Name: Roseibaca ekhonensis EL-50
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 13853

Type strain:

Species: Roseibaca ekhonensis

Strain Designation: EL-50

Culture col. no.: DSM 11469, CECT 7235

Strain history: <- P. Hirsch and M. Labrenz, Univ. Kiel, Germany

NCBI tax ID(s): 254356 (species)

SI-ID 364186

CECT 7235, DSM 11469

Section

Roseibaca ekhonensis EL-50 is an aerobe, psychrophilic, Gram-negative bacterium that was isolated from water at a depth of 6m.

Gram-negative
rod-shaped
aerobe
psychrophilic
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	*Paracoccaceae*
	Genus	*Roseibaca*
	Species	**Roseibaca ekhonensis**
	Full Scientific Name (LPSN)	Roseibaca ekhonensis Labrenz et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #29597]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.946

[Ref.: #29597]	Cell length	2.5 µm

[Ref.: #29597]	Cell width	1 µm

[Ref.: #29597]	Cell shape	rod-shaped

[Ref.: #29597]	Motility	no

[Ref.: #29597]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #4379]

Culture medium

EKHO LAKE STRAINS MEDIUM (DSMZ Medium 621a)

[Ref.: #4379]

Culture medium growth

[Ref.: #4379]

Culture medium link

Medium recipe at MediaDive

[Ref.: #4379]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #4379]	growth	20 °C
[Ref.: #29597]	growth	10-30 °C
[Ref.: #29597]	optimum	16 °C

[Ref.: #4379]	Temperature range	psychrophilic
[Ref.: #29597]	Temperature range	psychrophilic

	pH	Kind of pH		pH
[Ref.: #29597]			optimum	8.25

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29597]

Oxygen tolerance

aerobe

[Ref.: #29597]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.978

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29597]		NaCl		growth	0.0-4.0	%
[Ref.: #29597]		NaCl		optimum	2.5	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29597]	2-oxopentanoate ChEBI	+	carbon source
[Ref.: #29597]	acetate ChEBI	+	carbon source
[Ref.: #29597]	alanine ChEBI	+	carbon source
[Ref.: #29597]	asparagine ChEBI	+	carbon source
[Ref.: #29597]	aspartate ChEBI	+	carbon source
[Ref.: #29597]	cellobiose ChEBI	+	carbon source
[Ref.: #29597]	citrate ChEBI	+	carbon source
[Ref.: #29597]	fructose ChEBI	+	carbon source
[Ref.: #29597]	galactose ChEBI	+	carbon source
[Ref.: #29597]	galacturonate ChEBI	+	carbon source
[Ref.: #29597]	glucose ChEBI	+	carbon source
[Ref.: #29597]	glucuronamide ChEBI	+	carbon source
[Ref.: #29597]	glutamate ChEBI	+	carbon source
[Ref.: #29597]	glycerol ChEBI	+	carbon source
[Ref.: #29597]	histidine ChEBI	+	carbon source
[Ref.: #29597]	inosine ChEBI	+	carbon source
[Ref.: #29597]	itaconate ChEBI	+	carbon source
[Ref.: #29597]	L-alaninamide ChEBI	+	carbon source
[Ref.: #29597]	L-arabitol ChEBI	+	carbon source
[Ref.: #29597]	lactose ChEBI	+	carbon source
[Ref.: #29597]	malate ChEBI	+	carbon source
[Ref.: #29597]	malonate ChEBI	+	carbon source
[Ref.: #29597]	maltose ChEBI	+	carbon source
[Ref.: #29597]	mannitol ChEBI	+	carbon source
[Ref.: #29597]	mannose ChEBI	+	carbon source
[Ref.: #29597]	propionate ChEBI	+	carbon source
[Ref.: #29597]	pyruvate ChEBI	+	carbon source
[Ref.: #29597]	quinate ChEBI	+	carbon source
[Ref.: #29597]	rhamnose ChEBI	+	carbon source
[Ref.: #29597]	salicin ChEBI	+	carbon source
[Ref.: #29597]	serine ChEBI	+	carbon source
[Ref.: #29597]	sorbitol ChEBI	+	carbon source
[Ref.: #29597]	succinate ChEBI	+	carbon source
[Ref.: #29597]	sucrose ChEBI	+	carbon source
[Ref.: #29597]	threonine ChEBI	+	carbon source
[Ref.: #29597]	thymidine ChEBI	+	carbon source
[Ref.: #29597]	trehalose ChEBI	+	carbon source
[Ref.: #29597]	tween 40 ChEBI	+	carbon source
[Ref.: #29597]	uridine ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #29597]		catalase	+	1.11.1.6
[Ref.: #29597]		cytochrome oxidase	+	1.9.3.1

