Cereibacter ovatus (JCM 14779, CCUG 55049, JA234)

Name: Cereibacter ovatus (JCM 14779, CCUG 55049, JA234)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 134337

Type strain

Strain Designation JA234

Culture col. no. JCM 14779 CCUG 55049 JA234

NCBI tax ID(s) 439529

Special Collections CCUG JCM Literature strains

Links

Cereibacter ovatus JA234 is a facultative anaerobe, mesophilic, Gram-negative prokaryote that was isolated from freshwater sediment .

Gram-negative ovoid-shaped facultative anaerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 410955

JCM 14779,CCUG 55049

@ref 20215

Last LPSN update 2025-12-16 10:02:01

Domain Pseudomonadati

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodobacterales

Family Paracoccaceae

Genus Cereibacter

Species Cereibacter ovatus

Full scientific name Cereibacter ovatus (Srinivas et al. 2008) Hördt et al. 2020

Synonyms (3)

"Luteovulum ovatum"
Luteovulum ovatum
Rhodobacter ovatus

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility
32521	negative	1.5 µm	1.05 µm	ovoid-shaped
125438	negative

Colony morphology

60437

Incubation period3 days

Pigmentation

32521

Productionyes

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
32521	positive	growth	25-35	mesophilic
32521	positive	optimum	30	mesophilic
60437	positive	growth	30	mesophilic
67770	positive	growth	30	mesophilic

Culture pH

@ref	Ability	Type	PH
32521	positive	optimum	6.75
32521	positive	growth	06-08

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
32521	facultative anaerobe
60437	aerobe

Spore formation

@ref	Spore formation	Confidence
125438		90.7

Halophily

@ref	Salt	Growth	Tested relation	Concentration
32521	NaCl	positive	growth	<1 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
32521	17754 ChEBI	glycerol	+	carbon source
32521	15361 ChEBI	pyruvate	+	carbon source

