Name: Roseovarius atlanticus R12B
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 141127

Type strain:

Species: Roseovarius atlanticus

Strain Designation: R12B

Culture col. no.: MCCC 1A09786, KCTC 42506

NCBI tax ID(s): 1641875 (species)

Section

Roseovarius atlanticus R12B is an obligate aerobe, Gram-negative, rod-shaped bacterium that was isolated from surface seawater of the Atlantic Ocean.

Gram-negative
rod-shaped
obligate aerobe
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 atlanticus**
	Full Scientific Name (LPSN)	Roseovarius atlanticus Li et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #44036]	Gram stain	negative

[Ref.: #44036]	Cell length	1.2-1.8 µm

[Ref.: #44036]	Cell width	0.7-0.9 µm

[Ref.: #44036]	Cell shape	rod-shaped

[Ref.: #44036]	Motility	no

[Ref.: #44036]	Colony size	1.0-2.0 mm
[Ref.: #44036]	Colony color	beige
[Ref.: #44036]	Incubation period	2 days
[Ref.: #44036]	Cultivation medium used	marine agar 2216

Information on culture and growth conditions Culture and growth conditions

[Ref.: #44036]

Culture medium

Marine agar (MA)

[Ref.: #44036]

Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #44036]			growth	4-45 °C
[Ref.: #44036]			optimum	25-28 °C

[Ref.: #44036]

Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #44036]			optimum	7
[Ref.: #44036]			growth	4.0-10.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #44036]

Oxygen tolerance

obligate aerobe

[Ref.: #44036]	Type of spore	spore
[Ref.: #44036]	Ability of spore formation	no

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #44036]		NaCl		growth	0.5-15	%
[Ref.: #44036]		NaCl		optimum	3-5	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #44036]	adipate ChEBI	-	assimilation
[Ref.: #44036]	amygdalin ChEBI	-	builds acid from
[Ref.: #44036]	arabinose ChEBI	+	builds acid from
[Ref.: #44036]	citrate ChEBI	-	assimilation
[Ref.: #44036]	D-glucose ChEBI	-	assimilation
[Ref.: #44036]	D-mannitol ChEBI	-	assimilation
[Ref.: #44036]	D-mannose ChEBI	-	assimilation
[Ref.: #44036]	decanoate ChEBI	-	assimilation
[Ref.: #44036]	esculin ChEBI	-	hydrolysis
[Ref.: #44036]	glucose ChEBI	-	builds acid from
[Ref.: #44036]	L-arabinose ChEBI	-	assimilation
[Ref.: #44036]	malate ChEBI	-	assimilation
[Ref.: #44036]	maltose ChEBI	-	assimilation
[Ref.: #44036]	mannitol ChEBI	-	builds acid from
[Ref.: #44036]	melibiose ChEBI	-	builds acid from
[Ref.: #44036]	myo-inositol ChEBI	-	builds acid from
[Ref.: #44036]	N-acetylglucosamine ChEBI	-	assimilation
[Ref.: #44036]	nitrate ChEBI	-	reduction
[Ref.: #44036]	phenylacetate ChEBI	-	assimilation
[Ref.: #44036]	potassium gluconate ChEBI	-	assimilation
[Ref.: #44036]	rhamnose ChEBI	-	builds acid from
[Ref.: #44036]	skimmed milk	-	hydrolysis
[Ref.: #44036]	sodium citrate ChEBI	-	assimilation
[Ref.: #44036]	sorbitol ChEBI	-	builds acid from
[Ref.: #44036]	starch ChEBI	-	hydrolysis
[Ref.: #44036]	sucrose ChEBI	-	builds acid from
[Ref.: #44036]	tween 20 ChEBI	-	hydrolysis
[Ref.: #44036]	tween 40 ChEBI	-	hydrolysis
[Ref.: #44036]	tween 80 ChEBI	-	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Concentration		Antibiotic resistance	Concentration
[Ref.: #44036]	ampicillin ChEBI	yes	10	µg (disc)
[Ref.: #44036]	carbenicillin ChEBI	yes	100	µg (disc)
[Ref.: #44036]	cefazolin ChEBI	yes	30	µg (disc)
[Ref.: #44036]	cefoperazone ChEBI	yes	30	µg (disc)
[Ref.: #44036]	ceftriaxone ChEBI	yes	30	µg (disc)
[Ref.: #44036]	cephradine ChEBI	yes	30	µg (disc)
[Ref.: #44036]	chloramphenicol ChEBI	yes	30	µg (disc)
[Ref.: #44036]	ciprofloxacin ChEBI	yes	5	µg (disc)
[Ref.: #44036]	co-trimoxazole ChEBI				yes	25	µg
[Ref.: #44036]	doxycycline ChEBI				yes	30	µg
[Ref.: #44036]	erythromycin ChEBI				yes	15	µg
[Ref.: #44036]	furazolidone ChEBI				yes	15	µg (disc)
[Ref.: #44036]	gentamicin ChEBI	yes	10	µg (disc)
[Ref.: #44036]	kanamycin ChEBI	yes	30	µg (disc)
[Ref.: #44036]	lincomycin ChEBI				yes	2	µg
[Ref.: #44036]	metronidazole ChEBI				yes	5	µg
[Ref.: #44036]	minocycline ChEBI				yes	30	µg
[Ref.: #44036]	neomycin ChEBI				yes	10	µg (disc)
[Ref.: #44036]	norfloxacin ChEBI	yes	10	µg (disc)
[Ref.: #44036]	ofloxacin ChEBI	yes	5	µg (disc)
[Ref.: #44036]	oxacillin ChEBI				yes	1	µg
[Ref.: #44036]	penicillin g ChEBI	yes	10	µg (disc)
[Ref.: #44036]	piperacillin ChEBI	yes	100	µg (disc)
[Ref.: #44036]	rifampicin ChEBI	yes	5	µg (disc)
[Ref.: #44036]	streptomycin ChEBI	yes	10	µg (disc)
[Ref.: #44036]	tetracycline ChEBI				yes	30	µg
[Ref.: #44036]	vancomycin ChEBI	yes	30	µg (disc)
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #44036]	acetoin ChEBI	yes
[Ref.: #44036]	hydrogen sulfide ChEBI	no
[Ref.: #44036]	indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test
[Ref.: #44036]		acetoin ChEBI	+

