Ruegeria atlantica (DSM 5823, 1480, Rüger)

Name: Ruegeria atlantica (DSM 5823, 1480, Rüger)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13780

Type strain

Strain Designation 1480, Rüger, Rüger, 1480

Culture col. no. DSM 5823 1480 Rüger NBRC 15792 IFO 15792 5 more

NCBI tax ID(s) 81569

Special Collections DSMZ JCM CIP

History <- H.-J. Rüger, 1480 IAM 14463 <-- DSM 5823 <-- H.-J. Rüger 1480. CIP <- 1999, IAM <- DSMZ <- H.J. Rüger: strain 1480

Links

Ruegeria atlantica 1480 is a Gram-negative, rod-shaped bacterium that was isolated from marine upwelling area.

Gram-negative rod-shaped 16S sequence Bacteria

Name and taxonomic classification

SI-ID 368535

ATCC 700000,DSM 5823,IAM 14463,CIP 105975,IFO 15792,CECT 4292,NBRC 15792,KCTC 12424,LMG 23161,NBRC 101135,JCM 21234

@ref 20215

Last LPSN update 2026-02-09 11:21:14

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodobacterales

Family Roseobacteraceae

Genus Ruegeria

Species Ruegeria atlantica

Full scientific name Ruegeria atlantica (Rüger and Höfle 1992) Uchino et al. 1999

Synonyms (1)

Agrobacterium atlanticum

BacDive ID	Other strains from **Ruegeria atlantica** (1)	Type strain
13781	R. atlantica 1513, DSM 5824, JCM 21235, ATCC 700001, IAM ...

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility
116537	negative	rod-shaped

Colony morphology

@ref	Incubation period
2328	2-3 days
116537

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
2328	BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)	Medium recipe at MediaDive	Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
39412	Marine agar (MA)		Distilled water make up to (1000.000 ml);Marine agar (55.100 g)
116537	CIP Medium 13	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
2328	positive	growth	20
39412	positive	growth	22
67770	positive	growth	25
116537	positive	growth	15-30
116537	negative	growth	5
116537	negative	growth	37
116537	negative	growth	41
116537	negative	growth	45

Physiology and metabolism

Halophily

@ref	Salt	Tested relation	Concentration
116537	NaCl	growth	0 %
116537	NaCl	growth	2 %
116537	NaCl	growth	4 %
116537	NaCl	growth	6 %
116537	NaCl	growth	8 %
116537	NaCl	growth	10 %

Observation

67770

Observationquinones: Q-10

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68369	17128 ChEBI	adipate	-	assimilation	from API 20NE
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
68369	17634 ChEBI	D-glucose	-	assimilation	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
68369	16899 ChEBI	D-mannitol	-	assimilation	from API 20NE
68369	16024 ChEBI	D-mannose	-	assimilation	from API 20NE
68369	27689 ChEBI	decanoate	-	assimilation	from API 20NE
116537	4853 ChEBI	esculin	-	hydrolysis
68369	4853 ChEBI	esculin	-	hydrolysis	from API 20NE
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
68369	24265 ChEBI	gluconate	-	assimilation	from API 20NE
116537	17234 ChEBI	glucose	-	degradation
116537	606565 ChEBI	hippurate	+	hydrolysis
68369	30849 ChEBI	L-arabinose	-	assimilation	from API 20NE
68369	25115 ChEBI	malate	-	assimilation	from API 20NE
116537	15792 ChEBI	malonate	-	assimilation
68369	17306 ChEBI	maltose	-	assimilation	from API 20NE
116537	17632 ChEBI	nitrate	+	builds gas from
116537	17632 ChEBI	nitrate	+	reduction
68369	17632 ChEBI	nitrate	+	reduction	from API 20NE
116537	16301 ChEBI	nitrite	+	builds gas from
116537	16301 ChEBI	nitrite	+	reduction
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68369	35581 ChEBI	indole		from API 20NE
116537	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test	Voges-proskauer-test	Methylred-test
116537	15688 ChEBI	acetoin		-
116537	17234 ChEBI	glucose			-
68369	35581 ChEBI	indole	-			from API 20NE

