Roseivivax halotolerans (DSM 15490, ATCC 700842, CIP 105984)

Name: Roseivivax halotolerans (DSM 15490, ATCC 700842, CIP 105984)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13758

Type strain

Culture col. no. DSM 15490 ATCC 700842 CIP 105984 IFO 16686 JCM 10271 3 more

NCBI tax ID(s) 93684

Special Collections DSMZ JCM CIP

History <- JCM <- Y. Nishimura <- T. Shiba; OCh 210 Y. Nishimura <-- T. Shiba OCh 210. CIP <- 1999, Y. Nishimura, Tokyo Univ., Tokyo, Japan: strain Och 210 <- Shiba

Links

Roseivivax halotolerans DSM 15490 is a Gram-negative, rod-shaped bacterium that was isolated from epiphytes on the stromatolites of a saline lake.

Gram-negative rod-shaped genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 46979

ATCC 700842,JCM 10271,CIP 105984,NCIMB 13591,IFO 16686,NBRC 16686,DSM 15490

@ref 20215

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

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodobacterales

Family Roseobacteraceae

Genus Roseivivax

Species Roseivivax halotolerans

Full scientific name Roseivivax halotolerans Suzuki et al. 1999

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
119829	negative	rod-shaped
125438	negative		99
125439	negative		98.8

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
5954	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
5954	PPES-II AGAR MEDIUM (DSMZ Medium 1075)	Medium recipe at MediaDive	Name: PPES-II AGAR MEDIUM (DSMZ Medium 1075) Composition: NaCl 30.0 g/l Agar 15.0 g/l MgCl2 x 6 H2O 10.8 g/l MgSO4 x 7 H2O 5.4 g/l Peptone 2.0 g/l Proteose peptone no. 3 1.0 g/l Soytone 1.0 g/l Yeast extract 1.0 g/l CaCl2 x 2 H2O 1.0 g/l KCl 0.7 g/l Fe(III)-EDTA 0.1 g/l Distilled water
40257	Marine agar (MA)		Distilled water make up to (1000.000 ml);Marine agar (55.100 g)
119829	CIP Medium 13	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
5954	positive	growth	30
5954	positive	growth	28
40257	positive	growth	30
67770	positive	growth	27
119829	positive	growth	15-41
119829	negative	growth	5
119829	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	90.8

Spore formation

@ref	Spore formation	Confidence
125439		97.8

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
119829	4853 ChEBI	esculin	+	hydrolysis
119829	17234 ChEBI	glucose	-	degradation
119829	606565 ChEBI	hippurate	-	hydrolysis
119829	17632 ChEBI	nitrate	-	builds gas from
119829	17632 ChEBI	nitrate	-	reduction
119829	16301 ChEBI	nitrite	-	builds gas from
119829	16301 ChEBI	nitrite	-	reduction

