Rhodovarius lipocyclicus (DSM 15909, CCUG 44693, CIP 108310)

Name: Rhodovarius lipocyclicus (DSM 15909, CCUG 44693, CIP 108310)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 131146

Type strain

Culture col. no. DSM 15909 CCUG 44693 CIP 108310

NCBI tax ID(s) 268410

Special Collections DSMZ CCUG CIP

History <- CCUG; CCUG 44693 2004, CCUG CIP <- 2004, CCUG <- Anonymous

Links

Rhodovarius lipocyclicus DSM 15909 is an aerobe, mesophilic, Gram-negative prokaryote that was isolated from Industrial hygiene control, Rodac medium.

Gram-negative oval-shaped aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 110112

CCUG 44693,CIP 108310,DSM 15909

@ref 20215

Last LPSN update 2026-02-09 11:31:23

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodospirillales

Family Acetobacteraceae

Genus Rhodovarius

Species Rhodovarius lipocyclicus

Full scientific name Rhodovarius lipocyclicus Kämpfer et al. 2004

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility	Confidence
125438	negative			97.833
120618	negative	oval-shaped

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
22438	SABOURAND GLUCOSE MEDIUM (DSMZ Medium 1429)	Medium recipe at MediaDive	Name: SABOURAUD GLUCOSE MEDIUM (DSMZ Medium 1429) Composition: SABOURAUD- Glucose-Bouillon 30.0 g/l Agar 15.0 g/l Distilled water
34318	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
120618	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
22438	positive	growth	28	mesophilic
34318	positive	growth	30	mesophilic
56438	positive	growth	30	mesophilic
120618	positive	growth	30	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
56438	aerobe
120618	obligate aerobe
125439	obligate aerobe	98.3

Halophily

@ref	Salt	Growth	Tested relation	Concentration
120618	NaCl	positive	growth	0 %
120618	NaCl		growth	2 %
120618	NaCl		growth	4 %
120618	NaCl		growth	6 %
120618	NaCl		growth	8 %
120618	NaCl		growth	10 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
120618	17632 ChEBI	nitrate	-	reduction
120618	17632 ChEBI	nitrate	-	respiration
120618	16301 ChEBI	nitrite	-	reduction

Antibiotic resistance

@ref	Metabolite	Is sensitive	Is resistant
120618	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
120618	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
120618	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
120618	amylase	-
68382	beta-galactosidase	-	3.2.1.23	from API zym
120618	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
120618	caseinase	-	3.4.21.50
120618	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
120618	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	-		from API zym
120618	gamma-glutamyltransferase	+	2.3.2.2
120618	gelatinase	-
120618	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
120618	lipase	-
68382	lipase (C 14)	-		from API zym
120618	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
120618	ornithine decarboxylase	-	4.1.1.17
120618	oxidase	-
120618	protease	-
68382	trypsin	-	3.4.21.4	from API zym
120618	tryptophan deaminase	-
120618	tween esterase	-
120618	urease	+	3.5.1.5
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
120618	-	+	+	-	-	+	+	-	-	-	+	+	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Industrial	-
#Engineered	#Laboratory	#Defined media

Isolation

@ref	Sample type	Sampling date	Country	Country ISO 3 Code	Continent	Isolation date
22438	Industrial hygiene control, Rodac medium		Sweden	SWE	Europe
56438	Industrial hygiene control,Rodac medium	2000-11-01	Sweden	SWE	Europe
120618	Environment, Industrial hygiene control, Rodac medium		Sweden	SWE	Europe	2000

Taxonmaps

69479

Global distribution of 16S sequence AJ633644 (>99% sequence identity) for Rhodovarius lipocyclicus subclade from Microbeatlas

Aquatic Samples	2166
Soil Samples	455
Animal Samples	1354
Plant Samples	216
Total Samples	4191

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
22438	1	Risk group (German classification)
120618	1	Risk group (French classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM990076v1 assembly for Rhodovarius lipocyclicus CCUG 44693	contig	GCA_009900765	268410.3	2989124722	268410	55.43

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
22438	Rhodovarius lipocyclicus partial 16S rRNA gene, type strain CCUG 44693T	AJ633644	1458		268410

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Rhodovarius lipocyclicus CCUG 44693
NCBI: GCA_009900765

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	85.80	no
125439	motility	BacteriaNetⓘ	yes	52.10	no
125439	gram_stain	BacteriaNetⓘ	negative	86.70	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.30	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Rhodovarius lipocyclicus strain CCUG 44693
PATRIC: 268410.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.83	no
125438	anaerobic	anaerobicⓘ	no	92.81	no
125438	spore-forming	spore-formingⓘ	no	86.81	no
125438	aerobic	aerobicⓘ	yes	82.80	yes
125438	thermophilic	thermophileⓘ	no	94.97	yes
125438	flagellated	motile2+ⓘ	yes	69.77	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Rhodovarius lipocyclicus gen. nov. sp. nov., a new genus of the alpha-1 subclass of the Proteobacteria.	Kampfer P, Busse HJ, Rossello-Mora R, Kjellin E, Falsen E	Syst Appl Microbiol	10.1078/0723202041748235	2004
Phylogeny	Rhodovarius crocodyli sp. nov., isolated from a crocodile pond.	Chen WM, Xie YR, Sheu DS, Tsai JM, Sheu SY	Int J Syst Evol Microbiol	10.1099/ijsem.0.004396	2020

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 )
#22438	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15909
#34318	; Curators of the CIP;
#56438	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 44693
#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) .
#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 .
#120618	Collection of Institut Pasteur ; Curators of the CIP; CIP 108310
#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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Rhodovarius lipocyclicus (DSM 15909, CCUG 44693, CIP 108310)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Halophily

Metabolite utilization

Antibiotic resistance

Metabolite production

Enzymes

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_009900765

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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