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
116537	alcohol dehydrogenase	-	1.1.1.1
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
116537	amylase	-
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68382	beta-galactosidase	-	3.2.1.23	from API zym
116537	beta-galactosidase	+	3.2.1.23
68382	beta-glucosidase	-	3.2.1.21	from API zym
68369	beta-glucosidase	-	3.2.1.21	from API 20NE
68382	beta-glucuronidase	-	3.2.1.31	from API zym
116537	caseinase	-	3.4.21.50
2328	catalase	+	1.11.1.6
116537	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
2328	cytochrome-c oxidase	+	1.9.3.1
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
116537	gamma-glutamyltransferase	+	2.3.2.2
116537	gelatinase	-
68369	gelatinase	-		from API 20NE
116537	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
116537	lipase	-
68382	lipase (C 14)	-		from API zym
116537	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
116537	ornithine decarboxylase	-	4.1.1.17
116537	oxidase	+
116537	phenylalanine ammonia-lyase	-	4.3.1.24
116537	protease	-
68382	trypsin	-	3.4.21.4	from API zym
116537	tryptophan deaminase	-
116537	tween esterase	-
116537	urease	-	3.5.1.5
68369	urease	-	3.5.1.5	from API 20NE
68382	valine arylamidase	+		from API zym

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
116537	-	+	+	+	-	+	+	-	-	-	+	+	-	-	-	+	-	-	-	-

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
2328	+	-	-	-	-	-	-	+	-	-	-	-	+/-	-	-	-	-	-	-	-	not determinedn.d.

API biotype100

@ref	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
116537	not determinedn.d.	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine

Isolation

@ref	Sample type	Geographic location	Latitude	Longitude	Country
2328	marine upwelling area	Africa NW (21° 24.6' N; 17° 53.6' W)	21.41	-17.8933 21.41/-17.8933
67770	Marine sediments of the eastern Atlantic Ocean
116537	Marine urwelling area				Atlantic Ocean

Taxonmaps

69479

Global distribution of 16S sequence D88526 (>99% sequence identity) for Ruegeria from Microbeatlas

Aquatic Samples	4771
Soil Samples	60
Animal Samples	398
Plant Samples	22
Total Samples	5251

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
2328	1	Risk group (German classification) According to TRBA 466
116537	1	Risk group (French classification) According to TRBA 466

Sequence information

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
2328	Agrobacterium atlanticum gene for 16S rRNA, partial sequence	D88526	1384		81569
67770	Ruegeria atlantica gene for 16S ribosomal RNA, partial sequence	AB255399	1385		81569

GC content

@ref	GC-content (mol%)	Method
67770	55	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Surface colonization by marine roseobacters: integrating genotype and phenotype.	Slightom RN, Buchan A.	Appl Environ Microbiol	10.1128/aem.01508-09	2009
Phylogeny	Cribrihabitans neustonicus sp. nov., isolated from coastal surface seawater, and emended description of the genus Cribrihabitans Chen et al. 2014.	Hameed A, Shahina M, Lin SY, Lai WA, Liu YC, Hsu YH, Young CC	Int J Syst Evol Microbiol	10.1099/ijs.0.066142-0	2014
Phylogeny	Ruegeria pelagia sp. nov., isolated from the Sargasso Sea, Atlantic Ocean.	Lee K, Choo YJ, Giovannoni SJ, Cho JC	Int J Syst Evol Microbiol	10.1099/ijs.0.65032-0	2007
Phylogeny	Reclassification of marine Agrobacterium species: Proposals of Stappia stellulata gen. nov., comb. nov., Stappia aggregata sp. nov., nom. rev., Ruegeria atlantica gen. nov., comb. nov., Ruegeria gelatinovora comb. nov., Ruegeria algicola comb. nov., and Ahrensia kieliense gen. nov., sp. nov., nom. rev.	Uchino Y, Hirata A, Yokota A, Sugiyama J	J Gen Appl Microbiol	10.2323/jgam.44.201	1998
Phylogeny	Marine star-shaped-aggregate-forming bacteria: Agrobacterium atlanticum sp. nov.; Agrobacterium meteori sp. nov.; Agrobacterium ferrugineum sp. nov., nom. rev.; Agrobacterium gelatinovorum sp. nov., nom. rev.; and Agrobacterium stellulatum sp. nov., nom. rev.	Ruger HJ, Hofle MG	Int J Syst Bacteriol	10.1099/00207713-42-1-133	1992

References

#2328	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 5823
#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 )
#39412	; Curators of the CIP;
#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 .
#116537	Collection of Institut Pasteur ; Curators of the CIP; CIP 105975
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Ruegeria atlantica (DSM 5823, 1480, Rüger)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Halophily

Observation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API zym

API 20NE

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

16S sequences

GC content

Genome-based predictions

Literature

Literature

References

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