Name: Roseovarius lutimaris 112
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 24500

Type strain:

Species: Roseovarius lutimaris

Strain Designation: 112

Culture col. no.: DSM 28463, JCM 17743, KACC 16185

Strain history: C. O. Jeon 112.

NCBI tax ID(s): 1005928 (species)

SI-ID 397735

DSM 28463

Section

Roseovarius lutimaris 112 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from marine tidal flat.

Gram-negative
motile
ovoid-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	*Roseovarius*
	Species	**Roseovarius lutimaris**
	Full Scientific Name (LPSN)	Roseovarius lutimaris Choi et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #31051]	Gram stain	negative

[Ref.: #31051]	Cell length	2.5 µm

[Ref.: #31051]	Cell width	0.6 µm

[Ref.: #31051]	Cell shape	ovoid-shaped

[Ref.: #31051]	Motility	yes

[Ref.: #20782]

Incubation period

2-3 days

[Ref.: #31051]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #20782]

Culture medium

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

[Ref.: #20782]

Culture medium growth

[Ref.: #20782]

Culture medium link

Medium recipe at MediaDive

[Ref.: #20782]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #20782]	growth	25 °C
[Ref.: #31051]	growth	15-40 °C
[Ref.: #31051]	optimum	30 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #20782]	Temperature range	mesophilic
[Ref.: #31051]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #31051]			optimum	7
[Ref.: #31051]			growth	5.0-9.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31051]

Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31051]		NaCl		growth	1.0-6.0	%
[Ref.: #31051]		NaCl		optimum	3	%

[Ref.: #31051]	Observation	aggregates in clumps
[Ref.: #67770]	Observation	quinones: Q-10

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31051]	arabinose ChEBI	+	carbon source
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[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.: #31051]	fructose ChEBI	+	carbon source
[Ref.: #31051]	galactose ChEBI	+	carbon source
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	-	assimilation	* from API 20NE
[Ref.: #31051]	glucose ChEBI	+	carbon source
[Ref.: #68369]	L-arabinose ChEBI	-	assimilation	* from API 20NE
[Ref.: #31051]	lactose ChEBI	+	carbon source
[Ref.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	-	assimilation	* from API 20NE
[Ref.: #31051]	mannitol ChEBI	+	carbon source
[Ref.: #31051]	mannose ChEBI	+	carbon source
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #31051]	nitrate ChEBI	+	reduction
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #31051]	raffinose ChEBI	+	carbon source
[Ref.: #31051]	sorbitol ChEBI	+	carbon source
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #31051]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[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.: #31051]	alkaline phosphatase	+	3.1.3.1
[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.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #20782]	catalase	+	1.11.1.6
[Ref.: #31051]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #31051]	cytochrome oxidase	+	1.9.3.1
[Ref.: #20782]	cytochrome-c 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.: #68382]	naphthol-AS-BI-phosphohydrolase	-		* from API zym
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE
[Ref.: #68382]	valine arylamidase	-		* from API zym
	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.: #20782]	25235	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	+	-	-	not determinedn.d.
[Ref.: #20782]	24003	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+/-	+	-	-	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.: #20782]	14295	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-

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

[Ref.: #20782]	Sample type/isolated from	marine tidal flat
[Ref.: #20782]	Geographic location (country and/or sea, region)	Taean
[Ref.: #20782]	Country	Republic of Korea
[Ref.: #20782]	Country ISO 3 Code	KOR
[Ref.: #20782]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Sediment of a tidal flat at Taean
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Environmental	#Terrestrial	#Tidal flat

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence JF714703 (>99% sequence identity) for Roseovarius lutimaris from Microbeatlas

Aquatic Samples	51
Soil Samples	10
Animal Samples
Plant Samples
Total Samples	61

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

[Ref.: #20782]

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.: #20782]	Roseovarius lutimaris strain 112 16S ribosomal RNA gene, partial sequence	JF714703	1393	ENA	1005928 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Roseovarius lutimaris DSM 28463	GCA_900115165	scaffold	GenBank	1005928 tax ID
[Ref.: #66792]	Roseovarius lutimaris strain DSM 28463	1005928.7	wgs	PATRIC	1005928 tax ID	*
[Ref.: #66792]	Roseovarius lutimaris DSM 28463	2622736530	draft	JGI IMG/M	1005928 tax ID	*

[Ref.: #20782]	GC-content	58.2 mol%
[Ref.: #67770]	GC-content	58.2 mol%	thermal denaturation, midpoint method (Tm)

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Roseovarius lutimaris strain DSM 28463 PATRIC: 1005928.7
[Ref.: #69480]	motile	no	55.23	no
[Ref.: #69480]	flagellated	no	87.957	no
[Ref.: #69480]	gram-positive	no	98.443	yes
[Ref.: #69480]	anaerobic	no	93.843	no
[Ref.: #69480]	aerobic	yes	83.912	yes
[Ref.: #69480]	halophile	yes	77.939	no
[Ref.: #69480]	spore-forming	no	96.115	no
[Ref.: #69480]	thermophile	no	96.224	yes
[Ref.: #69480]	glucose-util	no	52.602	no
[Ref.: #69480]	glucose-ferment	no	90.232	yes

Availability in culture collections External links

[Ref.: #20782]

Culture collection no.

DSM 28463, JCM 17743, KACC 16185

[Ref.: #88358]

SI-ID 397735

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Roseovarius lutimaris sp. nov., isolated from a marine tidal flat.	Choi EJ, Lee HJ, Kim JM, Jeon CO	Int J Syst Evol Microbiol	10.1099/ijs.0.050807-0	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 )

#20782

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 28463

#31051

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 #27381 (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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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) .

#88358

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-ID397735.1 )

#27381

IJSEM 3835 2013 ( DOI 10.1099/ijs.0.050807-0 , PubMed 23687056 )

* These data were automatically processed and therefore are not curated

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Roseovarius lutimaris strain DSM 28463

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