DJ, Kim CJ	Int J Syst Evol Microbiol	10.1099/ijs.0.65590-0	2008	*
Phylogeny	Rubellimicrobium thermophilum gen. nov., sp. nov., a red-pigmented, moderately thermophilic bacterium isolated from coloured slime deposits in paper machines.	Denner EBM, Kolari M, Hoornstra D, Tsitko I, Kampfer P, Busse HJ, Salkinoja-Salonen M	Int J Syst Evol Microbiol	10.1099/ijs.0.63751-0	2006	*

References

#6564

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16684

#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 )

#31531

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 #27825 (see below)

#37498 ; Curators of the CIP;
#59328 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 51817

#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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#68369

Automatically annotated from API 20NE .

#68382

Automatically annotated from API zym .

#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 )

#82953

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-ID297313.1 )

#123508 Collection of Institut Pasteur ; Curators of the CIP; CIP 109278

#27825

IJSEM 1355 2006 ( DOI 10.1099/ijs.0.63751-0 , PubMed 16738114 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Rubellimicrobium thermophilum in external resources:
SILVA
BRENDA
PANGAEA
GBIF

Rubellimicrobium thermophilum DSM 16684 DSM 16684

Rubellimicrobium thermophilum DSM 16684 DSM 16684

Change proposal

Change proposal