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	C4 and CAM-carbon fixation	100	8 of 8
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	ethylmalonyl-CoA pathway	100	5 of 5
[Ref.: #66794]	Entner Doudoroff pathway	100	10 of 10
[Ref.: #66794]	threonine metabolism	100	10 of 10
[Ref.: #66794]	octane oxidation	100	3 of 3
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	hydrogen production	100	5 of 5
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	taurine degradation	100	1 of 1
[Ref.: #66794]	phenylacetate degradation (aerobic)	100	5 of 5
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	sulfopterin metabolism	100	4 of 4
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	vitamin B1 metabolism	92.31	12 of 13
[Ref.: #66794]	phenylalanine metabolism	92.31	12 of 13
[Ref.: #66794]	proline metabolism	90.91	10 of 11
[Ref.: #66794]	valine metabolism	88.89	8 of 9
[Ref.: #66794]	serine metabolism	88.89	8 of 9
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	allantoin degradation	88.89	8 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	88.89	8 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	purine metabolism	85.11	80 of 94
[Ref.: #66794]	pyrimidine metabolism	84.44	38 of 45
[Ref.: #66794]	glycolate and glyoxylate degradation	83.33	5 of 6
[Ref.: #66794]	NAD metabolism	83.33	15 of 18
[Ref.: #66794]	flavin biosynthesis	80	12 of 15
[Ref.: #66794]	methylglyoxal degradation	80	4 of 5
[Ref.: #66794]	metabolism of amino sugars and derivatives	80	4 of 5
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	cellulose degradation	80	4 of 5
[Ref.: #66794]	alanine metabolism	79.31	23 of 29
[Ref.: #66794]	tetrahydrofolate metabolism	78.57	11 of 14
[Ref.: #66794]	citric acid cycle	78.57	11 of 14
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	CO2 fixation in Crenarchaeota	77.78	7 of 9
[Ref.: #66794]	methionine metabolism	76.92	20 of 26
[Ref.: #66794]	glutamate and glutamine metabolism	75	21 of 28
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	butanoate fermentation	75	3 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	lipid metabolism	74.19	23 of 31
[Ref.: #66794]	peptidoglycan biosynthesis	73.33	11 of 15
[Ref.: #66794]	glutathione metabolism	71.43	10 of 14
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	reductive acetyl coenzyme A pathway	71.43	5 of 7
[Ref.: #66794]	glycolysis	70.59	12 of 17
[Ref.: #66794]	myo-inositol biosynthesis	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 sugar acids	68	17 of 25
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	66.67	2 of 3
[Ref.: #66794]	d-mannose degradation	66.67	6 of 9
[Ref.: #66794]	methane metabolism	66.67	2 of 3
[Ref.: #66794]	oxidative phosphorylation	65.93	60 of 91
[Ref.: #66794]	non-pathway related	65.79	25 of 38
[Ref.: #66794]	tryptophan metabolism	65.79	25 of 38
[Ref.: #66794]	isoprenoid biosynthesis	65.38	17 of 26
[Ref.: #66794]	tyrosine metabolism	64.29	9 of 14
[Ref.: #66794]	pentose phosphate pathway	63.64	7 of 11
[Ref.: #66794]	arginine metabolism	62.5	15 of 24
[Ref.: #66794]	isoleucine metabolism	62.5	5 of 8
[Ref.: #66794]	dTDPLrhamnose biosynthesis	62.5	5 of 8
[Ref.: #66794]	lysine metabolism	61.9	26 of 42
[Ref.: #66794]	urea cycle	61.54	8 of 13
[Ref.: #66794]	chlorophyll metabolism	61.11	11 of 18
[Ref.: #66794]	polyamine pathway	60.87	14 of 23
[Ref.: #66794]	propionate fermentation	60	6 of 10
[Ref.: #66794]	histidine metabolism	58.62	17 of 29
[Ref.: #66794]	degradation of pentoses	57.14	16 of 28
[Ref.: #66794]	ubiquinone biosynthesis	57.14	4 of 7
[Ref.: #66794]	degradation of hexoses	55.56	10 of 18
[Ref.: #66794]	cysteine metabolism	55.56	10 of 18
[Ref.: #66794]	metabolism of disaccharids	54.55	6 of 11
[Ref.: #66794]	vitamin B6 metabolism	54.55	6 of 11
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	53.85	7 of 13
[Ref.: #66794]	sulfate reduction	53.85	7 of 13
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	heme metabolism	50	7 of 14
[Ref.: #66794]	selenocysteine biosynthesis	50	3 of 6
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	biotin biosynthesis	50	2 of 4
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	4-hydroxyphenylacetate degradation	50	5 of 10
[Ref.: #66794]	starch degradation	50	5 of 10
[Ref.: #66794]	lactate fermentation	50	2 of 4
[Ref.: #66794]	quinate degradation	50	1 of 2
[Ref.: #66794]	mannosylglycerate biosynthesis	50	1 of 2
[Ref.: #66794]	cyclohexanol degradation	50	2 of 4
[Ref.: #66794]	toluene degradation	50	2 of 4
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	ketogluconate metabolism	50	4 of 8
[Ref.: #66794]	nitrate assimilation	44.44	4 of 9
[Ref.: #66794]	propanol degradation	42.86	3 of 7
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
[Ref.: #66794]	vitamin B12 metabolism	41.18	14 of 34
[Ref.: #66794]	vitamin K metabolism	40	2 of 5
[Ref.: #66794]	creatinine degradation	40	2 of 5
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	gallate degradation	40	2 of 5
[Ref.: #66794]	phenol degradation	40	8 of 20
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	3-chlorocatechol degradation	40	2 of 5
[Ref.: #66794]	coenzyme M biosynthesis	40	4 of 10
[Ref.: #66794]	carnitine metabolism	37.5	3 of 8
[Ref.: #66794]	androgen and estrogen metabolism	37.5	6 of 16
[Ref.: #66794]	carotenoid biosynthesis	36.36	8 of 22
[Ref.: #66794]	d-xylose degradation	36.36	4 of 11
[Ref.: #66794]	ascorbate metabolism	36.36	8 of 22
[Ref.: #66794]	bile acid biosynthesis, neutral pathway	35.29	6 of 17
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	3-phenylpropionate degradation	33.33	5 of 15
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	arachidonic acid metabolism	33.33	6 of 18
[Ref.: #66794]	4-hydroxymandelate degradation	33.33	3 of 9
[Ref.: #66794]	sulfoquinovose degradation	33.33	1 of 3
[Ref.: #66794]	pantothenate biosynthesis	33.33	2 of 6
[Ref.: #66794]	1,4-dihydroxy-6-naphthoate biosynthesis	33.33	2 of 6
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	cyanate degradation	33.33	1 of 3
[Ref.: #66794]	aclacinomycin biosynthesis	28.57	2 of 7
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	alginate biosynthesis	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.: #4379]	Sample type/isolated from	water at a depth of 6m
[Ref.: #4379]	Geographic location (country and/or sea, region)	Vestfold Hills, Ekho Lake
[Ref.: #4379]	Continent	Australia and Oceania
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