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	L-lactaldehyde degradation	100	3 of 3
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	octane oxidation	100	3 of 3
66794	palmitate biosynthesis	100	22 of 22
66794	glycogen biosynthesis	100	4 of 4
66794	ppGpp biosynthesis	100	4 of 4
66794	valine metabolism	100	9 of 9
66794	methylglyoxal degradation	100	5 of 5
66794	adipate degradation	100	2 of 2
66794	gluconeogenesis	100	8 of 8
66794	denitrification	100	2 of 2
66794	suberin monomers biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	aminopropanol phosphate biosynthesis	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	formaldehyde oxidation	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	photosynthesis	92.86	13 of 14
66794	Entner Doudoroff pathway	90	9 of 10
66794	threonine metabolism	90	9 of 10
66794	chorismate metabolism	88.89	8 of 9
66794	NAD metabolism	88.89	16 of 18
66794	allantoin degradation	88.89	8 of 9
66794	lipid A biosynthesis	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	leucine metabolism	84.62	11 of 13
66794	vitamin B12 metabolism	82.35	28 of 34
66794	proline metabolism	81.82	9 of 11
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	phenylacetate degradation (aerobic)	80	4 of 5
66794	hydrogen production	80	4 of 5
66794	alanine metabolism	79.31	23 of 29
66794	citric acid cycle	78.57	11 of 14
66794	molybdenum cofactor biosynthesis	77.78	7 of 9
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	purine metabolism	77.66	73 of 94
66794	phenylalanine metabolism	76.92	10 of 13
66794	vitamin B1 metabolism	76.92	10 of 13
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	sulfopterin metabolism	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	acetate fermentation	75	3 of 4
66794	butanoate fermentation	75	3 of 4
66794	peptidoglycan biosynthesis	73.33	11 of 15
66794	pyrimidine metabolism	73.33	33 of 45
66794	heme metabolism	71.43	10 of 14
66794	glutathione metabolism	71.43	10 of 14
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	tetrahydrofolate metabolism	71.43	10 of 14
66794	glutamate and glutamine metabolism	71.43	20 of 28
66794	propanol degradation	71.43	5 of 7
66794	glycolysis	70.59	12 of 17
66794	lysine metabolism	69.05	29 of 42
66794	oxidative phosphorylation	68.13	62 of 91
66794	lipid metabolism	67.74	21 of 31
66794	methane metabolism	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	flavin biosynthesis	66.67	10 of 15
66794	aspartate and asparagine metabolism	66.67	6 of 9
66794	methionine metabolism	65.38	17 of 26
66794	isoprenoid biosynthesis	65.38	17 of 26
66794	pentose phosphate pathway	63.64	7 of 11
66794	vitamin B6 metabolism	63.64	7 of 11
66794	tryptophan metabolism	63.16	24 of 38
66794	non-pathway related	63.16	24 of 38
66794	isoleucine metabolism	62.5	5 of 8
66794	degradation of sugar alcohols	62.5	10 of 16
66794	phosphatidylethanolamine bioynthesis	61.54	8 of 13
66794	chlorophyll metabolism	61.11	11 of 18
66794	glycogen metabolism	60	3 of 5
66794	glycine betaine biosynthesis	60	3 of 5
66794	cellulose degradation	60	3 of 5
66794	propionate fermentation	60	6 of 10
66794	arginine metabolism	58.33	14 of 24
66794	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
66794	tyrosine metabolism	57.14	8 of 14
66794	cysteine metabolism	55.56	10 of 18
66794	d-mannose degradation	55.56	5 of 9
66794	histidine metabolism	55.17	16 of 29
66794	metabolism of disaccharids	54.55	6 of 11
66794	urea cycle	53.85	7 of 13
66794	ethanol fermentation	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	pantothenate biosynthesis	50	3 of 6
66794	selenocysteine biosynthesis	50	3 of 6
66794	coenzyme A metabolism	50	2 of 4
66794	biotin biosynthesis	50	2 of 4
66794	phenylmercury acetate degradation	50	1 of 2
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	ketogluconate metabolism	50	4 of 8
66794	degradation of sugar acids	48	12 of 25
66794	polyamine pathway	47.83	11 of 23
66794	sulfate reduction	46.15	6 of 13
66794	nitrate assimilation	44.44	4 of 9
66794	bile acid biosynthesis, neutral pathway	41.18	7 of 17
66794	starch degradation	40	4 of 10
66794	vitamin K metabolism	40	2 of 5
66794	D-cycloserine biosynthesis	40	2 of 5
66794	factor 420 biosynthesis	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	lipoate biosynthesis	40	2 of 5
66794	degradation of pentoses	39.29	11 of 28
66794	degradation of hexoses	38.89	7 of 18
66794	carnitine metabolism	37.5	3 of 8
66794	androgen and estrogen metabolism	37.5	6 of 16
66794	phenol degradation	35	7 of 20
66794	IAA biosynthesis	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	4-hydroxymandelate degradation	33.33	3 of 9
66794	arachidonic acid metabolism	33.33	6 of 18
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	sulfoquinovose degradation	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	3-phenylpropionate degradation	33.33	5 of 15
66794	coenzyme M biosynthesis	30	3 of 10
66794	4-hydroxyphenylacetate degradation	30	3 of 10
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	ascorbate metabolism	27.27	6 of 22
66794	lactate fermentation	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	alginate biosynthesis	25	1 of 4
66794	toluene degradation	25	1 of 4

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Freshwater
#Environmental	#Aquatic	#Lake (large)
#Environmental	#Aquatic	#Pond (small)
#Environmental	#Aquatic	#River (Creek)

Isolation

@ref	Sample type
32521	freshwater sediment (river, lake, pond)
60437	Water,industrially polluted fresh water pond
67770	Sediment from an industrially polleted pond (Noor Mohammad Kunta) in Hyderabad

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	IMG-taxon 2740891861 annotated assembly for Cereibacter ovatus JA234	scaffold	GCA_900207575	439529.3	2740891861	439529	66.73

Genome browser: GCA_900207575

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
32521	Rhodobacter ovatus partial 16S rRNA gene, type strain JA234T	AM690348	1381		439529

GC content

@ref	GC-content (mol%)
32521	70.06
67770	70.06

Genome-based predictions

Predictions

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Cereibacter ovatus JA234
NCBI: GCA_900207575.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.50	no
125438	anaerobic	anaerobicⓘ	no	74.48	yes
125438	aerobic	aerobicⓘ	yes	59.65	no
125438	spore-forming	spore-formingⓘ	no	90.70	no
125438	thermophilic	thermophileⓘ	no	94.16	no
125438	flagellated	motile2+ⓘ	yes	69.52	no

Literature

Topic	Title	Authors	Journal	DOI	Year
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

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 )
#32521	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 #28740 (see below)
#60437	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 55049
#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 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 )
#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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Cereibacter ovatus (JCM 14779, CCUG 55049, JA234)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Pigmentation

Culture and growth conditions

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_900207575

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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