	Enzyme	Enzyme activity	EC number
[Ref.: #44036]	acid phosphatase	+/-	3.1.3.2
[Ref.: #44036]	alkaline phosphatase	+	3.1.3.1
[Ref.: #44036]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #44036]	alpha-fucosidase	-	3.2.1.51
[Ref.: #44036]	alpha-galactosidase	-	3.2.1.22
[Ref.: #44036]	alpha-glucosidase	-	3.2.1.20
[Ref.: #44036]	alpha-mannosidase	-	3.2.1.24
[Ref.: #44036]	arginine dihydrolase	-	3.5.3.6
[Ref.: #44036]	beta-galactosidase	-	3.2.1.23
[Ref.: #44036]	beta-glucosidase	-	3.2.1.21
[Ref.: #44036]	beta-glucuronidase	-	3.2.1.31
[Ref.: #44036]	catalase	+/-	1.11.1.6
[Ref.: #44036]	cystine aminopeptidase	-	3.4.11.3
[Ref.: #44036]	cytochrome oxidase	+	1.9.3.1
[Ref.: #44036]	esterase (C 4)	+
[Ref.: #44036]	esterase Lipase (C 8)	+
[Ref.: #44036]	gelatinase	-
[Ref.: #44036]	leucine aminopeptidase	+	3.4.1.1
[Ref.: #44036]	lipase (C 14)	+/-
[Ref.: #44036]	lysine decarboxylase	-	4.1.1.18
[Ref.: #44036]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #44036]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #44036]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #44036]	trypsin	-	3.4.21.4
[Ref.: #44036]	tryptophan deaminase	-	4.1.99.1
[Ref.: #44036]	urease	-	3.5.1.5
[Ref.: #44036]	valine aminopeptidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #44036]

Fatty acid	Percentage
C18:1ω7c / C18:1ω6c	62.3
C16:0	15.7
C12:0	4
C18:0	3.4
C12:0 3OH	3.2
C18:1ω9c	2.2
11-methyl C18:1ω7c	1.6
C16:0 2OH	1