Metabolite production

@ref	Chebi-ID	Metabolite	Production
119829	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
119829	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
119829	amylase	-
68382	beta-galactosidase	-	3.2.1.23	from API zym
119829	beta-galactosidase	+	3.2.1.23
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
119829	caseinase	+	3.4.21.50
119829	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
119829	gamma-glutamyltransferase	-	2.3.2.2
119829	gelatinase	+
119829	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
119829	lipase	-
68382	lipase (C 14)	-		from API zym
119829	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
119829	ornithine decarboxylase	-	4.1.1.17
119829	oxidase	+
119829	phenylalanine ammonia-lyase	+	4.3.1.24
119829	protease	+
68382	trypsin	-	3.4.21.4	from API zym
119829	tryptophan deaminase	-
119829	tween esterase	-
119829	urease	+	3.5.1.5
68382	valine arylamidase	-		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	gluconeogenesis	100	8 of 8
66794	glycogen biosynthesis	100	4 of 4
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	coenzyme A metabolism	100	4 of 4
66794	palmitate biosynthesis	100	22 of 22
66794	octane oxidation	100	3 of 3
66794	formaldehyde oxidation	100	3 of 3
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	ethylmalonyl-CoA pathway	100	5 of 5
66794	L-lactaldehyde degradation	100	3 of 3
66794	adipate degradation	100	2 of 2
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	sulfopterin metabolism	100	4 of 4
66794	CMP-KDO biosynthesis	100	4 of 4
66794	suberin monomers biosynthesis	100	2 of 2
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	methylglyoxal degradation	100	5 of 5
66794	valine metabolism	100	9 of 9
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	ppGpp biosynthesis	100	4 of 4
66794	resorcinol degradation	100	2 of 2
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	denitrification	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	Entner Doudoroff pathway	90	9 of 10
66794	allantoin degradation	88.89	8 of 9
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	vitamin B1 metabolism	84.62	11 of 13
66794	phenylalanine metabolism	84.62	11 of 13
66794	flavin biosynthesis	80	12 of 15
66794	threonine metabolism	80	8 of 10
66794	peptidoglycan biosynthesis	80	12 of 15
66794	glycogen metabolism	80	4 of 5
66794	propionate fermentation	80	8 of 10
66794	cellulose degradation	80	4 of 5
66794	vitamin B12 metabolism	79.41	27 of 34
66794	glutamate and glutamine metabolism	78.57	22 of 28
66794	photosynthesis	78.57	11 of 14
66794	citric acid cycle	78.57	11 of 14
66794	heme metabolism	78.57	11 of 14
66794	lipid A biosynthesis	77.78	7 of 9
66794	NAD metabolism	77.78	14 of 18
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	aspartate and asparagine metabolism	77.78	7 of 9
66794	4-hydroxymandelate degradation	77.78	7 of 9
66794	leucine metabolism	76.92	10 of 13
66794	purine metabolism	76.6	72 of 94
66794	alanine metabolism	75.86	22 of 29
66794	pyrimidine metabolism	75.56	34 of 45
66794	cyclohexanol degradation	75	3 of 4
66794	butanoate fermentation	75	3 of 4
66794	isoleucine metabolism	75	6 of 8
66794	acetate fermentation	75	3 of 4
66794	dTDPLrhamnose biosynthesis	75	6 of 8
66794	arginine metabolism	75	18 of 24
66794	lipid metabolism	74.19	23 of 31
66794	proline metabolism	72.73	8 of 11
66794	vitamin B6 metabolism	72.73	8 of 11
66794	tyrosine metabolism	71.43	10 of 14
66794	propanol degradation	71.43	5 of 7
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	ubiquinone biosynthesis	71.43	5 of 7
66794	glutathione metabolism	71.43	10 of 14
66794	oxidative phosphorylation	69.23	63 of 91
66794	methionine metabolism	69.23	18 of 26
66794	degradation of sugar alcohols	68.75	11 of 16
66794	tryptophan metabolism	68.42	26 of 38
66794	non-pathway related	68.42	26 of 38
66794	acetoin degradation	66.67	2 of 3
66794	cyanate degradation	66.67	2 of 3
66794	methane metabolism	66.67	2 of 3
66794	d-mannose degradation	66.67	6 of 9
66794	glycolysis	64.71	11 of 17
66794	pentose phosphate pathway	63.64	7 of 11
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	ketogluconate metabolism	62.5	5 of 8
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	urea cycle	61.54	8 of 13
66794	polyamine pathway	60.87	14 of 23
66794	phenol degradation	60	12 of 20
66794	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
66794	tetrahydrofolate metabolism	57.14	8 of 14
66794	cysteine metabolism	55.56	10 of 18
66794	histidine metabolism	55.17	16 of 29
66794	degradation of pentoses	53.57	15 of 28
66794	3-phenylpropionate degradation	53.33	8 of 15
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	lysine metabolism	50	21 of 42
66794	toluene degradation	50	2 of 4
66794	chlorophyll metabolism	50	9 of 18
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	phenylmercury acetate degradation	50	1 of 2
66794	biotin biosynthesis	50	2 of 4
66794	glycine metabolism	50	5 of 10
66794	ethanol fermentation	50	1 of 2
66794	quinate degradation	50	1 of 2
66794	selenocysteine biosynthesis	50	3 of 6
66794	ascorbate metabolism	45.45	10 of 22
66794	d-xylose degradation	45.45	5 of 11
66794	metabolism of disaccharids	45.45	5 of 11
66794	androgen and estrogen metabolism	43.75	7 of 16
66794	3-chlorocatechol degradation	40	2 of 5
66794	glycine betaine biosynthesis	40	2 of 5
66794	metabolism of amino sugars and derivatives	40	2 of 5
66794	hydrogen production	40	2 of 5
66794	myo-inositol biosynthesis	40	4 of 10
66794	coenzyme M biosynthesis	40	4 of 10
66794	arachidonate biosynthesis	40	2 of 5
66794	lipoate biosynthesis	40	2 of 5
66794	starch degradation	40	4 of 10
66794	sulfate reduction	38.46	5 of 13
66794	bile acid biosynthesis, neutral pathway	35.29	6 of 17
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	IAA biosynthesis	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	sulfoquinovose degradation	33.33	1 of 3
66794	nitrate assimilation	33.33	3 of 9
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	mevalonate metabolism	28.57	2 of 7
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	degradation of sugar acids	28	7 of 25
66794	degradation of hexoses	27.78	5 of 18
66794	cholesterol biosynthesis	27.27	3 of 11
66794	lactate fermentation	25	1 of 4
66794	carnitine metabolism	25	2 of 8
66794	alginate biosynthesis	25	1 of 4
66794	phosphatidylethanolamine bioynthesis	23.08	3 of 13
66794	daunorubicin biosynthesis	22.22	2 of 9
66794	arachidonic acid metabolism	22.22	4 of 18