What are isolation sources categories?

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

[Ref.: #4379]

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.: #4379]	Roseibaca ekhonensis 16S rRNA gene, strain EL-50	AJ605746	1425	ENA	254356 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Roseibaca ekhonensis CECT 7235	GCA_900499075	contig	GenBank	254356 tax ID	*
[Ref.: #66792]	Roseibaca ekhonensis strain CECT 7235	254356.4	wgs	PATRIC	254356 tax ID	*
[Ref.: #66792]	Roseibaca ekhonensis CECT 7235	2831655652	draft	JGI IMG/M	254356 tax ID	*

[Ref.: #4379]	GC-content	61 mol%	high performance liquid chromatography (HPLC)
[Ref.: #29597]	GC-content	61 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: Roseibaca ekhonensis strain CECT 7235 PATRIC: 254356.4
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Roseibaca ekhonensis strain CECT 7235 PATRIC: 254356.4
[Ref.: #69480]	motile	no	63.42	yes
[Ref.: #69480]	gram-positive	no	98.521	yes
[Ref.: #69480]	anaerobic	no	95.607	yes
[Ref.: #69480]	aerobic	yes	66.019	no
[Ref.: #69480]	halophile	no	50	no
[Ref.: #69480]	spore-forming	no	96.52	yes
[Ref.: #69480]	glucose-util	yes	77.034	no
[Ref.: #69480]	flagellated	no	90.744	yes
[Ref.: #69480]	thermophile	no	93.621	yes
[Ref.: #69480]	glucose-ferment	no	90.452	no

Availability in culture collections External links

[Ref.: #4379]

Culture collection no.

DSM 11469, CECT 7235

[Ref.: #83029]

SI-ID 364186

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Alkalilacustris brevis gen. nov., sp. nov., isolated from a soda lake.	Zhang R, Ju Z, Han S, Hou X, Yu Y, Zhang X, Ye Y, Sun C, Zhang G, Wu M	Int J Syst Evol Microbiol	10.1099/ijsem.0.003373	2019	*
Phylogeny	Roseibaca ekhonensis gen. nov., sp. nov., an alkalitolerant and aerobic bacteriochlorophyll a-producing alphaproteobacterium from hypersaline Ekho Lake.	Labrenz M, Lawson PA, Tindall BJ, Hirsch P	Int J Syst Evol Microbiol	10.1099/ijs.0.016717-0	2009	*

References

#4379

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 11469

#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 )

#29597

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 #25988 (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) .

#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 )

#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 )

#83029

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-ID364186.1 )

#25988

IJSEM 1935 2009 ( DOI 10.1099/ijs.0.016717-0 , PubMed 19567566 )

* These data were automatically processed and therefore are not curated

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Roseibaca ekhonensis strain CECT 7235

Roseibaca ekhonensis strain CECT 7235

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