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	molybdenum cofactor biosynthesis	100	9 of 9
[Ref.: #66794]	C4 and CAM-carbon fixation	100	8 of 8
[Ref.: #66794]	cyanate degradation	100	3 of 3
[Ref.: #66794]	valine metabolism	100	9 of 9
[Ref.: #66794]	CMP-KDO biosynthesis	100	4 of 4
[Ref.: #66794]	octane oxidation	100	3 of 3
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	ethanol fermentation	100	2 of 2
[Ref.: #66794]	glycine betaine biosynthesis	100	5 of 5
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	ethylmalonyl-CoA pathway	100	5 of 5
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	denitrification	100	2 of 2
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	IAA biosynthesis	100	3 of 3
[Ref.: #66794]	lactate fermentation	100	4 of 4
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	butanoate fermentation	100	4 of 4
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	proline metabolism	90.91	10 of 11
[Ref.: #66794]	threonine metabolism	90	9 of 10
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	CO2 fixation in Crenarchaeota	88.89	8 of 9
[Ref.: #66794]	serine metabolism	88.89	8 of 9
[Ref.: #66794]	vitamin B12 metabolism	88.24	30 of 34
[Ref.: #66794]	gluconeogenesis	87.5	7 of 8
[Ref.: #66794]	flavin biosynthesis	86.67	13 of 15
[Ref.: #66794]	propanol degradation	85.71	6 of 7
[Ref.: #66794]	citric acid cycle	85.71	12 of 14
[Ref.: #66794]	photosynthesis	85.71	12 of 14
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	leucine metabolism	84.62	11 of 13
[Ref.: #66794]	phenylalanine metabolism	84.62	11 of 13
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	83.33	10 of 12
[Ref.: #66794]	glycolate and glyoxylate degradation	83.33	5 of 6
[Ref.: #66794]	purine metabolism	82.98	78 of 94
[Ref.: #66794]	glutamate and glutamine metabolism	82.14	23 of 28
[Ref.: #66794]	pentose phosphate pathway	81.82	9 of 11
[Ref.: #66794]	propionate fermentation	80	8 of 10
[Ref.: #66794]	vitamin K metabolism	80	4 of 5
[Ref.: #66794]	phenylacetate degradation (aerobic)	80	4 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	pyrimidine metabolism	80	36 of 45
[Ref.: #66794]	alanine metabolism	79.31	23 of 29
[Ref.: #66794]	arginine metabolism	79.17	19 of 24
[Ref.: #66794]	heme metabolism	78.57	11 of 14
[Ref.: #66794]	tetrahydrofolate metabolism	78.57	11 of 14
[Ref.: #66794]	d-mannose degradation	77.78	7 of 9
[Ref.: #66794]	NAD metabolism	77.78	14 of 18
[Ref.: #66794]	vitamin B1 metabolism	76.92	10 of 13
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	cyclohexanol degradation	75	3 of 4
[Ref.: #66794]	biotin biosynthesis	75	3 of 4
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	histidine metabolism	72.41	21 of 29
[Ref.: #66794]	cysteine metabolism	72.22	13 of 18
[Ref.: #66794]	glutathione metabolism	71.43	10 of 14
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	ubiquinone biosynthesis	71.43	5 of 7
[Ref.: #66794]	methionine metabolism	69.23	18 of 26
[Ref.: #66794]	sulfate reduction	69.23	9 of 13
[Ref.: #66794]	lysine metabolism	69.05	29 of 42
[Ref.: #66794]	methane metabolism	66.67	2 of 3
[Ref.: #66794]	aspartate and asparagine metabolism	66.67	6 of 9
[Ref.: #66794]	acetyl CoA biosynthesis	66.67	2 of 3
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	enterobactin biosynthesis	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]	isoprenoid biosynthesis	65.38	17 of 26
[Ref.: #66794]	glycolysis	64.71	11 of 17
[Ref.: #66794]	lipid metabolism	64.52	20 of 31
[Ref.: #66794]	vitamin B6 metabolism	63.64	7 of 11
[Ref.: #66794]	tryptophan metabolism	63.16	24 of 38
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
[Ref.: #66794]	dTDPLrhamnose biosynthesis	62.5	5 of 8
[Ref.: #66794]	ketogluconate metabolism	62.5	5 of 8
[Ref.: #66794]	degradation of sugar alcohols	62.5	10 of 16
[Ref.: #66794]	chlorophyll metabolism	61.11	11 of 18
[Ref.: #66794]	3-chlorocatechol degradation	60	3 of 5
[Ref.: #66794]	creatinine degradation	60	3 of 5
[Ref.: #66794]	gallate degradation	60	3 of 5
[Ref.: #66794]	elloramycin biosynthesis	60	3 of 5
[Ref.: #66794]	coenzyme M biosynthesis	60	6 of 10
[Ref.: #66794]	Entner Doudoroff pathway	60	6 of 10
[Ref.: #66794]	hydrogen production	60	3 of 5
[Ref.: #66794]	4-hydroxymandelate degradation	55.56	5 of 9
[Ref.: #66794]	phenol degradation	55	11 of 20
[Ref.: #66794]	urea cycle	53.85	7 of 13
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	mannosylglycerate biosynthesis	50	1 of 2
[Ref.: #66794]	tyrosine metabolism	50	7 of 14
[Ref.: #66794]	glycogen biosynthesis	50	2 of 4
[Ref.: #66794]	degradation of sugar acids	48	12 of 25
[Ref.: #66794]	arachidonic acid metabolism	44.44	8 of 18
[Ref.: #66794]	nitrate assimilation	44.44	4 of 9
[Ref.: #66794]	androgen and estrogen metabolism	43.75	7 of 16
[Ref.: #66794]	benzoyl-CoA degradation	42.86	3 of 7
[Ref.: #66794]	glycogen metabolism	40	2 of 5
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	bacilysin biosynthesis	40	2 of 5
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	3-phenylpropionate degradation	40	6 of 15
[Ref.: #66794]	myo-inositol biosynthesis	40	4 of 10
[Ref.: #66794]	degradation of pentoses	39.29	11 of 28
[Ref.: #66794]	carnitine metabolism	37.5	3 of 8
[Ref.: #66794]	ascorbate metabolism	36.36	8 of 22
[Ref.: #66794]	carotenoid biosynthesis	36.36	8 of 22
[Ref.: #66794]	degradation of hexoses	33.33	6 of 18
[Ref.: #66794]	sulfoquinovose degradation	33.33	1 of 3
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	allantoin degradation	33.33	3 of 9
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	4-hydroxyphenylacetate degradation	30	3 of 10
[Ref.: #66794]	bile acid biosynthesis, neutral pathway	29.41	5 of 17
[Ref.: #66794]	aclacinomycin biosynthesis	28.57	2 of 7
[Ref.: #66794]	mevalonate metabolism	28.57	2 of 7
[Ref.: #66794]	metabolism of disaccharids	27.27	3 of 11
[Ref.: #66794]	d-xylose degradation	27.27	3 of 11
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	alginate biosynthesis	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	phenylpropanoid biosynthesis	23.08	3 of 13
[Ref.: #66794]	polyamine pathway	21.74	5 of 23
		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.: #44036]	Sample type/isolated from	surface seawater of the Atlantic Ocean
[Ref.: #44036]	Sampling date	2011
[Ref.: #44036]	Geographic location (country and/or sea, region)	26III-S024-CTD06, South Atlantic Ocean
[Ref.: #44036]	Geographic location	-15.2000°/-13.3000°
[Ref.: #44036]	Enrichment culture	marine agar 2216 (BD Difco)
[Ref.: #44036]	Enrichment culture duration	1 week
[Ref.: #44036]	Enrichment culture temperature	25 ̊C
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Surface water