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
119829	-	+	+	+	-	+	-	-	-	-	+	+	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Lake (large)
#Host	#Other	#Epibiont
#Condition	#Saline	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
5954	epiphytes on the stromatolites of a saline lake	Lake Clifton	Australia	AUS	Australia and Oceania
67770	Epiphytes on the stromatolites
119829	Charophyte	Clifton lake	Australia	AUS	Australia and Oceania

Taxonmaps

69479

Global distribution of 16S sequence DQ915622 (>99% sequence identity) for Roseivivax halotolerans subclade from Microbeatlas

Aquatic Samples	310
Soil Samples	72
Animal Samples	37
Plant Samples	2
Total Samples	421

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
5954	1	Risk group (German classification) According to TRBA 466
119829	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	IMG-taxon 2675903164 annotated assembly for Roseivivax halotolerans JCM 10271	contig	GCA_900115815	93684.8	2675903164	93684	70.07

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Roseivivax halotolerans strain NBRC16686 16S ribosomal RNA gene, partial sequence	DQ915622	1307		93684
5954	Roseivivax halotolerans gene for 16S rRNA, strain: OCh 210	D85831	1372		93684

GC content

@ref	GC-content (mol%)	Method
5954	59.7
67770	59.7	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Roseivivax halotolerans JCM 10271
NCBI: GCA_900115815

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	97.80	no
125439	motility	BacteriaNetⓘ	no	52.00	no
125439	gram_stain	BacteriaNetⓘ	negative	98.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	90.80	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Roseivivax halotolerans strain JCM 10271
PATRIC: 93684.8

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.00	no
125438	anaerobic	anaerobicⓘ	no	92.61	no
125438	aerobic	aerobicⓘ	yes	81.04	no
125438	spore-forming	spore-formingⓘ	no	89.28	no
125438	thermophilic	thermophileⓘ	no	93.62	yes
125438	flagellated	motile2+ⓘ	no	63.55	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Osmotic Adaptation and Compatible Solute Biosynthesis of Phototrophic Bacteria as Revealed from Genome Analyses.	Imhoff JF, Rahn T, Kunzel S, Keller A, Neulinger SC.	Microorganisms	10.3390/microorganisms9010046	2020
Metabolism	Time-resolved comparative molecular evolution of oxygenic photosynthesis.	Oliver T, Sanchez-Baracaldo P, Larkum AW, Rutherford AW, Cardona T.	Biochim Biophys Acta Bioenerg	10.1016/j.bbabio.2021.148400	2021
Genetics	Analysis of 1,000+ Type-Strain Genomes Substantially Improves Taxonomic Classification of Alphaproteobacteria.	Hordt A, Lopez MG, Meier-Kolthoff JP, Schleuning M, Weinhold LM, Tindall BJ, Gronow S, Kyrpides NC, Woyke T, Goker M.	Front Microbiol	10.3389/fmicb.2020.00468	2020
Phylogeny	Roseivivax isoporae sp. nov., isolated from a reef-building coral, and emended description of the genus Roseivivax.	Chen MH, Sheu SY, Chen CA, Wang JT, Chen WM.	Int J Syst Evol Microbiol	10.1099/ijs.0.032961-0	2012
Phylogeny	Roseivivax sediminis sp. nov., a moderately halophilic bacterium isolated from salt mine sediment.	Xiao W, Wang YX, Liu JH, Wang ZG, Zhang XX, Ji KY, Lai YH, Wen ML, Cui XL.	Int J Syst Evol Microbiol	10.1099/ijs.0.037119-0	2012
Metabolism	Palleronia marisminoris gen. nov., sp. nov., a moderately halophilic, exopolysaccharide-producing bacterium belonging to the 'Alphaproteobacteria', isolated from a saline soil.	Martinez-Checa F, Quesada E, Martinez-Canovas MJ, Llamas I, Bejar V.	Int J Syst Evol Microbiol	10.1099/ijs.0.63906-0	2005
Phylogeny	Salipiger mucescens gen. nov., sp. nov., a moderately halophilic, exopolysaccharide-producing bacterium isolated from hypersaline soil, belonging to the alpha-Proteobacteria.	Martinez-Canovas MJ, Quesada E, Martinez-Checa F, Moral AD, Bejar V.	Int J Syst Evol Microbiol	10.1099/ijs.0.63166-0	2004
Phylogeny	Roseivivax halodurans gen. nov., sp. nov. and Roseivivax halotolerans sp. nov., aerobic bacteriochlorophyll-containing bacteria isolated from a saline lake.	Suzuki T, Muroga Y, Takahama M, Nishimura Y	Int J Syst Bacteriol	10.1099/00207713-49-2-629	1999

References

#5954	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15490
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#40257	; Curators of the CIP;
#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 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 .
#119829	Collection of Institut Pasteur ; Curators of the CIP; CIP 105984
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#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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Roseivivax halotolerans (DSM 15490, ATCC 700842, CIP 105984)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Metabolite utilization

Metabolite production

Enzymes

Pathway annotation

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900115815

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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