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KR095198 (>99% sequence identity) for Roseovarius atlanticus from Microbeatlas

Aquatic Samples	469
Soil Samples	44
Animal Samples	73
Plant Samples	10
Total Samples	596

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.: #44036]	16S rRNA gene sequence	KR095198		GenBank

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Roseovarius atlanticus R12B	GCA_001441615	contig	GenBank	1641875 tax ID	*
[Ref.: #66792]	Roseovarius atlanticus R12b	2791355032	draft	JGI IMG/M	1641875 tax ID	*

[Ref.: #44036]

GC-content

63.6 mol%

genome sequence analysis

Availability in culture collections External links

[Ref.: #44036]

Culture collection no.

MCCC 1A09786, KCTC 42506

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Roseovarius atlanticus sp. nov., isolated from surface seawater.	Li G, Lai Q, Dong C, Ma R, Du Y, Liu X, Sun F, Shao Z, Yan P	Int J Syst Evol Microbiol	10.1099/ijsem.0.000768	2015	*

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 )

#44036

Guizhen Li, Qiliang Lai, Chunming Dong, Rui Ma, Yaping Du, Xiupian Liu, Fengqin Sun, Zongze Shao and Peisheng Yan: Roseovarius atlanticus sp. nov., isolated from surface seawater. IJSEM 66: 639 - 644 2016 ( DOI 10.1099/ijsem.0.000768 , PubMed 26559784 )

#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 )

#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 .

* 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 Roseovarius atlanticus in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF